PaperBLAST
PaperBLAST Hits for tr|Q8EGS2|Q8EGS2_SHEON L-lactate permease OS=Shewanella oneidensis (strain ATCC 700550 / JCM 31522 / CIP 106686 / LMG 19005 / NCIMB 14063 / MR-1) OX=211586 GN=SO_1522 PE=3 SV=1 (547 a.a., MTILQLFASL...)
Show query sequence
>tr|Q8EGS2|Q8EGS2_SHEON L-lactate permease OS=Shewanella oneidensis (strain ATCC 700550 / JCM 31522 / CIP 106686 / LMG 19005 / NCIMB 14063 / MR-1) OX=211586 GN=SO_1522 PE=3 SV=1
MTILQLFASLTPVLSVMIFLVLLRMPASKAMPISMVVTAIAAVFIWQMDTTLLAASVVEG
LLSAITPLTIIFGAVFLLNTLKYSGAMDTIRAGFTNISADARVQVIIICWLFGAFIEGSA
GFGTPAAIGAPLLVLLGVPPVAAAVVALIADSACVSFGAIGLPVLFGMEQGLIQGGVSMA
AEQFAAHGGTYAGYARYIVMHMITIDLITGTLIPLVMVTMLTGFFGRNKSFKEGLAIWKF
AIFSGLAFTVPAWIINYLAGPEFPSVIGALIGMAMVIPVARKGYLLPKTPWNDFAENDNQ
DGVKLETTAKFSQIAAWTPYIIMAALLVLSRTVAPLKAWLSGFNINWTGLLGTELKASFA
TLYAPGAFFVAVCILGFFLFKMKSPAIKQSIGVSCKSMLPTIISLGASVPMVKIFLNSGA
NGAGLASMPVALADMLASSMGAVWAWMAPIVGIFGAFLSGSATFSNMMFSSLQYSVADNI
GMNHTLVLALQGIGANAGNMMCVMNVVAAATVVGMAGRESEIIRKTMPVAIGYALLAGTI
ATLWGGF
Running BLASTp...
Found 103 similar proteins in the literature:
SO1522 D,L-lactate/pyruvate symporter LctP2 from Shewanella oneidensis MR-1
SO1522 L-lactate permease, putative from Shewanella oneidensis MR-1
SO_1522 L-lactate permease from Shewanella oneidensis MR-1
100% identity, 100% coverage
- mutant phenotype: Important for utilization of L-lactate, D,L-lactate, or pyruvate. Has phenotypes in many nitrogen source experiments with D,L-lactate as the carbon source. Also see PMID:28285200 for evidence that LctP2 transports D-lactate.
- Modular Engineering Strategy to Redirect Electron Flux into the Electron-Transfer Chain for Enhancing Extracellular Electron Transfer in Shewanella oneidensis
Ding, ACS synthetic biology 2023 (PubMed)- “...into the electron transfer chain in Shewanella oneidensis MR-1. Among them, four genes include gene SO1522 encoding a lactate transporter for broadening the sources of the intracellular electron pool, gene gapA encoding a glyceraldehyde-3-phosphate dehydrogenase and gene mdh encoding a malate dehydrogenase in the central carbon...”
- Enhanced photocurrent production by the synergy of hematite nanowire-arrayed photoanode and bioengineered Shewanella oneidensis MR-1
Zhu, Biosensors & bioelectronics 2017 (PubMed)- “...the supply of bioelectrons, the D-lactate transporter, SO1522, was overexpressed in the recombinant S. oneidensis (T-SO1522) that could digest D-lactate 61%...”
- “...bioelectrons, the <ce:small-caps>D</ce:small-caps>-lactate transporter, SO1522, was overexpressed in the recombinant <ce:italic>S. oneidensis</ce:italic>...”
- Shewanella oneidensis MR-1 sensory box protein involved in aerobic and anoxic growth
Sundararajan, Applied and environmental microbiology 2011 - “...(bfd) SO0768 SO1329 (cyaA) SO1427 SO1519 SO1520 SO1521 SO1522 SO1927 (sdhC) SO1928 (sdhA) SO1929 (sdhB) SO1930 (sucA) SO1931 (sucB) SO1932 (sucC) SO2097 (hydC)...”
- Fnr (EtrA) acts as a fine-tuning regulator of anaerobic metabolism in Shewanella oneidensis MR-1
Cruz-García, BMC microbiology 2011 - “...receptors ( nosA [SO0630]), and L-lactate permease ( lldP [SO0827]) and a putative lactate permease (SO1522). The only gene directly down-regulated from this later group is lldP (SO0827), for which an EtrA binding site was predicted (Table 3 ). As expected, the cDNA for etrA ,...”
- Snapshot of iron response in Shewanella oneidensis by gene network reconstruction
Yang, BMC genomics 2009 - “...regulator, TetR family 1.05 0.88 0.57 0.04 0.05 -- -- -- -- -- -- -- SO1522 L-lactate permease, integral IM protein 1.08 0.95 0.70 0.18 0.24 0.15 2.13 3.43 3.33 5.55 4.03 4.27 SO1777 periplasmic decaheme cytochrome c, Fe(III) and Mn(IV) reduction (MtrA) 0.97 -- --...”
- Investigation of a spontaneous mutant reveals novel features of iron uptake in Shewanella oneidensis
Dong, Scientific reports 2017 - “...those for lactate transport remain untouched. The S. oneidensis genome encodes two putative lactate transporters, SO_1522 and SO_0827; the former is clustered with metabolizing genes ( dld (SO_1521), D-lactate dehydrogenase; lldEFG (SO_1518-20), L-lactate dehydrogenase) for both D- and L-lactate, while the latter is located somewhere on...”
- “...coli lactate permeases, LldP and GlcA, which are 0 (Table S2 ). In contrast, whether SO_1522 can function as a lactate permease is not certain as its sequence similarities to E. coli lactate permeases are rather modest. To test roles of SO_0827 and SO_1522 in lactate...”
- CRP Regulates D-Lactate Oxidation in Shewanella oneidensis MR-1
Kasai, Frontiers in microbiology 2017 - “...the oxidation of organic compounds, including lactate. Here, we investigated transcriptional mechanisms for the lldP (SO_1522) and dld (SO_1521) genes, which encode putative lactate permease and D -lactate dehydrogenase, respectively, and demonstrate that CRP regulates their expression in MR-1. We found that a crp -deletion mutant...”
- “...gene cluster consisting of lldP (a putative lactate permease gene) , dld , and lldEFG (SO_1522 to SO_1518; Figure 3A ) ( Pinchuk et al., 2009 ). Thus, to examine the involvement of CRP in the transcription of genes in this cluster, we first determined transcriptional...”
- Resilience, Dynamics, and Interactions within a Model Multispecies Exoelectrogenic-Biofilm Community
Prokhorova, Applied and environmental microbiology 2017 - “...transport and oxidation were also upregulated (SO_1518 to SO_1522; 4-fold). As was observed for G. sulfurreducens, cocultivation seemed to positively affect the...”
- Catabolic and regulatory systems in Shewanella oneidensis MR-1 involved in electricity generation in microbial fuel cells
Kouzuma, Frontiers in microbiology 2015 - “...of Shewanella spp., a study using a comparative genomic approach identified a MR-1 gene cluster (SO_1522 to SO_1588) consisting of a putative lactate permease gene [ lldP (SO_1522)] and candidate LDH genes for oxidative lactate utilization ( Pinchuk et al., 2009 ). The putative D-LDH gene...”
- Genomic reconstruction of Shewanella oneidensis MR-1 metabolism reveals a previously uncharacterized machinery for lactate utilization
Pinchuk, Proceedings of the National Academy of Sciences of the United States of America 2009 - “...these lactate regulators are marked in red. SO_1522 SO_1521 SO_1520-SO_1519-SO_1518 SO_3460 Fig. 1. Genome context analysis of lactate utilization genes across...”
Shewana3_2904 propionate/L-lactate/D-lactate transporter from Shewanella sp. ANA-3
95% identity, 100% coverage
- mutant phenotype: Specifically important for propionate utilization. Shewana3_2904 and its orthologs in other Shewanellas also have mild phenotypes during L-lactate or D,L-lactate utilization. 95% identical to SO1522 (lctP1), which is involved in utilization of both L- and D-lactate (PMC5603553)
HU689_06695 L-lactate permease from Shewanella algae
86% identity, 100% coverage
- Complete genome sequence of Shewanella algae strain 2NE11, a decolorizing bacterium isolated from industrial effluent in Peru
Lizárraga, Biotechnology reports (Amsterdam, Netherlands) 2022 - “...&HU689_10495 c ATPase protein a &Arsenite efflux transporter protein b &Arsenate reductase c Carbohydrate metabolism HU689_06695 a &HU689_06680 b L-lactate permease a &Lactate utilization protein b (HU689_06290, HU689_06255) a (HU689_06275, HU689_06270) b& HU689_06250 c &(HU689_06285, HU689_06280, HU689_06265, HU689_06260) d Transport protein a &Catalysis protein b &Regulation...”
- “...DL-lactate metabolism in S. algae 2NE11 could be associated with an L-lactate permease activity ( HU689_06695 ) and a lactate utilization protein ( HU689_06680 ). Additionally, we found genes that could be related to the catabolic pathway of N-acetylglucosamine, involved in processes such as transport (...”
Psest_0955 D,L-lactate:H+ symporter from Pseudomonas stutzeri RCH2
45% identity, 95% coverage
- mutant phenotype: Important for utilization of L,-lactate, D-lactate, D,L-lactate. Also important in many nitrogen source experiments with D,L-lactate as the carbn source.
PST_3336 L-lactate permease from Pseudomonas stutzeri A1501
44% identity, 95% coverage
VCA0983 L-lactate permease, putative from Vibrio cholerae O1 biovar eltor str. N16961
44% identity, 93% coverage
- Modulation of Host-Microbe Metabolism by Cholera Toxin
Chapman, Infection and immunity 2023 (secret) - IurV, Encoded by ORF VCA0231, Is Involved in the Regulation of Iron Uptake Genes in Vibrio cholerae
Sachman-Ruiz, Genes 2020 - “...ildD 2.27194 <5.00E05 Llactate dehydrogenase | lldD VC1332 2.34818 <5.00E05 Tripartite tricarboxylate transporter TctA family VCA0983 2.43475 <5.00E05 Llactate permease VCA0227 vctP 2.47329 <5.00E05 Ferric vibriobactin, enterobactin transport system, substratebinding protein VctP VC0091 2.48987 <5.00E05 Uncharacterized SAMdependent Omethyltransferase VC15478 exbB2 VC1548 2.54473 <5.00E05 MotA/TolQ/ExbB proton channel...”
- Cholera toxin promotes pathogen acquisition of host-derived nutrients
Rivera-Chávez, Nature 2019 - “...genes: ctxA (VC1456), hutA (VCA0576), viuA (VC2211), viuB (VC2210), tcpA (VC0825), fadL (VC1043), and lldD (VCA0983) in the ileum relative to LB were determined by quantitative real-time PCR from individual rabbits in Extended Data Fig. 4b , 5b , and 7b . Dark red (rabbit 2)...”
- “...in TCA cycle (VC0432, VC1573, VC2084-VC2092, VC2738), LCFA utilization (VC1043, VC2758, VC2231), and L-Lactate utilization (VCA0983, VCA0984), and all open reading frames (ORFs) of wild type C6706 during colonization of the ileum relative to the cecum. (c) Differential expression of V . cholerae genes involved in...”
Q7UY15 L-lactate permease from Rhodopirellula baltica (strain DSM 10527 / NCIMB 13988 / SH1)
42% identity, 95% coverage
DealDRAFT_1845 L-lactate permease from Dethiobacter alkaliphilus AHT 1
43% identity, 92% coverage
DSY2261 hypothetical protein from Desulfitobacterium hafniense Y51
40% identity, 86% coverage
Dde_3238 L-lactate permease, putative from Desulfovibrio desulfuricans G20
40% identity, 92% coverage
- The genetic basis of energy conservation in the sulfate-reducing bacterium Desulfovibrio alaskensis G20
Price, Frontiers in microbiology 2014 - “...(Pearson) correlation of 0.90. The most prominent differences in fitness were for a L-lactate permease (Dde_3238) and a nearby transcriptional regulator (Dde_3234), both of which were more important for fitness in L-lactate than in D-lactate (0.26 vs. +0.41 and 0.68 vs. 0.0). In D. vulgaris Hildenborough,...”
- New model for electron flow for sulfate reduction in Desulfovibrio alaskensis G20
Keller, Applied and environmental microbiology 2014 - “...R (I2/G20) Ab Dde_0182 Dde_0312 Dde_0750 Dde_1087 Dde_3238 Dde_3239 Dde_3240 GlcD COG-GlcD LdlD COG-GlcD LldP GlcD LdhB (S)-2-Hydroxy acid oxidase...”
- Flexibility of syntrophic enzyme systems in Desulfovibrio species ensures their adaptation capability to environmental changes
Meyer, Journal of bacteriology 2013 - “...h 0.027 h 0.027 h1 0.047 h Dde_1074 Dde_3238 / / / (Continued on following page) 4902 jb.asm.org Journal of Bacteriology Downloaded from http://jb.asm.org/...”
- “...putative lactate permeases (LctP-1, Dde_1074, and LctP-2, Dde_3238) and the HdrD-like putative beta subunits of the lactate dehydrogenase (LdhB-1, Dde_3240, and...”
- Variation among Desulfovibrio species in electron transfer systems used for syntrophic growth
Meyer, Journal of bacteriology 2013 - “...genes coding for a lactate permease (LctP-2, Dde_3238), the catalytic subunit of the lactate dehydrogenase (LdhA, Dde_3239), two HdrD-like putative iron-sulfur...”
Dret_1039 L-lactate transport from Desulfohalobium retbaense DSM 5692
40% identity, 94% coverage
- Complete genome sequence of Desulfohalobium retbaense type strain (HR(100))
Spring, Standards in genomic sciences 2010 - “...lactate in the cytoplasm is probably facilitated by a specific permease encoded by the gene Dret_1039. Following transport, lactate is oxidized to pyruvate by a putative L-lactate dehydrogenase (Dret_0157). Pyruvate is then oxidatively decarboxylated by a pyruvate ferredoxin oxidoreductase to acetyl-CoA. Interestingly, the gene Dret_1036 encoding...”
Q726T0 L-lactate permease from Nitratidesulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / CCUG 34227 / NCIMB 8303 / VKM B-1760 / Hildenborough)
DVU3026 L-lactate permease family protein from Desulfovibrio vulgaris Hildenborough
38% identity, 92% coverage
- Combining metabolic flux analysis with proteomics to shed light on the metabolic flexibility: the case of Desulfovibrio vulgaris Hildenborough.
Marbehan, Frontiers in microbiology 2024 - “...37 7 Pyruvate: ferredoxin oxidoreductase PFOR Q726T1 DVU_3025 30.8 402 37 7 L-lactate permease Ltp Q726T0 DVU_3026 60.8 6 13 6 D-lactate dehydrogenase subunit A D-LdII-A Q726S9 DVU_3027 49.3 85 81 32 D-lactate dehydrogenase subunit B D-LdII-B Q726S8 DVU_3028 45.9 32 45 16 Phosphate acetyl transferase...”
- Text-Mining to Identify Gene Sets Involved in Biocorrosion by Sulfate-Reducing Bacteria: A Semi-Automated Workflow
Thakur, Microorganisms 2023 - “...that two-component signal transduction systems are involved in forming biofilms, including a hybrid type kinase (DVU3026) that can take part in signal transduction, which is an integral part of cellcell communication or differentiation [ 53 ]. Thus, proteins that participate in biofilm formation on the metal...”
- Syntrophic Interactions Ameliorate Arsenic Inhibition of Solvent-Dechlorinating Dehalococcoides mccartyi
Gushgari-Doyle, Environmental science & technology 2023 (secret) - Key Enzymes for Anaerobic Lactate Metabolism in Geobacter sulfurreducens
Ueki, Applied and environmental microbiology 2021 (secret) - LurR is a regulator of the central lactate oxidation pathway in sulfate-reducing Desulfovibrio species
Rajeev, PloS one 2019 - “...in Desulfovibrio . A . Lactate is transported inside the cell by a lactate permease (DVU3026, llp ). D- (DVU3027-3028, dld-II ) and L-lactate dehydrogenases (DVU3032-3033, lldGH ) oxidize lactate to pyruvate [ 6 ]. Pyruvate is then oxidatively decarboxylated to acetyl-CoA via a pyruvate ferredoxin...”
- “...in the exponential phase samples were differentially expressed during stationary phase). The other two permeases DVU3026 and DVU2451 are highly expressed [ 11 ], and interestingly, DVU2451 is 88% identical to DVU3026, and in a DVU3026 deletion mutant, DVU2451 expression is increased [ 6 ]; thus,...”
- Antimicrobial Effects of Free Nitrous Acid on Desulfovibrio vulgaris: Implications for Sulfide-Induced Corrosion of Concrete
Gao, Applied and environmental microbiology 2016 - “...in D. vulgaris (32). This includes the genes DVU3026 for lactate permease, DVU3027, DVU3028, DVU3032, and DVU03033 for lactate dehydrogenase subunits, DVU3025...”
- “...of all these genes in the luo operon, except DVU3026, was observed when exposed to FNA (Table 3). Other genes proposed for lactate oxidation, such as DVU0600...”
- The primary pathway for lactate oxidation in Desulfovibrio vulgaris
Vita, Frontiers in microbiology 2015 - “...domains, which are only found in class II enzymes ( Campos-Bermudez et al., 2010 ). DVU3026 encoded a putative lactate permease; however, annotation of the remaining ORFs was unclear: DVU3031 encoded a conserved hypothetical protein consisting of the AAA and DRTGG domains but without a PTA_PTB...”
- “...genes. Locus tag Annotation 1 Proposed function Gene name DVU3025 Pyruvate-ferredoxin oxidoreductase Pyruvate-ferredoxin oxidoreductase por DVU3026 L -lactate permease family protein D , L -lactate permease DVU3027 Glycolate oxidase, subunit GlcD D -lactate dehydrogenase subunit dldII-A DVU3028 Iron-sulfur cluster-binding protein D -lactate dehydrogenase subunit dldII-B DVU3029...”
- The genetic basis of energy conservation in the sulfate-reducing bacterium Desulfovibrio alaskensis G20
Price, Frontiers in microbiology 2014 - “...Hildenborough, this regulator (DVU3023) binds upstream of and probably activates the expression of the permease (DVU3026) (Rajeev et al., 2011 ). We observed secretion of succinate to 1.31.8 mM during growth in a defined medium with 60 mM lactate and 30 mM sulfate (Data Sheet 5...”
- Genetics and molecular biology of the electron flow for sulfate respiration in desulfovibrio
Keller, Frontiers in microbiology 2011 - “..., the acetate kinase; and is preceded by a gene annotated as a lactate permease, DVU3026. Interestingly, por , pta , and ackA have not been mutated by the insertion of the transposon; whereas, seven transposon insertion sites have been identified within the coding sequences of...”
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DVU2451 L-lactate permease family protein from Desulfovibrio vulgaris Hildenborough
38% identity, 91% coverage
- Origin of biogeographically distinct ecotypes during laboratory evolution
Valenzuela, Nature communications 2024 - “...mechanism for generating H 2 as a reductant for establishing syntrophic growth. Interestingly, upregulation of DVU2451, which can functionally compensate 43 for the primary lactate permeases DVU2110 and DVU3026 44 , was likely a lactate scavenging mechanism by the planktonic Dv cells. By contrast, the attached...”
- Synergistic epistasis enhances the co-operativity of mutualistic interspecies interactions
Turkarslan, The ISME journal 2021 - “...(Fig. 3E ). At the same time a new Dv clone with mutations in DVU2394, DVU2451, DVU1862, and intergenic region IG_184033, and a new Mm clone with mutations in MMP0952, MMP1077, and MMP1479 were selected (Fig. 3E ). One explanation for this phenomenon is that, coincidentally,...”
- “...evolution may provide hypotheses. The novel mutations in DVU2394 (a sigma 54-dependent transcriptional regulator) and DVU2451 (a lactate permease) co-occurred in at least two lines including HS3 ( P =3.9310 2 ) and appeared individually in only three other lines, suggesting that the two genes might...”
- LurR is a regulator of the central lactate oxidation pathway in sulfate-reducing Desulfovibrio species
Rajeev, PloS one 2019 - “...complete lactate utilization, and that it activates the DVU3025-3033 lactate oxidation operon as well as DVU2451, a lactate permease gene, in the presence of lactate. We show by electrophoretic mobility shift assays that LurR binds to three sites in the upstream region of DVU3025, the first...”
- “...encoded directly upstream of the DVU3025-3033 operon. LurR also targets two additional putative lactate permeases (DVU2451 and DVU3284) [ 9 ]. Based on lurSR s proximity and its conservation across related genomes, we hypothesized that the LurSR two-component system was likely to serve as the primary...”
- Antimicrobial Effects of Free Nitrous Acid on Desulfovibrio vulgaris: Implications for Sulfide-Induced Corrosion of Concrete
Gao, Applied and environmental microbiology 2016 - “...DVU3031 DVU3032 DVU3028 DVU3033 DVU0600 DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3029 DVU1569 DVU1570 DVU3025 DVU0577 DVU0587 DVU0588 ATP synthesis DVU0918...”
- The primary pathway for lactate oxidation in Desulfovibrio vulgaris
Vita, Frontiers in microbiology 2015 - “...fivefold repression, respectively ( Figure 7B ). In this mutant, which did not include DVU3026, DVU2451 expression was increased by 14 fold, corresponding to the highest change. Note that the DVU2451 protein shared 88% sequence identity and 95% sequence similarity to DVU3026. FIGURE 6 Transcriptional analyses...”
- “...for lactate utilization. The importance of DVU3026 was strengthened by the high transcriptional induction of DVU2451 in the mutant 26-28 ( Figure 7 ). Therefore, we can postulate that DVU2451 can functionally compensate for the absence of DVU3026 because they share 88% sequence identity. We propose...”
- σ54-dependent regulome in Desulfovibrio vulgaris Hildenborough
Kazakov, BMC genomics 2015 - “...DVU2989 Single-component regulator GAFTGA DVU2988-DVU2986 Phage shock response This study DVU3023 TCS response regulator GAFTGA DVU2451, DVU3025-DVU3033, DVU3284* Lactate metabolism and transport Rajeev et al., 2011 [ 13 ] DVU3142 Single-component regulator GAFTGA DVU3143-DVU3145 Energy metabolism This study DVU3220 TCS response regulator GSFTGA DVU1231-DVU1233 Nitrogen metabolism...”
- DNA-affinity-purified chip (DAP-chip) method to determine gene targets for bacterial two component regulatory systems
Rajeev, Journal of visualized experiments : JoVE 2014 - “...gene targets are two other singly encoded lactate permeases (DVU2451 and DVU3284). The fourth gene target does not lie in an upstream region, but in the...”
- Characterization of NaCl tolerance in Desulfovibrio vulgaris Hildenborough through experimental evolution
Zhou, The ISME journal 2013 - “...expression of two L-lactate permease family protein genes DVU2451 and DVU2683 under NaCl stress compared with An (Table 3). Signal transduction and...”
- “...DVU0534 DVU0535 DVU0536 DVU0305 (fd II) DVU0384 DVU2451 DVU2683 DVU1780 DVU1781 DVU1782 DVU1783 DVU2286 DVU2287 DVU2288 DVU2289 DVU2290 DVU2291 DVU2292 DVU2293...”
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UH47_06315 L-lactate permease from Staphylococcus pseudintermedius
38% identity, 100% coverage
SXYL_00250 L-lactate permease from Staphylococcus xylosus
38% identity, 99% coverage
- Insight into the Genome of Staphylococcus xylosus, a Ubiquitous Species Well Adapted to Meat Products
Leroy, Microorganisms 2017 - “...glcU Glucose uptake protein SXYL_01421 crr EIIA SXYL_01308 glkA Glucokinase Sucrose Lactate SXYL_00555 scrA EIIBC SXYL_00250 Lactate permease SXYL_00886 scrR Repressor SXYL_00577 Lactate permease SXYL_00887-88 scrBK Hydrolase, Fructokinase SXYL_00170 lactate-quinone oxidoreductase others Lactose SXYL_00060, SXYL_00626 Arbutin, EIIBC SXYL_00082 lacR Transcription activator SXYL_00528 Beta-glucoside, EIIABC SXYL_00083-84 lacPH...”
- Adaptation of Staphylococcus xylosus to Nutrients and Osmotic Stress in a Salted Meat Model
Vermassen, Frontiers in microbiology 2016 - “...Phosphoglycerate kinase, Triosephosphate isomerase, 2,3-bisphosphoglycerate-independent phosphoglycerate mutase 6.5 * 4.5 * 3.1 * Pyruvate metabolism SXYL_00250 L-lactate permease 2.5 2.6 SXYL_00170 lqo L-lactate-quinone oxidoreductase 2.5 SXYL_00276 ldhB L-lactate dehydrogenase 0.2 0.3 0.4 SXYL_01023-24 pflAB Formate acetyltransferase 2.2 * 2.3 * 2.1 * SXYL_01839-42 pdhABCD Pyruvate dehydrogenase...”
- “...used as carbohydrate substrate could be imported via the L-lactate permease encoded by the gene SXYL_00250, which is overexpressed in the meat model, and catabolized to pyruvate by the lactate-quinone oxidoreductase encoded by lqo , which was also overexpressed (Table 1 , Figure 1 ). S....”
HVO_1696 L-lactate permease from Haloferax volcanii DS2
37% identity, 91% coverage
- Open Issues for Protein Function Assignment in Haloferax volcanii and Other Halophilic Archaea
Pfeiffer, Genes 2021 - “...25917905 partial match 9f HVO_1697 - unclear 24% PST_3340 O4VPR8 [ 317 ] 25917905 9f HVO_1696 lctP probably 44% PST_3336 O4VPR4 [ 317 ] 25917905 9g HVO_B0300 pucL1 yes 49% BSU32450 O32141 [ 318 ] 20168977 Bacillus : bifunctional, matches to C-term 9g HVO_B0299 pucM yes...”
- Splicing Endonuclease Is an Important Player in rRNA and tRNA Maturation in Archaea
Schwarz, Frontiers in microbiology 2020 - “...). TABLE 2 Genes up-regulated in the endA CRISPRi strain. Gene log 2 Annotation a HVO_1696 7.0 L-lactate permease HVO_B0044 4.8 Siderophore biosynthesis protein, IucA HVO_B0042 4.7 Probable 1,3-diaminopropane N-3-monooxygenase, IucD HVO_B0045 4.5 Diaminobutyrate decarboxylase HVO_1228 4.2 DUF5059 domain HVO_B0043 4.1 Probable N4-hydroxy-1-aminopropane O-acetyltransferase, IucB HVO_1697...”
- “...periplasmic substrate-binding protein (probable substrate iron-III) The 10 most up-regulated genes are shown. The gene HVO_1696, coding for an L-lactate permease is the most up-regulated gene. Six of the most up-regulated genes are located in a cluster on pHV3 (HVO_B0042-HVO_B0047) and are related to iron metabolism....”
AF0806 L-lactate permease (lctP) from Archaeoglobus fulgidus DSM 4304
AF_0806 L-lactate permease from Archaeoglobus fulgidus DSM 4304
36% identity, 95% coverage
- Physiological and Genomic Characterization of a Hyperthermophilic Archaeon Archaeoglobus neptunius sp. nov. Isolated From a Deep-Sea Hydrothermal Vent Warrants the Reclassification of the Genus Archaeoglobus
Slobodkina, Frontiers in microbiology 2021 - “...proposed that lldD (AF0807) is part of a cluster and operates along with L-lactate permease (AF0806), monomeric dld (AF0808), and oligomeric LldEFG (AF0809AF0811) lactate dehydrogenases ( Hocking et al., 2014 ). This study also suggested to consider two more oxidoreductases (AF0507 and AF0867) as putative lactate...”
- Identification of key components in the energy metabolism of the hyperthermophilic sulfate-reducing archaeon Archaeoglobus fulgidus by transcriptome analyses
Hocking, Frontiers in microbiology 2014 - “...region of one lactate permease and 5 putative lactate dehydrogenase (LDH) genes ( lctp ; AF0806, lldD ; AF0807, dld ; AF0808 and lldEFG ; AF0809-AF0811, Table 1E , Figures 3 , 5 ). The genes AF0809-AF0811 may encode an oligomeric LDH ( lldEFG ) based...”
- A novel methoxydotrophic metabolism discovered in the hyperthermophilic archaeon Archaeoglobus fulgidus
Welte, Environmental microbiology 2021 - “...dehydrogenase Dld (AF_0394 & AF_0808), Llactate dehydrogenase LldD (AF_0807) and LldEFG (AF_0809AF_0811), lactate permease lctP (AF_0806), pyruvate carboxylase PycA (AF_0220) and oxaloacetate decarboxylase Oad (AF_1252), malate dehydrogenase MdhA (AF_0855) and malate oxidoreductase Mae (AF_1727), fumarate hydratase Fum1/2 (AF_1098/9), succinate dehydrogenase SdhAD (AF_06814), succinylCoA synthetase SucCD (AF_1539/40...”
YP_130418 hypothetical L-lactate permease (lctP) from Photobacterium profundum SS9
29% identity, 96% coverage
HVO_2251 Glycolate permease glcA from Haloferax volcanii DS2
31% identity, 96% coverage
NMB0543 putative L-lactate permease from Neisseria meningitidis MC58
31% identity, 98% coverage
- Interplay Between Virulence and Variability Factors as a Potential Driver of Invasive Meningococcal Disease
Siena, Computational and structural biotechnology journal 2018 - “...[ 43 , 54 ] Type IV pili Adherence pilZ NMB0770 Lactate permease Colonization lctP NMB0543 Lipoprotein NlpD Colonization NEIS1418 NMB1483 FarAB Efflux pump farA NMB0318 FarAB Efflux pump farB NMB0319 MtrCDE Efflux pump mtrC NMB1716 Yes [ 15 ] MtrCDE Efflux pump mtrD NMB1715 MtrCDE...”
- The Hfq regulon of Neisseria meningitidis
Huis, FEBS open bio 2017 - “...Amino acid metabolism 1.5 2.3 NMB0378 cysP f Inorganic phosphate transporter Membrane components 7.7 1.7 NMB0543 lctP f Putative l lactate permease Membrane components 2.2 3.5 NMB0607 secD Protein translocase subunit Protein transport/translocation 4.0 2.0 2.6 NMB0748 hfq Host factorI protein RNA chaperone 289.3 g 16.0...”
- Transcriptomic buffering of cryptic genetic variation contributes to meningococcal virulence
Ampattu, BMC genomics 2017 - “...n.s. n.s. n.s. NMB0179 fabZ (3R)-Hydroxymyristoyl-ACP dehydratase 1.21 n.s. n.d. n.d. n.d. n.d. n.d. n.d. NMB0543 lctP L-Lactate permease n.s. n.s. n.s. n.s. 1.04 n.s. 1.39 n.s. NMB0700 iga IgA-specific serine endopeptidase n.s. 1.57 n.d. n.d. n.d. n.d. n.s. n.s. NMB0718 hemH ferrochelatase n.s. n.s. n.s....”
- HexR Controls Glucose-Responsive Genes and Central Carbon Metabolism in Neisseria meningitidis
Antunes, Journal of bacteriology 2015 - “...envelope, such as NMB0342 (ispA), NMB1729 (exbB), and NMB0543 (lctP). FIG 6 Model of glucose- and HexR-mediated regulation in N. meningitidis, showing the main...”
- Transcriptional profiling of serogroup B Neisseria meningitidis growing in human blood: an approach to vaccine antigen discovery
Hedman, PloS one 2012 - “...and metabolism. The observed change in lactate concentration was not reflected in regulated expression of NMB0543 ( lctP ) encoding lactate permease, nor of NMB1377 ( lldA ) and NMB0901 (both encoding lactate dehydrogenases). Meningococcal genes contributing to complement evasion are highly expressed in blood-grown organisms...”
- Transcriptome analysis of Neisseria meningitidis in human whole blood and mutagenesis studies identify virulence factors involved in blood survival
Echenique-Rivera, PLoS pathogens 2011 - “...in the uptake of glucose ( gluP , NMB0535 ) and lactate ( lctP , NMB0543 ) were significantly up-regulated ( Figure 4B ). Nm catabolizes lactate at a faster rate than glucose and LctP has been shown to be involved in virulence: a lctP mutant...”
- “...2.04 3.33 3.56 2.96 NMB0460 tbpB Transferrin binding protein B 1.04 1.53 1.47 1.13 0.96 NMB0543 lctP L-lactate permease 1.00 0.93 1.34 1.30 1.62 NMB0595 DNA-binding response regulator 0.54 1.15 1.21 1.00 0.96 NMB0663 nspA Neisseria surface protein A 2.03 1.61 1.85 1.49 1.13 NMB1053 opc...”
- Interrogation of global mutagenesis data with a genome scale model of Neisseria meningitidis to assess gene fitness in vitro and in sera
Mendum, Genome biology 2011 - “...fbpB, lbpA ), a number of amino acid transporters (NMB0787, NMB0788, NMB2031), and lactate permease (NMB0543), a gene known to be required for fitness when N. meningitidis is grown on nasopharyngeal explants [ 2 ]. Several genes of central carbon metabolism (parts of TCA and pyruvate...”
- Role of Hfq in iron-dependent and -independent gene regulation in Neisseria meningitidis
Mellin, Microbiology (Reading, England) 2010 - “...fpr-1 Ferredoxin 2.70 1.79 1.58 1.23 Transport: NMB0378 Putative phosphate transporter 1.70 3.18 1.29 1.36 NMB0543 Putative l -lactate permease 2.15 3.82 1.31 1.49 NMB0607 secD Type II protein secretion 1.97 2.55 1.57 1.39 NMB0787 Amino acid ABC transporter 2.16 3.01 1.22 1.17 NMB0788 Amino acid...”
- More
NMC0482 putative transmembrane transport protein from Neisseria meningitidis FAM18
31% identity, 98% coverage
QR722_RS12480 L-lactate permease from Aliiglaciecola sp. LCG003
32% identity, 96% coverage
NGO1449 LctP from Neisseria gonorrhoeae FA 1090
NGO_1449 L-lactate permease from Neisseria gonorrhoeae FA 1090
31% identity, 98% coverage
- Gonococcal Clinical Strains Bearing a Common gdhR Single Nucleotide Polymorphism That Results in Enhanced Expression of the Virulence Gene lctP Frequently Possess a mtrR Promoter Mutation That Decreases Antibiotic Susceptibility
Ayala, mBio 2022 - “...and the resulting strain F62 Str R was selected on 100g/mL Str. To obtain LctP (NGO1449) expression reporter strains, the previously constructed reporter vector pLES94- lctP ( 14 ) was used to transform MS11 to obtain strain JC43. Transformants were selected on GC agar containing Cm...”
- Transcriptional regulation of a gonococcal gene encoding a virulence factor (L-lactate permease)
Ayala, PLoS pathogens 2019 - “...and membrane transporters ( Fig 1B and S1 Table ). We also noted that lctP (NGO1449) was the highest of GdhR-repressed genes ( Fig 1B and 1C ). 10.1371/journal.ppat.1008233.g001 Fig 1 Genome-wide GdhR regulon during late-exponential growth. A. Graphic representation generated by CG viewer [ 67...”
- Deep sequencing-based analysis of the anaerobic stimulon in Neisseria gonorrhoeae
Isabella, BMC genomics 2011 - “...-3.4 -3.6 Membrane bound biopolymer transport protein ExbD/TolR exbB NGO1378 -3.1 -5.0 Transport protein lctP NGO1449 -4.0 -14.3 L-lactate permease potF NGO1494 -7.7 -20.0 ABC-type spermidine/putrescine transporter, solute binding protein MtrR putP NGO1552 -5.6 -11.1 Sodium/proline symport protein ompU NGO1688 -2.6 -3.7 Putative iron uptake protein...”
- Lactate acquisition promotes successful colonization of the murine genital tract by Neisseria gonorrhoeae
Exley, Infection and immunity 2007 - “...of the meningococcal LctP revealed an identical sequence (NGO1449) except for a single, predicted amino acid difference (Val167 to Ala167 for the meningococcal...”
- “...permease. First we constructed GP900, a deletion mutant of NGO1449 in N. gonorrhoeae F62Smr, and complemented the mutant by introducing a single copy of the...”
- Effect of host lactate on gonococci and meningococci: new concepts on the role of metabolites in pathogenicity
Smith, Infection and immunity 2007 - Comparison of the RpoH-dependent regulon and general stress response in Neisseria gonorrhoeae
Gunesekere, Journal of bacteriology 2006 - “...NGO0410 NGO1236 NGO1473 NGO1234 NGO1233 NGO0233 NGO1980 NGO1415 NGO1449 NGO0563 NGO0904 NGO1406 Gene ilvH ilvI mdaB ilvC nsgA yojH nqrC gcvT Fold changeb...”
- Phase-variable Type I methyltransferase M.NgoAV from Neisseria gonorrhoeae FA1090 regulates phasevarion expression and gonococcal phenotype
Adamczyk-Poplawska, Frontiers in microbiology 2022 - “...Falsetta et al., 2009 ). Another gene from C category, upregulated over 5-folds, is lctP (NGO_1449) encoding lactate permease. It was described that lctP gonococcal mutant was significantly attenuated in its ability to colonize and survive in the murine genital tract ( Exley et al., 2007...”
NGFG_01471 L-lactate permease from Neisseria gonorrhoeae MS11
31% identity, 98% coverage
- Central Role of Sibling Small RNAs NgncR_162 and NgncR_163 in Main Metabolic Pathways of Neisseria gonorrhoeae
Steiner, mBio 2023 - “...gene and encodes d -alanine dehydrogenase ( dadA ). Furthermore, differential expression of lactate permease (NGFG_01471) showing a ratio slightly above the applied cutoff in RNA-seq (0.765779; q =0.0191) could be validated by qRT-PCR ( Fig.2a ). Another validated target, aconitate hydratase ( acn ), belongs...”
- “...be the consequence of posttranscriptional regulation mediated by the sibling sRNAs. In the case of NGFG_01471, differential expression in the 162/163 mutant can be explained by an indirect effect, because lactate permease was shown to be regulated by GdhR ( 26 ), which itself is a...”
APL_0447 putative L-lactate permease from Actinobacillus pleuropneumoniae L20
31% identity, 98% coverage
APPSER1_RS02395 L-lactate permease from Actinobacillus pleuropneumoniae serovar 1 str. 4074
31% identity, 98% coverage
- The morphology and metabolic changes of Actinobacillus pleuropneumoniae during its growth as a biofilm
Zhang, Veterinary research 2023 - “...APPSER1_RS09580- nanEKA-nagBA N-acetylmannosamine kinase; N-acetylneuraminate lyase; glucosamine-6-phosphate deaminase; N-acetylglucosamine-6-phosphate deacetylase Fermentation APPSER1_RS02385-APPSER1_RS02390 lldEF L-lactate dehydrogenase APPSER1_RS02395 lctP L-lactate permease APPSER1_RS10140 lldD FMN-dependent L-lactate dehydrogenase LldD APPSER1_RS10665 adhP alcohol dehydrogenase AdhP Transporter APPSER1_RS07470-APPSER1_RS07490 ccmEDCBA cytochrome c maturation protein; heme exporter protein APPSER1_RS04515-APPSER1_RS04525 APPSER1_RS04515-APPSER1_RS04525 dipeptide/oligopeptide/nickel ABC transporter APPSER1_RS09260-APPSER1_RS09265...”
NTHI1391 putative L-lactate permease from Haemophilus influenzae 86-028NP
30% identity, 96% coverage
Q57251 Putative L-lactate permease from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
HI1218 L-lactate permease (lctP) from Haemophilus influenzae Rd KW20
30% identity, 96% coverage
- Bioinformatic analyses of integral membrane transport proteins encoded within the genome of the planctomycetes species, Rhodopirellula baltica.
Paparoditis, Biochimica et biophysica acta 2014 - “...Q6MDZ0 12 nucleotides NAD + :ADP antiporter Q7UQZ9 12 2.A.14 Lactate Permease (LctP) Family 2.A.14.2.1 Q57251 15 unknown unknown Q7UY15 16 2.A.17 Proton-dependent Oligopeptide Transporter (POT) Family 2.A.17.4.4 Q9ES07 11 peptide peptide Q7UIT9 12 2.A.19 Ca2+:Cation Antiporter (CaCA) Family 2.A.19.4.6 Q71RS6 11 cations Na + /Ca...”
- The proton-linked monocarboxylate transporter (MCT) family: structure, function and regulation
Halestrap, The Biochemical journal 1999 - “...SP : P36035, AAB60291 SP : P33231 SP : Q57251 SP : P71067 CAA69452 ORF YKL217w Gene lctP [50] [168] [169] [170] [163] (b) Monocarboxylate transporters whose...”
- Characterization of lactate utilization and its implication on the physiology of Haemophilus influenzae
Lichtenegger, International journal of medical microbiology : IJMM 2014 - “...defined deletion mutants in arcA and the l -lactate pathway, i.e. permease ( lctP ; HI1218), l -lactate dehydrogenase ( lctD ; HI1739.1), and characterized their influence on bacterial physiology. Materials and methods Bacterial strains, culture conditions and growth analysis Strains used in this study were...”
- “...of BHI medium is available. To test lactate utilization in H. influenzae , defined lctP (HI1218), lctD (HI1739.1) and arcA (HI0884) knockout mutants were generated in strain Rd KW20 replacing the genes by a kanamycin or chloramphenicol resistance gene cassette of plasmids pACYC177/184 ( Rose, 1988a...”
- Genome-scale approaches to identify genes essential for Haemophilus influenzae pathogenesis
Wong, Frontiers in cellular and infection microbiology 2012 - “...HI0503 ribsC Ribose ABC transporter permease e TRANSPORTERS HI0561 Putative oligopeptide transporter (OPT) family d HI1218 lctP l -lactate permease d HI0898 emrA Multidrug resistance protein A d METABOLIC PROCESSES/ELECTRON TRANSPORT HI1245 Bifunctional malic enzyme oxidoreductase/phosphotransacetylase d HI1170 Similar to para-aminobenzoate synthetase required for folate biosynthesis...”
- The iron/heme regulated genes of Haemophilus influenzae: comparative transcriptional profiling as a tool to define the species core modulon
Whitby, BMC genomics 2009 - “...1.42 HI1190 ns -1.01 -1.60 -1.72 -1.92 -1.73 HI1217 -2.75 1.1 -1.48 -2.20 -2.99 -3.60 HI1218 4.67 33.45 3.58 17.21 ns 11.58 HI1224 -1.66 -1.2 -1.68 -1.93 ns 1.13 HI1275 -2.01 1.07 -1.37 1.01 -3.34 -5.77 HI1305 ns 2.29 1.68 2.29 ns 1.71 HI1356 ns -1.83...”
- “...HI0889 Serine methylase glyA 1.83 1.68 -1.09 HI0890 Dephospho CoA kinase coaE 2.50 3.48 ns HI1218 L-lactate permease lldP 4.67 3.58 ns HI1444 5,10 methlyenetetrahydrofolate reductase metF 5.19 3.47 ns HI1661 2-oxoglutarate dehydrogenase E2 sucB 1.56 1.17 -1.18 HI1662 2-oxoglutarate dehydrogenase E1 sucA ns ns -1.18...”
- The ArcA regulon and oxidative stress resistance in Haemophilus influenzae
Wong, Molecular microbiology 2007 - “...parent strain. RAA6V/RdV RAA6V/RAA6C Gene ID Function Fold change P -value Fold change P -value HI1218 l -lactate permease ( lldP ) 44 1.20E-08 26.8 1.69E-08 HI0747 NADH dehydrogenase ( ndh ) 11 4.06E-11 9.6 5.86E-11 HI0009 FdhE protein ( fdhE ) 9.7 8.39E-10 9.4 1.53E-09...”
- “...( HI0008 ) (5-ATGAGTAAAATTGAAATTAGCAAC and 5-AGATACCAGTGAATAACATAAAAG), fdhE ( HI0009 ) (5-ATGAGTATCAAAATCTTATC and 5-TGCTTCTTCTGCAGGAAAAATAAATG), lldP ( HI1218 ) (5-ATGCTGTCTTTTATTCTAAG and 5-TAGATTATAAAATAAAGGTAC), sucB ( HI1661 ) (5-ATGGCAATCGAAATTCTTG and 5-GATTTCTAATAACAATCTTG), HI0592 (5-ATGCTATTTCGTACATATATAC and 5-GAGAGCCCTGTTGGATG), potE ( HI0590 ) (5-ATGAGTGCTAAAAGCAATAAAATTG and 5-TTTTTTAAGATCAAATTTGTAAG) and HI1349 (5-AACTGCAGATCTGCTCTTCAATGTCAAAAACATCAATCGGACTA and 5-AAAGATCTGCAGGCTCTTCTTTAATTATGGCAAGTTTGGCAAGC). PCR products were...”
- Genomic sequence of an otitis media isolate of nontypeable Haemophilus influenzae: comparative study with H. influenzae serotype d, strain KW20
Harrison, Journal of bacteriology 2005 - “...is bounded by NTHI1391 and NTHI1394 (homologues of HI1218 and HI1645, respectively) and by NTHI1949 and NTHI1950 (homologues of HI1219 and HI1647,...”
- Gene expression changes triggered by exposure of Haemophilus influenzae to novobiocin or ciprofloxacin: combined transcription and translation analysis
Gmuender, Genome research 2001 - “...hi0239 hi0745 hi0470 hi0008 hi1133 hi0140 hi0117 hi1154 hi1218 hi0537 hi0373 hi0142 hi1227 hi0505 hi0544 hi1167 hi0536 hi0087 hi0089 hi1367 hi1511 hi0447 hi1172...”
- Cloning of a Neisseria meningitidis gene for L-lactate dehydrogenase (L-LDH): evidence for a second meningococcal L-LDH with different regulation
Erwin, Journal of bacteriology 1996 - “...genome. In Haemophilus influenzae (13), a lldP homolog (ORF HI1218) is located at some distance from the L-LDH gene, identified as lctD (ORF HI1739.1). No...”
CPZ25_RS02235 L-lactate permease from Eubacterium maltosivorans
30% identity, 95% coverage
Cbei_2885 L-lactate transport from Clostridium beijerincki NCIMB 8052
27% identity, 95% coverage
CPE0310 probable lactate permease from Clostridium perfringens str. 13
28% identity, 95% coverage
LBA1768 lactate premease from Lactobacillus acidophilus NCFM
30% identity, 95% coverage
CLJU_RS10610 L-lactate permease from Clostridium ljungdahlii DSM 13528
30% identity, 99% coverage
- Bioinformatics and metabolic flux analysis highlight a new mechanism involved in lactate oxidation in Clostridium tyrobutyricum
Munier, International microbiology : the official journal of the Spanish Society for Microbiology 2023 - “...et A. woodii DSM 1030 . TR, transcriptional regulator (EZN00_RS08600, CLJU_RS10615, AWO_RS0440); L-lactate permease (EZN00_RS08605, CLJU_RS10610, and AWO_RS04425); lactate racemase (EZN00_RS08610, CLJU_RS10605, and AWO_RS04430); EtfB (EZN00_RS08615, CLJU_RS10600, and AWO_RS04410); EtfA (EZN00_RS08620, CLJU_RS10595, and AWO_RS04415); LDH, lactate dehydrogenase (EZN00_RS08625, CLJU_RS10590, and AWO_RS04420) According to these results, C.tyrobutyricum...”
- Transcriptomic profiles of Clostridium ljungdahlii during lithotrophic growth with syngas or H2 and CO2 compared to organotrophic growth with fructose
Aklujkar, Scientific reports 2017 - “...with syngas The fourth and fifth most upregulated genes during growth with syngas ( lctP CLJU_RS10610 and larA-3 CLJU_RS10605, Fig. 1 ) encode proteins with 49% sequence identity to the predicted (S) -lactate transporter of Streptococcus iniae 28 and 63% sequence identity to the characterized lactate...”
Hflu103001790 COG1620: L-lactate permease from Haemophilus influenzae R2846
29% identity, 97% coverage
EZN00_RS08605 L-lactate permease from Clostridium tyrobutyricum
29% identity, 99% coverage
- Bioinformatics and metabolic flux analysis highlight a new mechanism involved in lactate oxidation in Clostridium tyrobutyricum
Munier, International microbiology : the official journal of the Spanish Society for Microbiology 2023 - “...13,528 et A. woodii DSM 1030 . TR, transcriptional regulator (EZN00_RS08600, CLJU_RS10615, AWO_RS0440); L-lactate permease (EZN00_RS08605, CLJU_RS10610, and AWO_RS04425); lactate racemase (EZN00_RS08610, CLJU_RS10605, and AWO_RS04430); EtfB (EZN00_RS08615, CLJU_RS10600, and AWO_RS04410); EtfA (EZN00_RS08620, CLJU_RS10595, and AWO_RS04415); LDH, lactate dehydrogenase (EZN00_RS08625, CLJU_RS10590, and AWO_RS04420) According to these results,...”
AWO_RS04425, Awo_c08740, WP_014355268 L-lactate permease from Acetobacterium woodii DSM 1030
30% identity, 96% coverage
- A new metabolic trait in an acetogen: Mixed acid fermentation of fructose in a methylene-tetrahydrofolate reductase mutant of Acetobacterium woodii
Moon, Environmental microbiology reports 2023 - “...Awo_c08720 Electron transfer flavoprotein alpha subunit 123,511 505 7.93 Awo_c08730 Lactate dehydrogenase 226,503 653 8.44 Awo_c08740 Lactate permease 93,321 346 8.08 Awo_c08750 Lactate racemase 71,991 315 7.84 Awo_c12730 CxxC motifcontaining protein Glycerol metabolism 18,012 2346 2.92 Awo_c12740 Thioredoxin reductase 69,136 8924 2.93 Awo_c12750 Glycerol3phosphate dehydrogenase 82,464...”
- Bioinformatics and metabolic flux analysis highlight a new mechanism involved in lactate oxidation in Clostridium tyrobutyricum
Munier, International microbiology : the official journal of the Spanish Society for Microbiology 2023 - “...woodii DSM 1030 . TR, transcriptional regulator (EZN00_RS08600, CLJU_RS10615, AWO_RS0440); L-lactate permease (EZN00_RS08605, CLJU_RS10610, and AWO_RS04425); lactate racemase (EZN00_RS08610, CLJU_RS10605, and AWO_RS04430); EtfB (EZN00_RS08615, CLJU_RS10600, and AWO_RS04410); EtfA (EZN00_RS08620, CLJU_RS10595, and AWO_RS04415); LDH, lactate dehydrogenase (EZN00_RS08625, CLJU_RS10590, and AWO_RS04420) According to these results, C.tyrobutyricum would have...”
- Cell factories converting lactate and acetate to butyrate: Clostridium butyricum and microbial communities from dark fermentation bioreactors
Detman, Microbial cell factories 2019 - “...Similar search, with A. woodii EtfA and EtfB and additionally with its l -lactate permease (AWO_RS04425), was performed for the genomes of Roseburia intestinalis L1-82 (TaxID: 536231, RefSeq: NZ_ABYJ00000000), Eubacterium rectale ATCC 33656 (TaxID: 515619, RefSeq: NC_012781), and Faecalibacterium prausnitzii A2165 (RefSeq: NZ_CP022479) [ 1 ,...”
- Methane-yielding microbial communities processing lactate-rich substrates: a piece of the anaerobic digestion puzzle
Detman, Biotechnology for biofuels 2018 - “...size set to 3, BLOSUM62 matrix, and gap open/extend cost of 11/1): lactate permease WP_014355268 (AWO_RS04425) (LldP), lactate racemase WP_014355269 (AWO_RS04430) (LarA), electron transfer flavoprotein subunit alpha WP_014355266 (AWO_RS04415) (EtfA), FAD/FMN-containing dehydrogenase WP_014355267 (AWO_RS04420) (GlcD), electron transporter RnfC WP_014356580 (AWO_RS11370) all from Acetobacterium woodii DSM 1030...”
- “...word size set to 3, BLOSUM62 matrix, and gap open/extend cost of 11/1): lactate permease WP_014355268 (AWO_RS04425) (LldP), lactate racemase WP_014355269 (AWO_RS04430) (LarA), electron transfer flavoprotein subunit alpha WP_014355266 (AWO_RS04415) (EtfA), FAD/FMN-containing dehydrogenase WP_014355267 (AWO_RS04420) (GlcD), electron transporter RnfC WP_014356580 (AWO_RS11370) all from Acetobacterium woodii DSM...”
EHLA_0973 L-lactate permease from Anaerobutyricum hallii
27% identity, 98% coverage
- Unravelling lactate-acetate and sugar conversion into butyrate by intestinal Anaerobutyricum and Anaerostipes species by comparative proteogenomics
Shetty, Environmental microbiology 2020 - “...proteins were shared between the two comparisons (including those encoded by genes with locus tags EHLA_0973, EHLA_0974, EHLA_0976, EHLA_0977, EHLA_0978, EHLA_0979) that were induced by growth on d , l lactate. Proteins with significantly higher abundance during growth on d , l lactate included lactate permease,...”
- “...flavoprotein alpha subunit, shortchain acylCoA dehydrogenase and lactate racemase (encoded by genes with locus tags EHLA_0973 EHLA_0978) (Fig. 2A and B ). Remarkably, lactate dehydrogenase (encoded by the gene with locus tag EHLA_0974) cooccurs with EtfA and EtfB, which suggests the presence of a d lactate...”
jhp0128 L-lactate permease from Helicobacter pylori J99
27% identity, 97% coverage
DVU2285 L-lactate permease family protein from Desulfovibrio vulgaris Hildenborough
Q729R4 L-lactate permease from Nitratidesulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / CCUG 34227 / NCIMB 8303 / VKM B-1760 / Hildenborough)
27% identity, 99% coverage
- Antimicrobial Effects of Free Nitrous Acid on Desulfovibrio vulgaris: Implications for Sulfide-Induced Corrosion of Concrete
Gao, Applied and environmental microbiology 2016 - “...DVU3027 DVU3031 DVU3032 DVU3028 DVU3033 DVU0600 DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3029 DVU1569 DVU1570 DVU3025 DVU0577 DVU0587 DVU0588 ATP synthesis...”
- The primary pathway for lactate oxidation in Desulfovibrio vulgaris
Vita, Frontiers in microbiology 2015 - “...in the transcription level were observed for any of the genes; however, the expression of DVU2285 and DVU2683 was altered in the 26-28 mutant, with fourfold and fivefold repression, respectively ( Figure 7B ). In this mutant, which did not include DVU3026, DVU2451 expression was increased...”
- Transcriptomic and proteomic analyses of Desulfovibrio vulgaris biofilms: carbon and energy flow contribute to the distinct biofilm growth state
Clark, BMC genomics 2012 - “...the mRNA level; DVU0053 was up-expressed and DVU0279 was down-expressed. A putative lactate permease mRNA (DVU2285) was down-expressed in biofilm cells, and a similar trend of expression was observed with exponential-phase, planktonic cells [ 29 ]. (vii) Extracellular proteins In-gel digestion analysis of the extracellular samples...”
- The electron transfer system of syntrophically grown Desulfovibrio vulgaris
Walker, Journal of bacteriology 2009 - “...syntrophic growth, as was a second lactate permease gene (DVU2285; log2R 1.4) located upstream and directly adjacent to the gene for the Coo hydrogenase. The...”
- Temporal transcriptomic analysis as Desulfovibrio vulgaris Hildenborough transitions into stationary phase during electron donor depletion
Clark, Applied and environmental microbiology 2006 - “...has six putative lactate permease genes (DVU2110, DVU2285, DVU2451, DVU2683, DVU3026, and DVU3284). Two presumptive permease genes were unchanged, three were...”
- “...DVU0019 DVU2410 DVU1858 DVU0938 DVUA0037 DVU1035 DVUA0043 DVU2285 DVU0279 DVU0053 Change in expression ata: Putative designation or function VOL. 72, 2006...”
- Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach
Mukhopadhyay, Journal of bacteriology 2006 - “...0.30 (0.55) 0.76 (1.32) (NA) Lactate permeases DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3284 b2975 NA NA NA NA b2975 l-Lactate l-Lactate l-Lactate l-Lactate...”
- Combining metabolic flux analysis with proteomics to shed light on the metabolic flexibility: the case of Desulfovibrio vulgaris Hildenborough.
Marbehan, Frontiers in microbiology 2024 - “...Lactate permeases, putative Q72B55 DVU_1783 27.4 3 14 2 Q72A87 DVU_2110 57.9 5 9 3 Q729R4 DVU_2285 53.0 5 13 5 Q725Z0 DVU_3284 57.7 Sulfate reduction Sulfate permeases Q72FD5 DVU_0279 60.6 9 21 8 Q72G10 DVU_0053 68.1 5 14 4 Sulfate adenylyl transferase Sat Q72CI8 DVU_1295...”
AB57_0116 L-lactate permease from Acinetobacter baumannii AB0057
27% identity, 97% coverage
- Transcriptome analysis of Porphyromonas gingivalis and Acinetobacter baumannii in polymicrobial communities
Miller, Molecular oral microbiology 2018 - “...every strain possesses a capsule encoded locus, including AB0057 used in this study (AB57_0090 - AB57_0116). Within this locus 10/27 genes were significantly up-regulated in the heterotypic community compared to Ab alone ( Table 4 ), including the tyrosine kinase (AB57_0091) and the wza gene (AB57_0093)...”
- “...AB57_0112 NDP-sugar dehydrogenase 0.13951 AB57_0113 glucose-6-phosphate isomerase 0.1811 AB57_0114 UDP-glucose 4-epimerase 0.14976 AB57_0115 phosphomannomutase 0.4157 AB57_0116 L-lactate permease 0.67559 AB57_1078 hypothetical protein, wzi homolog 0.99645 1 Results are expressed as log 2 fold change in PgAb compared to Ab alone. Higher mRNA levels are represented as...”
- Repeated local emergence of carbapenem-resistant Acinetobacter baumannii in a single hospital ward
Schultz, Microbial genomics 2016 - “...number CP001182 , locus tag AB57_0088) and IldP (GenBank accession number CP001182 , locus tag AB57_0116). For the 12 genomes in which the KL was split across multiple contigs, we used Bandage version 0.7.0 ( Wick et al. , 2015 ) to inspect the assembly graph...”
- Variation in the complex carbohydrate biosynthesis loci of Acinetobacter baumannii genomes
Kenyon, PloS one 2013 - “...NAc 2-epimerase. The larger locus is located between fkpA and lldP [locus tags AB57_0090 and AB57_0116 in CP001182], which encode a peptidyl-prolyl cis-trans isomerase and an L-lactate permease respectively, that would not contribute to polysaccharide synthesis. Nine types were found in the 10 genomes assessed (...”
HP0140 L-lactate permease (lctP) from Helicobacter pylori 26695
27% identity, 98% coverage
- Helicobacter pylori initiates successful gastric colonization by utilizing L-lactate to promote complement resistance
Hu, Nature communications 2023 - “...lactate uptake to the cytoplasm. H. pylori has two lactate permeases called LctP1 and LctP2 (HP0140 and HP0141) that have been shown to promote lactate uptake in a distinct H. pylori strain 23 . The H. pylori lactate uptake pathway shares the basic same principles as...”
- “...previously 60 . To delete the lactate permease coding genes, the coding region of both hp0140 and hp0141 were entirely replaced by a chloramphenicol resistance cassette ( cat ), selected by chloramphenicol (25g/ml) and the mutants verified by PCR amplification. The primer set is provided in...”
- The Role of a Dipeptide Transporter in the Virulence of Human Pathogen, Helicobacter pylori
Xu, Frontiers in microbiology 2021 - “...HP0117 Predicted gene 1.3026 HP0119 Predicted gene 2.2661 HP0131 Predicted gene 1.7324 HP0132 sdaA 1.2527 HP0140 lctP 1.1428 HP0142 mutY 1.0653 HP0143 Predicted gene 1.0272 HP0230 kdsB 1.2419 HP0260 mod 1.4971 HP0261 Predicted gene 1.1733 HP0262 Predicted gene 1.128 HP0263 hpaim 1.3069 HP0328 lpxK 1.5594 HP0329...”
- Gastric Metabolomics Detects Helicobacter pylori Correlated Loss of Numerous Metabolites in Both the Corpus and Antrum
Keilberg, Infection and immunity 2021 (secret) - Identification of the genes that contribute to lactate utilization in Helicobacter pylori
Iwatani, PloS one 2014 - “...Amp r , Kan r lab collection pSI01 TOPO vector with 4.8 kb fragment containing hp0140 - hp0141 This study pSI02 pSI01 derivative with hp0140 - hp0141 :: cat This study pSI03 TOPO vector with 2.8 kb fragment containing hp1222 . This study pSI04 pSI03 derivative...”
- “...hp138-qF/hp138-qR, hp140-qF/hp140-qR, hp1222-qF/hp1222-qR, and Hp16S-F/Hp16S-R were used to amplify 100150 bp of each hp0138 , hp0140 , hp1222 , and 16S rRNA gene. Real-time quantitative PCRs were performed in 7300 Real-Time PCR System (Applied Biosystems) using Taqman-designed primers and probes (Life Technologies) and the data were...”
- The orphan response regulator HP1021 of Helicobacter pylori regulates transcription of a gene cluster presumably involved in acetone metabolism
Pflock, Journal of bacteriology 2007 - “...JHP1239 JHP1445 JHP1444 HP0302 Transport and binding proteins HP0140 HP0299 HP0300 HP1315 HP1316 HP1318 HP1319 HP1554 HP1555 VOL. 189, 2007 2343 JHP0881 JHP0887...”
- “...growth phase (34). However, only 5 (hp0229, hp0630, hp0140, hp0686, and hp1400) of the other 60 genes which were reported to undergo significant changes...”
- Gene expression profiling of Helicobacter pylori reveals a growth-phase-dependent switch in virulence gene expression
Thompson, Infection and immunity 2003 - “...HP1309d HP1312d HP1313d HP1319d HP1555 Transport and binding HP0140 HP0686e HP0876e HP1170d HP1172d,e Symbol 2650 THOMPSON ET AL. controls the synthesis of...”
- Growth phase-dependent response of Helicobacter pylori to iron starvation
Merrell, Infection and immunity 2003 - “...2.5 4.1 2.7 2.1 Transport and binding proteins HP0140 HP0301 *#HP0686 *#HP0807 #HP0876 HP0942 *HP1017 HP1172 JHP0128 JHP0286 JHP0626 JHP0743 JHP0810 JHP0877...”
- Acid-induced gene expression in Helicobacter pylori: study in genomic scale by microarray
Ang, Infection and immunity 2001 - “...HP0010-2 HP1562 HP1072 HP0853 HP0300 HP1011 HP0194 HP0140 Cochaperone and heat shock protein (grpE) Guinone-reactive Ni-Fe hydrogenase (hydD) Quinone-reactive...”
CJJ81176_0113 L-lactate permease from Campylobacter jejuni subsp. jejuni 81-176
Cj0076c L-lactate permease from Campylobacter jejuni subsp. jejuni NCTC 11168
A911_00360 L-lactate permease from Campylobacter jejuni subsp. jejuni PT14
28% identity, 94% coverage
- Phosphate Transporter PstSCAB of Campylobacter jejuni Is a Critical Determinant of Lactate-Dependent Growth and Colonization in Chickens
Sinha, Journal of bacteriology 2020 (secret) - Proteomic and genomic analysis reveals novel Campylobacter jejuni outer membrane proteins and potential heterogeneity
Watson, EuPA open proteomics 2014 - “...8 41.4 31 36.5 36.9 CJJ81176_0067 Gamma-glutamyltransferase ggt 8 5 8 18.5 10.1 18.5 60.3 CJJ81176_0113 l -Lactate permease lctP 3 1 4 8.4 3.6 9.5 60.1 CJJ81176_0116 Cytolethal distending toxin, subunit A cdtA 3 3 12.3 12.3 29.9 CJJ81176_0124 Lipoprotein, putative 4 3 7 12.8...”
- Gut metabolite L-lactate supports Campylobacter jejuni population expansion during acute infection
Sinha, Proceedings of the National Academy of Sciences of the United States of America 2024 - “...of C. jejuni 11168 wild-type contains four genes in an apparent operon cj0076c-0075c-0074c-0073c , where cj0076c encodes a lactate transporter ( lctP ) and cj0075c-cj0074c-cj0073c encode a nonflavin ironsulfur-containing three subunit membrane oxidoreductase which convert L-lactate to pyruvate. This operon is essential for L-lactate utilization in...”
- Survival of Campylobacter jejuni 11168H in Acanthamoebae castellanii Provides Mechanistic Insight into Host Pathogen Interactions
Nasher, Microorganisms 2022 - “...Cj1382c fldA Flavodoxin I 1.599526 8.35 10 13 Cj0428 Uncharacterized protein 1.589477 1.56 10 22 Cj0076c lctP L-lactate transporter permease 1.57782 1.97 10 9 Cj0398 gatC Glutamyl-tRNA (Gln) aminotransferase subunit C 1.564965 1.01 10 4 Cj0465c ctb Group 3 truncated hemoglobin 1.547660 1.76 10 5 Cj1338c...”
- Survival of Campylobacter jejuni in Acanthamoebae castellanii provides mechanistic insight into host pathogen interactions
Nasher, 2022 - Defining the metabolic requirements for the growth and colonization capacity of Campylobacter jejuni
Hofreuter, Frontiers in cellular and infection microbiology 2014 - “...up by C. jejuni NCTC 11168 with the symport of protons by the transporter protein Cj0076c that belongs to the lactate permease LctP family (TC 2.A.14). In addition, other not yet identified transporter proteins are probably involved in the uptake of L- and D-lactate (Thomas et...”
- Nutrient acquisition and metabolism by Campylobacter jejuni
Stahl, Frontiers in cellular and infection microbiology 2012 - “...an annotated l -lactate permease ( lctP ) a mutant into the lctP gene ( cj0076c ), was still capable of some l -lactate transport, suggesting the existence of a second, as of yet unidentified lactate permease (Thomas et al., 2011 ). Once inside the cell,...”
- Hyperosmotic stress response of Campylobacter jejuni
Cameron, Journal of bacteriology 2012 - “...cj0596 cj1170c 2.1 2.6 2.9 lctP kdpA kdpB peb1A cj0076c cj0676 cj0677 cj0921c cjaB cjaA putP sdaC cj0981c cj0982c cj1502c cj1625c hslV htrA cj0663c cj1228c...”
- Two respiratory enzyme systems in Campylobacter jejuni NCTC 11168 contribute to growth on L-lactate
Thomas, Environmental microbiology 2011 (PubMed)- “...directly downstream of a putative lactate transporter gene (cj0076c, lctP), which was also shown to be specific for L-lactate. The avian and mammalian gut...”
- “...11168 genome encodes a putative L-lactate permease (lctP; cj0076c) but does not possess an orthologue of lldD or any other genes annotated as flavin-dependent...”
- Culture of Campylobacter jejuni with sodium deoxycholate induces virulence gene expression
Malik-Kale, Journal of bacteriology 2008 - “...name Change (fold) Functional classification Cj0056c Cj0069 Cj0076c Cj0105 Cj0107 Cj0136 Cj0146c Cj0153c Cj0453 Cj0471 Cj0472 Cj0473 Cj0475 Cj0499 Cj0537 Cj0698...”
- Campylobacter jejuni acquire new host-derived CRISPR spacers when in association with bacteriophages harboring a CRISPR-like Cas4 protein
Hooton, Frontiers in microbiology 2014 - “...3 CAA (30/30)PT14 Capsular polysaccharide biosynthesis A911_06909 CGCTAAGTTTTACAACTACTCAATTTTTAG 5.5 10 4 CCG (29/30)PT14 L-Lactate permease A911_00360 TAAGATCTTCCAAGCTATGGCTTGAAATTT 5.5 10 4 TAC (29/30)PT14 tRNA mo(5)U34 methyltransferase A911_04710 TT GTAGCGTCTAAAATTTCATTTTTTTCAA 5.5 10 4 TTA + (28/30)PT14 Isocitrate dehydrogenase A911_02585 CS30 ACQUIRED NAIVE SPACERS TAGAGCTTGTTTATAACGGGATAGTTTATT 9.1 10 4 TCT...”
ABZJ_00099 L-lactate permease from Acinetobacter baumannii MDR-ZJ06
27% identity, 96% coverage
- Colistin Resistance in Acinetobacter baumannii MDR-ZJ06 Revealed by a Multiomics Approach
Hua, Frontiers in cellular and infection microbiology 2017 - “...0.032156 ABZJ_01160 hypothetical protein 1.048988 3.144467 0.012194 0.034895 ABZJ_01148 hypothetical protein 1.048966 5.540519 1.77E-05 0.000122 ABZJ_00099 L-lactate permease 1.044891 10.0835 8.49E-08 9.61E-07 ABZJ_00901 major facilitator superfamily multidrug resistance protein 1.016944 9.235389 1.47E-08 1.91E-07 ABZJ_01775 6-pyruvoyl-tetrahydropterin synthase 1.014549 10.17374 3.05E-12 6.84E-11 ABZJ_03786 VirP protein 1.0004 6.133241 3.35E-06...”
A1S_0067 L-lactate permease from Acinetobacter baumannii ATCC 17978
ABUW_3814 L-lactate permease from Acinetobacter baumannii
27% identity, 96% coverage
- DNA damage response coregulator <i>ddrR</i> affects many cellular pathways and processes in <i>Acinetobacter baumannii</i> 17978
Cook, Frontiers in cellular and infection microbiology 2023 - “...upreg NSD KZA74_16540 A1S_0378 NSD NSD KZA74_17025 A1S_0279 upreg NSD gpmI A1S_0230 upreg NSD lldP A1S_0067 NSD NSD KZA74_18085 A1S_0066 NSD NSD wbpD A1S_0054 NSD NSD murJ A1S_0046 NSD NSD ileS A1S_0020 NSD NSD lspA A1S_0019 NSD NSD KZA74_18340 A1S_0018 upreg NSD KZA74_18375 A1S_r downreg NSD...”
- Lactate metabolism promotes in vivo fitness during Acinetobacter baumannii infection
Morris, FEMS microbiology letters 2024 - “...using M13, AP1800 and AP1801. The complementation vector, pAP168, was generated by amplification of lldPRD (ABUW_3814, -3813, -3812) from A. baumannii strain AB5075-UW using AP1803 and AP1760, followed by digestion and ligation into pBASE-Hyg R using Hind III and BamH I restriction sites. The lldP transposon...”
- “...more contemporary, clinical A. baumannii clonal type I strains, AB307-0294 and AB5075-UW. Expression of lldP (ABUW_3814) was upregulated in blood during a systemic mammalian infection compared to in vitro growth by 10-, 420- and 36- fold in A. baumannii strains ATCC 17978, AB5075-UW and AB307-0294, respectively...”
AEX15_02655, SeKA_A3314 L-lactate permease from Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188
27% identity, 98% coverage
- Genomic and Evolutionary Analysis of Two Salmonella enterica Serovar Kentucky Sequence Types Isolated from Bovine and Poultry Sources in North America
Haley, PloS one 2016 - “...4943 SeKA_A2676 (tRNA-Phe), SeKA_A2689 AEX15_04620 (tRNA-Phe), AEX15_04645 11 hypothetical proteins, putative autotransporter 5146 SeKA_A3310, SeKA_A3314 AEX15_02655, AEX15_02660 12 hypothetical proteins 5073 SeKA_A3672, SeKA_A3678 AEX15_19610, AEX15_19615 13 DNA phosphorothioation, hypothetical proteins, integrase D 17034 SeKA_A4142 (tRNA-Leu), SeKA_A4161 C SEEK9263_t17079 (tRNA-Leu), SEEK9263_16827 C 14 type I restriction-modification system,...”
- “...D 4943 SeKA_A2676 (tRNA-Phe), SeKA_A2689 AEX15_04620 (tRNA-Phe), AEX15_04645 11 hypothetical proteins, putative autotransporter 5146 SeKA_A3310, SeKA_A3314 AEX15_02655, AEX15_02660 12 hypothetical proteins 5073 SeKA_A3672, SeKA_A3678 AEX15_19610, AEX15_19615 13 DNA phosphorothioation, hypothetical proteins, integrase D 17034 SeKA_A4142 (tRNA-Leu), SeKA_A4161 C SEEK9263_t17079 (tRNA-Leu), SEEK9263_16827 C 14 type I restriction-modification...”
STM3692 LctP transporter, L-lactate permease from Salmonella typhimurium LT2
STM14_4451 L-lactate permease from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
27% identity, 98% coverage
HPYLPMSS1_00131 L-lactate permease from Helicobacter pylori PMSS1
27% identity, 98% coverage
ACIAD0106 L-lactate permease from Acinetobacter sp. ADP1
27% identity, 97% coverage
TepiRe1_2531 L-lactate permease from Tepidanaerobacter acetatoxydans Re1
30% identity, 92% coverage
C8J_0069 L-lactate permease from Campylobacter jejuni subsp. jejuni 81116
28% identity, 94% coverage
BAS5077 L-lactate permease from Bacillus anthracis str. Sterne
GBAA5464 L-lactate permease from Bacillus anthracis str. 'Ames Ancestor'
28% identity, 96% coverage
PP4735, PP_4735 L-lactate transporter from Pseudomonas putida KT2440
27% identity, 97% coverage
GlcA / b2975 glycolate/lactate:H+ symporter GlcA from Escherichia coli K-12 substr. MG1655 (see 3 papers)
glcA / Q46839 glycolate/lactate:H+ symporter GlcA from Escherichia coli (strain K12) (see 3 papers)
GLCA_ECOLI / Q46839 Glycolate permease GlcA from Escherichia coli (strain K12) (see 3 papers)
TC 2.A.14.1.2 / Q46839 Glycolate permease, GlcA or YghK (substrates: L-lactate, D-lactate and glycolate) from Escherichia coli (see 5 papers)
b2975 glycolate transporter from Escherichia coli str. K-12 substr. MG1655
29% identity, 96% coverage
- function: Uptake of glycolate across the membrane (PubMed:11283302, PubMed:11785976). Can also transport L-lactate and D-lactate (PubMed:11283302, PubMed:11785976). Seems to be driven by a proton motive force (PubMed:11785976).
catalytic activity: glycolate(in) + H(+)(in) = glycolate(out) + H(+)(out) (RHEA:29411)
catalytic activity: (S)-lactate(in) + H(+)(in) = (S)-lactate(out) + H(+)(out) (RHEA:29415)
catalytic activity: (R)-lactate(in) + H(+)(in) = (R)-lactate(out) + H(+)(out) (RHEA:71791)
disruption phenotype: The glcA-lldP double mutant is unable to grow on glycolate and displays undetectable glycolate uptake when grown in the presence of glycolate. - substrates: Glycolate, Lactate
tcdb comment: Encoded in an operon with malate synthase and glycolate oxidase (Moraes and Reithmeier 2012) - Characterization and potential mechanisms of highly antibiotic tolerant VBNC Escherichia coli induced by low level chlorination
Ye, Scientific reports 2020 - “...protein toxic-protein 45 b4664 ibsD toxic membrane protein toxic-protein b4687 shoB toxic membrane protein toxic-protein b2975 glcA glycolate transporter transporter 57 , 58 b3599 mtlA mannitol-specific PTS enzyme: IIA, IIB and IIC components transporter b1743 spy periplasmic ATP-independent protein refolding chaperone, stress-induced stress-induced protein 59 b0221...”
- More than just a metabolic regulator--elucidation and validation of new targets of PdhR in Escherichia coli
Göhler, BMC systems biology 2011 - “...b0089 ftsW $ 0.073 4.664 b4467 glcF $ 1.163 0.275 b0084 ftsI $ 0.140 4.556 b2975 glcA $ 1.144 0.400 b0082 mraW $ -0.056 4.297 b2977 glcG $ 1.056 2.315 b0087 mraY $ 0.086 4.229 b2601 aroF 1.051 1.723 b0125 hpt 0.002 4.149 b3828 metR 1.035...”
- Genetics and molecular biology of the electron flow for sulfate respiration in desulfovibrio
Keller, Frontiers in microbiology 2011 - “...0.38 0.40 Y 1999 sul-1 Sulfate transporter family protein 0.13 0.06 0.01 0.75 Y 2110 b2975 L-lactate permease 0.79 0.65 0.13 0.85 Y 2285 lctP-1 L-lactate permease family protein 2.34 0.31 0.20 0.13 Y 2451 lctP-2 L-lactate permease family protein 1.05 0.07 0.28 0.69 Y 2683...”
- “...1.41 0.27 0.25 0.47 Y 3026 lldP-2 L-lactate permease 0.23 0.11 0.13 0.74 Y 3284 b2975 L-lactate permease 1.28 1.07 0.51 1.68 Y 0446 dhlC Sodium/solute symporter family protein 1.51 0.09 0.23 1.98 Y 0088 panF Sodium/pantothenate symporter 1.16 0.61 0.07 0.09 Y D. MEMBRANE-BOUND ELECTRON...”
- Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach
Mukhopadhyay, Journal of bacteriology 2006 - “...permeases DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3284 b2975 NA NA NA NA b2975 l-Lactate l-Lactate l-Lactate l-Lactate l-Lactate l-Lactate 0.75 (1.43)...”
BDU_605 L-lactate permease from Borrelia duttonii Ly
28% identity, 94% coverage
SO0827 propionate/L-lactate/D-lactate transporter from Shewanella oneidensis MR-1
SO0827 L-lactate permease from Shewanella oneidensis MR-1
SO_0827 lactate permease LctP family transporter from Shewanella oneidensis MR-1
28% identity, 98% coverage
- mutant phenotype: Specifically important for propionate utilization. Another study named it lctP2 and found that it was involved in utilization of both L- and D-lactate (PMC5603553)
- Detection of transcriptional triggers in the dynamics of microbial growth: application to the respiratorily versatile bacterium Shewanella oneidensis
Beg, Nucleic acids research 2012 - “...to propagate to the downstream nodes: lldR is likely responsible for the subsequent repression of SO0827 ( l -lactate permease of the LctP family) and lldE (subunit of l -lactate dehydrogenase) ( 74 , 88 ). It is worth noting that both lldE and SO0827 show...”
- “...while lldR tends to increase, suggesting that lldR acts as a repressor of lldE and SO0827 ( Figure 5 A). Alternatively, these two genes might be coregulated by other TRs or other signalling circuits, as corroborated by the fact that both score very high in the...”
- Fnr (EtrA) acts as a fine-tuning regulator of anaerobic metabolism in Shewanella oneidensis MR-1
Cruz-García, BMC microbiology 2011 - “...putative lactate permease (SO1522). The only gene directly down-regulated from this later group is lldP (SO0827), for which an EtrA binding site was predicted (Table 3 ). As expected, the cDNA for etrA , shows no significant hybridization signal in EtrA7-1 mutant (ratio 0.05). Stress response...”
- “...and a putative EtrA binding site was predicted for the gene encoding a lactate permease (SO0827) in MR-1. Impaired growth of EtrA7-1 could also be due to stress factors caused or enhanced by the deletion (e.g. accumulation of nitrogen oxide reactive species and starvation). The expression...”
- The Small RNA RyhB Is a Regulator of Cytochrome Expression in Shewanella oneidensis
Meibom, Frontiers in microbiology 2018 - “...6.49E-02 Ib SO_0435 Uroporphyrinogen decarboxylase HemE 1.20 4.0E-05 0.92 1.04E-03 0.28 3.15E-01 0.27 3.00E-01 Ib SO_0827 Lactate permease 1.81 8.9E-08 1.51 2.43E-06 0.30 1.68E-01 0.34 9.19E-02 Ib SO_1072 N-acetylglucosamine-binding protein A GbpA 2.24 3.1E-06 1.77 9.80E-05 0.47 2.30E-01 0.25 5.53E-01 Ib SO_1192 Predicted extracytoplasmic protein 1.11...”
- Investigation of a spontaneous mutant reveals novel features of iron uptake in Shewanella oneidensis
Dong, Scientific reports 2017 - “...lactate transport remain untouched. The S. oneidensis genome encodes two putative lactate transporters, SO_1522 and SO_0827; the former is clustered with metabolizing genes ( dld (SO_1521), D-lactate dehydrogenase; lldEFG (SO_1518-20), L-lactate dehydrogenase) for both D- and L-lactate, while the latter is located somewhere on the chromosome....”
- “...its sequence similarities to E. coli lactate permeases are rather modest. To test roles of SO_0827 and SO_1522 in lactate uptake, we constructed mutants lacking each or both of these genes. In MS medium containing 30mM Lactate, loss of either SO_0827 or SO_1522 led to impaired...”
- CRP Regulates D-Lactate Oxidation in Shewanella oneidensis MR-1
Kasai, Frontiers in microbiology 2017 - “...-lactate. In addition to lldP , the MR-1 genome encodes another putative lactate permease, LctP (SO_0827), which shows high homologies to LldP and GlcA in E. coli (66.0 and 65.7% identities, respectively). It is therefore likely that MR-1 takes up D - and/or L -lactate using...”
- Involvement of a membrane-bound class III adenylate cyclase in regulation of anaerobic respiration in Shewanella oneidensis MR-1
Charania, Journal of bacteriology 2009 - “...of California, Berkeley CRP- and CyaC-upregulated genes SO_0827 SO_1422 SO_1427 SO_1428 SO_1429 SO_1430 SO_1431 SO_1432 SO_1776 SO_1777 SO_1778 SO_1779 SO_3285...”
Dde_1074 Putative permease from Desulfovibrio desulfuricans G20
28% identity, 99% coverage
F6476_01160 lactate permease LctP family transporter from Pseudomonas umsongensis
27% identity, 96% coverage
BC_0612 L-lactate permease from Bacillus cereus ATCC 14579
BC0612 L-lactate permease from Bacillus cereus ATCC 14579
26% identity, 94% coverage
- Proteomic evidences for rex regulation of metabolism in toxin-producing Bacillus cereus ATCC 14579
Laouami, PloS one 2014 - “...0,903 0,007 0,358 0,341 NP_830432.1 - BC_0615 Di-/tripeptide transporter 0,837 0,047 0,422 0,232 NP_830429.1 - BC_0612 L-lactate permease 0,748 0,026 0,644 0,261 Stress response-related proteins NP_831381.1 - BC_1603 Cold shock protein 1,120 0,037 0,474 0,277 NP_830286.1 TelA BC_0447 Tellurite resistance protein 0,084 0,432 0,840 0,008 NP_833675.1...”
- SigB modulates expression of novel SigB regulon members via Bc1009 in non-stressed and heat-stressed cells revealing its alternative roles in Bacillus cereus
Yeak, BMC microbiology 2023 - “...stress protein family 4.2 0.7 S 15 BC0422 BC0422 Methyl-accepting chemotaxis protein 4.1 NT 16 BC0612 BC0612 L-lactate permease 3.9 C 17 BC1663 FliN Flagellar motor switch protein fliN 3.8 3.6 NU 18 BC0613 BC0613 Transcriptional regulator, ArsR family 3.8 K 19 BC5077 BC5077 Protein with...”
- Assessment of CcpA-mediated catabolite control of gene expression in Bacillus cereus ATCC 14579
van, BMC microbiology 2008 - “...RZC01896 0.92 0.58 + Ldh L-lactate dehydrogenase BC1924 RZC05932 0.44 1.05 - lctP L-lactate permease BC0612 RZC01585 0.34 1.21 - pta Phosphate acetyltransferase BC5387 RZC05214 0.61 0.70 1 ackA Acetate kinase BC4637 RZC02436 0.93 1.29 1 Citric acid cycle citZ 1 Citrate synthase BC4594 RZC01265 3.76...”
BA0610 L-lactate permease from Bacillus anthracis str. Ames
27% identity, 94% coverage
- New insights into the downregulation of cytochrome P450 2E1 via nuclear factor κB-dependent pathways in immune-mediated liver injury
Zou, Heliyon 2023 - “...(catalogue number: PBM0401), CREB (catalogue number: PB0513), phospho-CREB (P-CREB, catalogue number: P00577), NF-B (catalogue number: BA0610), glyceraldehyde-3-phosphate dehydrogenase (GAPDH; catalogue number: BA2913), and -tubulin (catalogue number: A01857-1), were purchased from Wuhan Boster Biological Engineering Co. Ltd. (Hubei, China). The total RNA extraction kit, cDNA synthesis kit,...”
- NF-κB-mediated regulation of rat CYP2E1 by two independent signaling pathways
Lin, PloS one 2019 - “...rabbit polyclonal antibodies for CYP2E1 (catalog number: PB0186), iNOS (catalog number: EK0394), NF-B (catalog number: BA0610), Lamin A/C (LMNA) antibody (catalog number: BA1227), and GAPDH (catalog number: BA2913); BCA protein assay kit (catalog number: AR0146), rat IL-1 enzyme-linked immunosorbent assay (ELISA) kit (catalog number: BA2913), and...”
BB0604 L-lactate permease (lctP) from Borrelia burgdorferi B31
BB_0604 L-lactate permease from Borreliella burgdorferi B31
26% identity, 99% coverage
- Weak Organic Acids Decrease Borrelia burgdorferi Cytoplasmic pH, Eliciting an Acid Stress Response and Impacting RpoN- and RpoS-Dependent Gene Expression
Dulebohn, Frontiers in microbiology 2017 - “...unlike acetate (used in undecaprenyl-P synthesis) and lactate (used in anaerobic metabolism and secreted by BB0604), is not metabolized or actively transported/exported by B. burgdorferi . With no transporters or enzymes to eliminate benzoate or propionate, they likely accumulate in the cytoplasm, resulting in the greatest...”
- Global Tn-seq analysis of carbohydrate utilization and vertebrate infectivity of Borrelia burgdorferi
Troy, Molecular microbiology 2016 - “...transporter chr 421166 bb0408 fruA1 0.05 2.2510 4 0.11 19.75 PTS, EIIABC component chr 630181 bb0604 lctP 0.00 0.00 0.00 24.71 L-lactate permease chr 661151 bb0629 fruA2 0.00 0.00 0.00 34.95 PTS, EIIABC component chr 661155 bb0629 fruA2 1.41 0.31 2.51 5297.91 PTS, EIIABC component chr...”
- Stage-specific global alterations in the transcriptomes of Lyme disease spirochetes during tick feeding and following mammalian host adaptation
Iyer, Molecular microbiology 2015 - “...metabolism to make use of alternative energy sources. B. burgdorferi encodes a lactate permease (LctP, BB0604) which mediates uptake of extracellular lactate, likely as a lactate:H + symporter ( Saier et al. , 1999 ). Transcription of lctP is significantly induced (516 fold) in both feeding...”
- “...nymphs), the spirochete will utilize alternative energy sources. B. burgdorferi encodes a lactate permease (LctP, BB0604) whose expression is significantly induced in both feeding larvae and nymphs. This will promote lactate uptake resulting in conversion of lactate to pyruvate and production of NADH. The elevated pyruvate...”
- Transposon mutagenesis as an approach to improved understanding of Borrelia pathogenesis and biology
Lin, Frontiers in cellular and infection microbiology 2014 - “...Variable infectivity OppA-5 BBA34 Variable infectivity BesA BB0141 Intermediate infectivity BesC BB0142 Intermediate infectivity LctP BB0604 Non-infectious NhaC-1 BB0637 Non-infectious NhaC-2 BB0638 Non-infectious Na + /Ca + exchange protein BB0164 Intermediate infectivity GlpF BB0240 Intermediate infectivity GltP BB0729 Intermediate infectivity purine permease P1 BBB22 Intermediate infectivity...”
- The β₃-integrin ligand of Borrelia burgdorferi is critical for infection of mice but not ticks
Ristow, Molecular microbiology 2012 - “...we have not ruled out the possibility that it is due to aberrant expression of bb0604 or a truncated version of bb0602 also encoded on the shuttle vector. We speculate that overexpression of P66 may indicate there is a delicate balance in expression of P66 required...”
- Characterization of multiprotein complexes of the Borrelia burgdorferi outer membrane vesicles
Yang, Journal of proteome research 2011 - “...manipulation did not introduce apparent polar effects, as the mutant expressed neighboring genes bb0602 and bb0604 at levels similar to the wild-type isolate ( Figure 4B ). Additionally, deletion of p66 did not alter B. burgdorferi growth kinetics in vitro ( Figure 4D ). To assess...”
- “...) B. burgdorferi , converted to cDNA for detection of p66, flaB , bb0602 and bb0604 transcripts. (C) Protein analysis of wild type (WT) and p66 mutant ( p66 ). Equal amounts of protein were separated on SDS-PAGE gels and either stained with Coomassie blue (upper...”
- Rrp1, a cyclic-di-GMP-producing response regulator, is an important regulator of Borrelia burgdorferi core cellular functions
Rogers, Molecular microbiology 2009 - “...genes with lower mRNA levels in Bb 5A13- rrp1 included lctP , a L-lactate permease (BB0604), fruA-2 , a fructose-specific IIABC component (BB0629), and proteins of the glucose, maltose, glucosamine, and N -acetylglucosamine transporter systems [PTS system, maltose- and glucose-specific IIABC component malX (BBB29), and glucose-specific...”
- “...) CE 104 0.0475 BB0600 hypothetical protein U 13.6 0.0181 Narasimhan et al . (2002) BB0604 L-lactate permease ( lctP ) TP 4.63 0.0297 BB0617 hypothetical protein U 33.9 0.0146 BB0620 beta-glucosidase, putative IM 17.8 0.0142 BB0625 N -acetylmuramoyl-L-alanine amidase, putative CE 6.25 0.00591 BB0629 PTS...”
- Distinction between Borrelia and Borreliella is more robustly supported by molecular and phenotypic characteristics than all other neighbouring prokaryotic genera: Response to Margos' et al. "The genus Borrelia reloaded" (PLoS ONE 13(12): e0208432)
Gupta, PloS one 2019 - “...protein BT0471 1 119953261 1 aa del BB_0471 216261 L-lactate permease 386859838 1 aa ins BB_0604 195239 Sodium/panthothenate symporter 119953591 1 aa ins BB_0814 421454 These 8 CSIs were described as specific for the RF clade of Borrelia species in our earlier work [ 6 ]....”
ESA_RS17695 L-lactate permease from Cronobacter sakazakii ATCC BAA-894
28% identity, 97% coverage
- The Global Response of Cronobacter sakazakii Cells to Amino Acid Deficiency
Chen, Frontiers in microbiology 2018 - “...Carbon starvation protein A ESA_RS13480 yaiZ -5.42 Membrane protein ESA_RS02285 sdaB -5.51 L -serine ammonia-lyase ESA_RS17695 lldP -5.55 L -lactate permease ESA_RS04410 glpQ -5.83 Glycerophosphoryl diester phosphodiesterase ESA_RS04990 mglC -5.98 Galactoside ABC transporter permease ESA_RS04980 mglB -5.99 Galactose ABC transporter substrate-binding protein ESA_RS04985 mglA -6.05 Galactose/methyl...”
LUTP_BACSU / P71067 L-lactate permease from Bacillus subtilis (strain 168) (see paper)
TC 2.A.14.1.3 / P71067 L-lactate permease from Bacillus subtilis (strain 168) (see 3 papers)
27% identity, 92% coverage
PS417_24105 D-lactate transporter (lctP family) from Pseudomonas simiae WCS417
28% identity, 95% coverage
- mutant phenotype: specific phenotype for D-lactate and no other transporter for D-lactate was apparent in the fitness data. Also important for utilization of D,L-lactate. Not clear if it transports L-lactate as well or not, but since it is in an apparent operon with a D-lactate dehydrogenase (PS417_24110), its main role is probably for transport of D-lactate.
PFLU5278 glycolate permease from Pseudomonas fluorescens SBW25
27% identity, 95% coverage
PA4770 L-lactate permease from Pseudomonas aeruginosa PAO1
28% identity, 95% coverage
- Reconciling high-throughput gene essentiality data with metabolic network reconstructions
Blazier, PLoS computational biology 2019 - “...PA3686 adk Adenylate kinase Nucleotide PA4050 pgpA Phosphatidylglycerophosphatase A Lipid PA4693 pssA Phosphatidylserine synthase Lipid PA4770 lldP L-lactate permease Transport PA5322 algC Phosphomannomutase AlgC Carbohydrate PA5357 ubiC Chorismate pyruvate lyase Cofactors and Vitamins In addition to changes in the GPR formulation for specific reactions, we also...”
- Genome-wide patterns of recombination in the opportunistic human pathogen Pseudomonas aeruginosa
Dettman, Genome biology and evolution 2014 - “...transport/detoxification, copper binding PA4541 lepA , secreted protease, filamentous hemagglutinin, adherance to host or biofilm PA4770 lldP , L-lactate permease, monocarboxylic acid transport PA4898 opdK , outer membrane vanillate porin, oprD family PA5090 Type-VI secretion protein, Rhs element, Vgr-family protein PA5248 Cytochrome c/iron permease family protein...”
- Novel targets of the CbrAB/Crc carbon catabolite control system revealed by transcript abundance in Pseudomonas aeruginosa
Sonnleitner, PloS one 2012 - “...(22 to 11) PA4501 opdD 2,53 2,64 glycine-glutamate dipeptide porin OpdP AACAAUAA (37 to 30) PA4770 lldP 2,96 L-lactate permease AACAACAA (25 to 18) PA4913 6,89 2,07 probable binding protein component of ABC transporter AACAACAA (53 to 46) PA5112 estA 2,25 2 2,23 esterase EstA AAAAACAA...”
- Transcriptome profiling defines a novel regulon modulated by the LysR-type transcriptional regulator MexT in Pseudomonas aeruginosa
Tian, Nucleic acids research 2009 - “...32 19 Hypothetical protein PA4354 11 <2 Conserved hypothetical protein PA4623 74 <2 Hypothetical protein PA4770 lldP 43 46 l -lactate permease PA4771 lldD 28 70 l -lactate dehydrogenase PA4772 7.0 19 Probable ferredoxin PA4881 751 <2 Hypothetical protein a Gene number from the Pseudomonas Genome...”
- Cystic fibrosis sputum supports growth and cues key aspects of Pseudomonas aeruginosa physiology
Palmer, Journal of bacteriology 2005 - “...PA4229 PA4230 PA4231 PA4471 PA4498 PA4514 PA4570 PA4633 PA4770 PA4771 PA4772 PA4811 PA4834 PA4835 PA4836 PA4837 PA4838 PA4929 PA5303 PA5532 PA5534 PA5535 PA5536...”
- A cystic fibrosis epidemic strain of Pseudomonas aeruginosa displays enhanced virulence and antimicrobial resistance
Salunkhe, Journal of bacteriology 2005 - “...nosR nosZ nosD nosF oprC PA3872 PA3877 PA3913 PA4442 narI narK1 PA4587 PA4770 PA4918 ccpR lldP a LB LES400 2 vs PAO1 24 6.6 62 5.9 4.2 9.7 5.7 13 23 7.7 37 4.6...”
- Transcriptome analysis of Pseudomonas aeruginosa after interaction with human airway epithelial cells
Frisk, Infection and immunity 2004 - “...putative proteins involved in membrane transport (PA2019, PA4770 [lldP], PA2673, PA1540, and PA2437; Table 2). Additional activated genes encode probable...”
- “...changea PA4826 PA1885 PA2019 9.4 8.6 8.5 0.044 0.019 0.050 PA4770 PA5412 PA0805 PA1540 PA0674 PA0142 PA0163 PA2673 8.2 7.5 7.0 6.7 6.3 6.2 5.8 5.5 0.027 0.005...”
- Identification, timing, and signal specificity of Pseudomonas aeruginosa quorum-controlled genes: a transcriptome analysis
Schuster, Journal of bacteriology 2003 - “...PA3790 PA4359 PA4371 PA4442 PA4443 PA4691 PA4692 PA4770 PA5168 lasI rhlI mutant Description VOL. 185, 2003 TRANSCRIPTOME ANALYSIS OF QUORUM-CONTROLLED GENES...”
THER_0621 L-lactate permease from Thermodesulfovibrio sp. N1
27% identity, 92% coverage
PTH_2229 L-lactate permease from Pelotomaculum thermopropionicum SI
27% identity, 90% coverage
AO356_07550 L-lactate and D-lactate permease (lctP family) from Pseudomonas fluorescens FW300-N2C3
27% identity, 95% coverage
- mutant phenotype: This gene is often annotated as a L-lactate transporter but has a specific phenotype on D-lactate as well. Although it is difficult to rule out polar effects on the lactate dehydrogenase genes downstream, this gene's phenotype on D-lactate is conserved and is observed on both strands, and no other D-lactate transporter was identified by the mutant fitness data. (There is a zinc ABC transporter with a specific defect on D-lactate, but it is very similar to znuABC of P. aeruginosa, i.e. AO356_11480 is 65% identical to PA5498, so it is unlikely to be a lactate transporter.) Furthermore, the annotation as lactate permease seems to be derived from E. coli glcA or yghK, which transports both isomers of lactate (PMID:11283302).
Avin_43070 L-lactate permease from Azotobacter vinelandii AvOP
28% identity, 96% coverage
RSPO_c02391 L-lactate permease from Ralstonia solanacearum Po82
25% identity, 95% coverage
- A genome-wide scan for genes under balancing selection in the plant pathogen Ralstonia solanacearum
Castillo, BMC evolutionary biology 2019 - “...1-deoxy-d-xylulose-5-phosphate synthase protein IIB/chromosome RSPO_c01332 ripAJ 2 0.0226** 2.2473** 1.5336** Type III effector protein IIB/chromosome RSPO_c02391 lldP 1 0.0183** 1.9736** 1.4823** l-lactate permease protein IIB/chromosome RSPO_c02306 lepA 1 0.0268** 2.0272** 1.5718** GTP-binding elongation factor IIB/chromosome RSPO_c01998 ripG7 3 0.0804** 2.0276** 1.4278** Type III effector protein (formerly...”
PG1340 L-lactate permease from Porphyromonas gingivalis W83
28% identity, 97% coverage
- Hemin availability induces coordinated DNA methylation and gene expression changes in Porphyromonas gingivalis
Costeira, mSystems 2023 - “...P. gingivalis . In Lewis et al. ( 50 ), hmuY and a lactate permease (PG1340) were both downregulated in micro-aerophilic conditions; and extracellular lactate was significantly reduced in anaerobiosis, while intracellular lactate was unaffected. In Moradali and Davey ( 51 ), exogenously added lactate to...”
- Porphyromonas gingivalis and Treponema denticola exhibit metabolic symbioses
Tan, PLoS pathogens 2014 - “...) were found to cross-hybridize to P. gingivalis DNA and six P. gingivalis probes ( PG1340 , PG1473 , PG1525 , PG1666 , PG1731 and PG2175 ) were found to cross-hybridize to T. denticola DNA. The expression of these genes was excluded from the subsequent transcriptomic...”
- HcpR of Porphyromonas gingivalis is required for growth under nitrosative stress and survival within host cells
Lewis, Infection and immunity 2012 - “...PG2164 PG1759 PG0055 PG1012 PG0705 PG0758 PG1340 PG0722 Prismane protein Thioredoxin, putative Transcriptional regulator, LuxR family Hypothetical protein...”
- “...(nrfA) PG1614 PG2213 PG1551 (hmuY) PG0195 (rbr) PG0619 (ahpF) PG1053 PG1340 PG1863 PG1431 PG1089 PG1181 2.12 0.7 9.2 104 0.0 * 0.09 0.0 4.20 0.3 0.11 0.0a 0.01...”
- Adaptation of Porphyromonas gingivalis to microaerophilic conditions involves increased consumption of formate and reduced utilization of lactate
Lewis, Microbiology (Reading, England) 2009 - “...expression of a gene encoding the lactate transporter PG1340 suggests decreased utilization of this nutrient. The concentrations of both formate and lactate...”
- “...formate/nitrate transporter PG0209 and downregulation of lactate permease PG1340 (Fig. 2, Tables 1 and 2). The exact pathways in which the various players may...”
ECs4481 L-lactate permease from Escherichia coli O157:H7 str. Sakai
Z_RS23645 L-lactate permease from Escherichia coli O157:H7 str. EDL933
27% identity, 98% coverage
- Global transcriptional response of Escherichia coli O157:H7 to growth transitions in glucose minimal medium
Bergholz, BMC microbiology 2007 - “...nikE -2.38 1 ECs3423 purL -2.45 1 ECs4366 yhiO 4.26 2 ECs3448 trxC 2.24 2 ECs4481 lldP 2.39 2 ECs3463 tyrA 3.67 3 ECs4490 gpmI -3.35 1 ECs3464 aroF 3.30 3 ECs4512 rpmB -2.38 1 ECs3471 yfjA -3.58 1 ECs4553 O157 -2.10 1 ECs3546 emrR -3.47...”
- Transcriptomic Analysis of Viable but Non-Culturable Escherichia coli O157:H7 Formation Induced by Low Temperature
Zhong, Microorganisms 2019 - “...GO terms. Number of Repetitive Times Differences Expression Gene NR Annotation 5 dcu A, Z_RS24500, Z_RS23645, Z_RS21565, Z_RS21275, Z_RS18545, tyr P, Z_RS12305, pro Y, met N, glp T IT, OAT, OATTA, SSTTA, ITTA 4 mgt A IT, OAT, SSTTA, ITTA 3 Z_RS26985, Z_RS26485, Z_RS25225, Z_RS24665, Z_RS22875,...”
b3603 (R)-lactate / (S)-lactate / glycolate:H+ symporter LldP from Escherichia coli BW25113
Lct / b3603 lactate/glycolate:H+ symporter LldP from Escherichia coli K-12 substr. MG1655 (see 5 papers)
lldP / P33231 lactate/glycolate:H+ symporter LldP from Escherichia coli (strain K12) (see 4 papers)
LLDP_ECOLI / P33231 L-lactate permease from Escherichia coli (strain K12) (see 4 papers)
TC 2.A.14.1.1 / P33231 Lactate permease, LctP or LidP (substrates: L-lactate, D-lactate and glycolate) from Escherichia coli (see 7 papers)
NP_418060 lactate/glycolate:H(+) symporter LldP from Escherichia coli str. K-12 substr. MG1655
b3603 L-lactate permease from Escherichia coli str. K-12 substr. MG1655
ETEC_3846 L-lactate permease from Escherichia coli ETEC H10407
27% identity, 98% coverage
- mutant phenotype: This protein is annotated by EcoCyc as transporting both stereoisomers of lactate and glycolate, which is consistent with our genetic data and a more detailed study (PMID:11785976). The previous study found that yghK (glcA) also transported glycolate and was important for glycolyate utilization. We instead observed a very subtle defect of the glcA mutant during growth on glycolate (fitness = -0.5).
- function: Uptake of L-lactate across the membrane (PubMed:11283302, PubMed:11785976). Can also transport D-lactate and glycolate (PubMed:11283302, PubMed:11785976). Seems to be driven by a proton motive force (PubMed:11785976).
catalytic activity: (S)-lactate(in) + H(+)(in) = (S)-lactate(out) + H(+)(out) (RHEA:29415)
catalytic activity: (R)-lactate(in) + H(+)(in) = (R)-lactate(out) + H(+)(out) (RHEA:71791)
catalytic activity: glycolate(in) + H(+)(in) = glycolate(out) + H(+)(out) (RHEA:29411)
disruption phenotype: The glcA-lldP double mutant is unable to grow on glycolate and displays undetectable glycolate uptake when grown in the presence of glycolate. - substrates: Glycolate, Lactate
- Dual role of LldR in regulation of the lldPRD operon, involved in L-lactate metabolism in Escherichia coli.
Aguilera, Journal of bacteriology 2008 - GeneRIF: These results are consistent with the hypothesis that LldR has a dual role, acting as a repressor or an activator of lldPRD operon.
- Bridging the gap: a GFP-based strategy for overexpression and purification of membrane proteins with intra and extracellular C-termini
Hsieh, Protein science : a publication of the Protein Society 2010 - “...P08555 P0AC94 GntU P0AC96 LldP Mtr SdaC TdcC P33231 P0AAD2 P0AAD6 P0AAD8 TyrP ChaA YrbG P0AAD4 P31801 P45394 LacY P02920 Functional category Arsenic efflux...”
- Available carbon source influences the resistance of Neisseria meningitidis against complement
Exley, The Journal of experimental medicine 2005 - “...acid sequence of NMB0543 (accession no. Q9JRD7; EMBL) with LctP from E. coli (accession no. P33231 ; SwissProt). Identical residues are shown with an asterisk, conserved substitutions are shown with two dots, and semiconserved substitutions are shown with one dot. Figure 2. Identification of the N....”
- The proton-linked monocarboxylate transporter (MCT) family: structure, function and regulation
Halestrap, The Biochemical journal 1999 - “...Protein Notes Reference U24155 SP : P36035, AAB60291 SP : P33231 SP : Q57251 SP : P71067 CAA69452 ORF YKL217w Gene lctP [50] [168] [169] [170] [163] (b)...”
- Cloning and sequencing of four new mammalian monocarboxylate transporter (MCT) homologues confirms the existence of a transporter family with an ancient past
Price, The Biochemical journal 1998 - “...- (U29379) - (U41105) - (Z70206) Lactate permease (P33231) Lactate permease (H64110) Lactate permease (D50453) Lactate permease (Y08256) - (Y08256) Partial EST...”
- Identification and characterization of L- and D-lactate-inducible systems from Escherichia coli MG1655, Cupriavidus necator H16 and Pseudomonas species
Augustiniene, Scientific reports 2022 - “...with 65% amino acid sequence identity to the lldP of E. coli MG1655 (locus tag b3603 ) from group I. In this case, other three genes encode proteins with 34%, 40%, and 31% sequences identity to the 3-component Fe-S iLDH encoded by ykgEFG operon from E....”
- NfiS, a species-specific regulatory noncoding RNA of Pseudomonas stutzeri, enhances oxidative stress tolerance in Escherichia coli
Hu, AMB Express 2019 - “...b3654 xanP 1.03 Xanthine permease 6.96E05 34.31 b2536 hcaT 1.02 Putative 3-phenylpropionic transporter 5.03E04 30.89 b3603 lldP 2.13 L-lactate permease 6.31E04 30.47 b2576 srmB 1.49 ATP-dependent RNA helicase 6.91E04 30.29 b2611 ypjD 3.41 Cytochrome c assembly protein family inner membrane protein 7.96E04 30.03 b3783 rho 4.69...”
- Control and benefits of CP4-57 prophage excision in Escherichia coli biofilms
Wang, The ISME journal 2009 - “...trpA b1260 1.6 Tryptophan synthase, -protein trpB b1261 1.6 Tryptophan synthase, -protein Carbohydrate metabolism lldP b3603 3.0 L-lactate permease lldR b3604 2.5 Transcriptional regulator lldD b3605 2.3 L-lactate dehydrogenase sdhA b0723 1.9 Succinate dehydrogenase, flavoprotein subunit sdhB b0724 1.9 Succinate dehydrogenase, iron sulfur protein sdhC b0721...”
- The HU regulon is composed of genes responding to anaerobiosis, acid stress, high osmolarity and SOS induction
Oberto, PloS one 2009 - “...12.98 1 0.67 0.3 8.27 1 0.8 0.98 5.24 This work nucleoside diphosphate kinase lldP b3603 lldPRD 1 49.62 0.9 17.04 1 0.86 0.54 2.38 1 0.58 0.53 0.65 This work L-lactate permease lldR b3604 lldPRD 1 29.89 0.79 15.07 1 0.07 0.13 0.33 1 0.73...”
- Analysis of promoter targets for Escherichia coli transcription elongation factor GreA in vivo and in vitro
Stepanova, Journal of bacteriology 2007 - “...dppA b3544 2.5 2.7 Dipeptide transport protein lldP lldR lldD b3603 b3604 b3605 2 2.5 3.1 2.6 3.5 2 L-Lactate glpK b3926 2.3 4.4 Glycerol kinase glpF b3927 2.9...”
- Transient erythromycin resistance phenotype associated with peptidyl-tRNA drop-off on early UGG and GGG codons
Macvanin, Journal of bacteriology 2007 - “...b2258 b4539 b1317 b2277 b0638 b3564 b1746 b0387 b2896 b3960 b4221 b3603 b2725 Expression in the indicated medium (percentile)c LB M9 28 19 25 42 58 31 ND ND ND...”
- DNA microarray analyses of the long-term adaptive response of Escherichia coli to acetate and propionate
Polen, Applied and environmental microbiology 2003 - “...dctA 1 Uptake of C4-dicarboxylic acids 0.38* 0.63 0.65* b3603 IldP 2 L-Lactate 0.34* 0.46 0.51* b3686 hslS 1 Heat shock protein 1.23 2.06* 1.12* b3708 b3709...”
- Genome-wide transcriptional profiling of the Escherichia coli responses to superoxide stress and sodium salicylate
Pomposiello, Journal of bacteriology 2001 - “...b2095 b0720 b3212 b2947 b3510 b3509 b2237 b1732 b3604 b3603 b4129 b1817 b1818 b1531 b1532 b1530 b3028 b3601 b0578 b1482 b4376 b1897 b0932 b0903 b1014 b3506...”
- The molecular basis for control of ETEC enterotoxin expression in response to environment and host
Haycocks, PLoS pathogens 2015 - “...TCTACAG CA TG 4153191 TGTGA TTGATA TCACA ETEC_3841 mtlA TGTGA TGAACG TCAC G 4158433 n.d. ETEC_3846 lldP 4196869 TG CA A TCGATA TCACA ETEC_3886 dinD 4251326 CT T ACTCCTGC TCACA ETEC_3938 ETEC specific 4266125 G GTGA TGGCATC C G C G ( ETEC_3956 ) ( nepI...”
BWI76_RS27185 L-lactate/D-lactate permease from Klebsiella michiganensis M5al
27% identity, 98% coverage
- mutant phenotype: Specific phenotype: utilization of D-Lactate, L-Lactate. (Some homologs also transport glycolate)
SMLT_RS13840 L-lactate permease from Stenotrophomonas maltophilia K279a
25% identity, 96% coverage
H16_RS19175 lactate permease LctP family transporter from Cupriavidus necator H16
27% identity, 95% coverage
HP0141 L-lactate permease (lctP) from Helicobacter pylori 26695
25% identity, 97% coverage
PFREUD_18660 L-lactate permease from Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1
27% identity, 91% coverage
RM25_RS08745 L-lactate permease from Propionibacterium freudenreichii subsp. freudenreichii
27% identity, 91% coverage
Q725Z0 L-lactate permease from Nitratidesulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / CCUG 34227 / NCIMB 8303 / VKM B-1760 / Hildenborough)
DVU3284 L-lactate permease from Desulfovibrio vulgaris Hildenborough
27% identity, 92% coverage
- Combining metabolic flux analysis with proteomics to shed light on the metabolic flexibility: the case of Desulfovibrio vulgaris Hildenborough.
Marbehan, Frontiers in microbiology 2024 - “...3 14 2 Q72A87 DVU_2110 57.9 5 9 3 Q729R4 DVU_2285 53.0 5 13 5 Q725Z0 DVU_3284 57.7 Sulfate reduction Sulfate permeases Q72FD5 DVU_0279 60.6 9 21 8 Q72G10 DVU_0053 68.1 5 14 4 Sulfate adenylyl transferase Sat Q72CI8 DVU_1295 47.4 301 87 49 Adenylyl sulfate...”
- LurR is a regulator of the central lactate oxidation pathway in sulfate-reducing Desulfovibrio species
Rajeev, PloS one 2019 - “...upstream of the DVU3025-3033 operon. LurR also targets two additional putative lactate permeases (DVU2451 and DVU3284) [ 9 ]. Based on lurSR s proximity and its conservation across related genomes, we hypothesized that the LurSR two-component system was likely to serve as the primary regulator for...”
- “...pyruvate ( Fig 3 ). LurR also targets two putative lactate permease genes DVU2451 and DVU3284 [ 9 ]. Deletion of lurR strongly affected the expression of DVU2451, reducing it by ~33-fold when grown on lactate, and by ~ 4.5-fold when grown on pyruvate ( Fig...”
- DNA-affinity-purified chip (DAP-chip) method to determine gene targets for bacterial two component regulatory systems
Rajeev, Journal of visualized experiments : JoVE 2014 - “...are two other singly encoded lactate permeases (DVU2451 and DVU3284). The fourth gene target does not lie in an upstream region, but in the intergenic region...”
- Systematic mapping of two component response regulators to gene targets in a model sulfate reducing bacterium
Rajeev, Genome biology 2011 - “...differently. Tiling array data indicate that DVU2451 is expressed highly under normal growing conditions, whereas DVU3284 is not (Figure S1 in Additional file 3 ) [ 19 ]. Gene expression correlations show that the two genes are negatively correlated with each other (Figure S2 in Additional...”
- Genetics and molecular biology of the electron flow for sulfate respiration in desulfovibrio
Keller, Frontiers in microbiology 2011 - “...two showed increases in transcription as the cells were being limited for carbon, DVU2110 and DVU3284. Neither of these was essential alone since mutations were found in each in lactate/sulfate grown cells and the mRNA abundance of both was well below average (Table 1 ). The...”
- Temporal transcriptomic analysis as Desulfovibrio vulgaris Hildenborough transitions into stationary phase during electron donor depletion
Clark, Applied and environmental microbiology 2006 - “...genes (DVU2110, DVU2285, DVU2451, DVU2683, DVU3026, and DVU3284). Two presumptive permease genes were unchanged, three were downexpressed, and one was...”
- “...used in response to changing nutrient levels. For example, DVU3284 might be a low-Km lactate transporter that is up-expressed as the lactate levels decline, and...”
- Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach
Mukhopadhyay, Journal of bacteriology 2006 - “...(NA) Lactate permeases DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3284 b2975 NA NA NA NA b2975 l-Lactate l-Lactate l-Lactate l-Lactate l-Lactate l-Lactate 0.75...”
BSU03060 L-lactate permease from Bacillus subtilis subsp. subtilis str. 168
28% identity, 95% coverage
BB0976 lactate permease family protwin from Bordetella bronchiseptica RB50
26% identity, 95% coverage
Q72A87 L-lactate permease from Nitratidesulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / CCUG 34227 / NCIMB 8303 / VKM B-1760 / Hildenborough)
DVU2110 L-lactate permease from Desulfovibrio vulgaris Hildenborough
27% identity, 92% coverage
- Combining metabolic flux analysis with proteomics to shed light on the metabolic flexibility: the case of Desulfovibrio vulgaris Hildenborough.
Marbehan, Frontiers in microbiology 2024 - “...Q72B56 DVU_1782 52.6 4 8 4 Lactate permeases, putative Q72B55 DVU_1783 27.4 3 14 2 Q72A87 DVU_2110 57.9 5 9 3 Q729R4 DVU_2285 53.0 5 13 5 Q725Z0 DVU_3284 57.7 Sulfate reduction Sulfate permeases Q72FD5 DVU_0279 60.6 9 21 8 Q72G10 DVU_0053 68.1 5 14 4...”
- Origin of biogeographically distinct ecotypes during laboratory evolution
Valenzuela, Nature communications 2024 - “...growth. Interestingly, upregulation of DVU2451, which can functionally compensate 43 for the primary lactate permeases DVU2110 and DVU3026 44 , was likely a lactate scavenging mechanism by the planktonic Dv cells. By contrast, the attached Dv cells appeared to be not lactate limited as all permeases...”
- Text-Mining to Identify Gene Sets Involved in Biocorrosion by Sulfate-Reducing Bacteria: A Semi-Automated Workflow
Thakur, Microorganisms 2023 - “...gene families, distributed in 3655 genomes, where DVU0430, hydA , bfr , lytS , and DVU2110 were present in 55, 43, 40, 38, and 36 genomes, respectively. These five genes encode for Ech hydrogenase, subunit EchE, Periplasmic [Fe] hydrogenase large subunit, Bacterioferritin, Histidine kinase, and L-lactate...”
- Antimicrobial Effects of Free Nitrous Acid on Desulfovibrio vulgaris: Implications for Sulfide-Induced Corrosion of Concrete
Gao, Applied and environmental microbiology 2016 - “...DVU3030 DVU3027 DVU3031 DVU3032 DVU3028 DVU3033 DVU0600 DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3029 DVU1569 DVU1570 DVU3025 DVU0577 DVU0587 DVU0588 ATP...”
- Genetics and molecular biology of the electron flow for sulfate respiration in desulfovibrio
Keller, Frontiers in microbiology 2011 - “...permeases, only two showed increases in transcription as the cells were being limited for carbon, DVU2110 and DVU3284. Neither of these was essential alone since mutations were found in each in lactate/sulfate grown cells and the mRNA abundance of both was well below average (Table 1...”
- Gene expression by the sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough grown on an iron electrode under cathodic protection conditions
Caffrey, Applied and environmental microbiology 2008 - “...DVU0058 DVU0097 DVU0098 DVU1340 DVU1341 DVU1341 DVU1343 DVU2110 DVU2584 DVU2661 DVU2667 Log2 RC value Annotation [NiFe] hydrogenase isozyme 1, small subunit...”
- Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach
Mukhopadhyay, Journal of bacteriology 2006 - “...(1.19) 0.30 (0.55) 0.76 (1.32) (NA) Lactate permeases DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3284 b2975 NA NA NA NA b2975 l-Lactate l-Lactate l-Lactate...”
- Temporal transcriptomic analysis as Desulfovibrio vulgaris Hildenborough transitions into stationary phase during electron donor depletion
Clark, Applied and environmental microbiology 2006 - “...vulgaris has six putative lactate permease genes (DVU2110, DVU2285, DVU2451, DVU2683, DVU3026, and DVU3284). Two presumptive permease genes were unchanged,...”
PPA0166 putative L-lactate permease from Propionibacterium acnes KPA171202
26% identity, 93% coverage
- A combination of improved differential and global RNA-seq reveals pervasive transcription initiation and events in all stages of the life-cycle of functional RNAs in Propionibacterium acnes, a major contributor to wide-spread human disease
Lin, BMC genomics 2013 - “...RNAs. (A) and (B) show the transcription and structure, respectively, of the 5 UTR of PPA0166, which encodes a putative L-lactate permease. Alternative folding is shown bottom right of (B) . (C) , (D) , and (E) correspond to examples of potential antisense RNAs that bind...”
- Comparative genomics and transcriptomics of Propionibacterium acnes
Brzuszkiewicz, PloS one 2011 - “...to be a major carbon source of strain 266, possibly taken up via L-lactate permease (PPA0166). The latter gene is clustered with genes of unknown functions (PPA0166-0169), which are 6- to 7-fold upregulated in strain 266; the corresponding proteins are predicted to be iron-sulfur cluster containing...”
SA0106 hypothetical protein from Staphylococcus aureus subsp. aureus N315
SAR0113 L-lactate permease 1 from Staphylococcus aureus subsp. aureus MRSA252
26% identity, 95% coverage
- What Happens in the Staphylococcal Nucleoid under Oxidative Stress?
Morikawa, Microorganisms 2019 - “...Chromosome, SCC) 1.81 / SA0077 serine/threonine protein kinase (in Staphylococcus Cassette Chromosome, SCC) 1.78 lctP SA0106 L-lactate permease 1.73 / SA2092 AraC family transcriptional regulator 1.68 / SA0102 myosin-cross-reactive MHC class-II like protein 1.67 lpl8 SA0404 lipoprotein encoded in pathogenicity island (in pathogenicity island, SaPIn2) 1.63...”
- Exposure of clinical MRSA heterogeneous strains to β-lactams redirects metabolism to optimize energy production through the TCA cycle
Keaton, PloS one 2013 - “...hypothetical protein pentose phosphate pathway SACOL1124 lctP 2.4 hypothetical protein Transports L-lactate across the membrane. SA0106 20.3 hypothetical protein homolog of L-lactate permease lctP SA2156 4.6 hypothetical protein Maltose/maltodextrin transport permease SAS0164 2.9 glucose-specific PTS transporter protein, IIABC component Phosphotransferase transport system (PTS), glucose-specific. SA0099 5.5...”
- “...related to carbohydrate metabolism were downregulated during HeR/HoR selection, including lactate permease ( lctP , SA0106), probable homolog of lactate permease (SA2156), hypothetical maltose/maltodextrin permease homolog (SA0209) and glycerol-3-phosphate transporter ( glpT , SA0325). Amino Acid Transport and Metabolism and Cell Wall Precursors The second group...”
- Transcriptional profiling analysis of the global regulator NorG, a GntR-like protein of Staphylococcus aureus
Truong-Bolduc, Journal of bacteriology 2011 - “...we found two hypothetical ORFs, SA0105 (474 bp) and SA0106 (1,593 bp), which are oriented in the same direction as norG but did not have identified specific...”
- “...but the function of SA0105 is not known. Similarly, SA0106 (1,593 bp) is predicted to code for a hypothetical protein that shows homology with L-lactate...”
- Reporter metabolite analysis of transcriptional profiles of a Staphylococcus aureus strain with normal phenotype and its isogenic hemB mutant displaying the small-colony-variant phenotype
Seggewiss, Journal of bacteriology 2006 - “...Simultaneously, the gene encoding a lactate importer (lctP, SA0106) showed a reduced expression level in the mutant, the reason for which remains elusive. In...”
- The Staphylococcus aureus response to unsaturated long chain free fatty acids: survival mechanisms and virulence implications
Kenny, PloS one 2009 - “...6.83 8.77E-04 SAR2628 clpL putative ATPase subunit of an ATP-dependent protease 4.06 4.79E-03 Energy Metabolism SAR0113 lldP1 L-lactate permease 1 2.15 1.07E-03 SAR0188 putative isochorismatase 4.91 8.03E-04 SAR0141 drm putative phosphopentomutase 2.45 1.31E-02 SAR0574 putative hexulose-6-phosphate synthase 2.36 1.80E-03 SAR0575 putative 6-phospho-3-hexuloisomerase 2.16 5.11E-03 SAR0775 Osmoprotectant...”
E3T15_09260 L-lactate permease from Staphylococcus aureus
SAUSA300_0112 L-lactate permease from Staphylococcus aureus subsp. aureus USA300_FPR3757
SACOL0093 L-lactate permease from Staphylococcus aureus subsp. aureus COL
26% identity, 95% coverage
- Molecular Evolution and Adaptation of Livestock-Associated Methicillin-Resistant Staphylococcus aureus (LA-MRSA) Sequence Type 9
Yu, mSystems 2021 - “...MDR ST9 ), inserted into a l -lactate permease gene ( llp ; locus tag E3T15_09260) with a 15-bp invert repeat ( TGTCAGTTTTGGAGT ) and a 7-bp target sequence duplicate ( ATTATTA ) on both termini ( Fig.2 ). This region was separated into two fragments...”
- Identification of novel genetic factors that regulate c-di-AMP production in <i>Staphylococcus aureus</i> using a riboswitch-based biosensor
Kviatkovski, mSphere 2024 - “...protein 1986191 Between SAUSA300_1802 and operon SAUSA300_1803, SAUSA300_1804 2S2G10 SAUSA300_2112 ybbR 2288144 SAUSA300_0113 (dacA ), SAUSA300_0112 (ybbR ), SAUSA300_0111 (glmM ) 2S3A10 SAUSA300_0701 Transposase 79111 SAUSA300_0698 ( pabA ), SAUSA300_0699 ( pabB ), SAUSA300_0700 ( pabC ), SAUSA300_0701, SAUSA300_0702 2S3G9 Between SAUSA300_0460 and SAUSA300_0461 SAUSA300_0460: pstA...”
- Effect of oxygen on glucose metabolism: utilization of lactate in Staphylococcus aureus as revealed by in vivo NMR studies
Ferreira, PloS one 2013 - “...intracellular concentrations). Good candidates to catalyze this step are the two LctP type lactate permeases (SACOL0093 and SACOL2363) found in the genome of S. aureus COL by homology to the LctP permease (LldP) of Escherichia coli [32] . Even though SACOL2363 has been implicated in the...”
- Response of Staphylococcus aureus to salicylate challenge
Riordan, Journal of bacteriology 2007 - “...SACOL0180 SACOL0792 SACOL0460 SACOL1090 SACOL2459 SACOL0093 Gluconokinase Gluconate permease Conserved hypothetical Putative glycine betaine transporter...”
BruAb1_0737 LldP, L-lactate permease from Brucella abortus biovar 1 str. 9-941
BAB1_0738 L-lactate permease from Brucella melitensis biovar Abortus 2308
25% identity, 93% coverage
SXYL_00577 L-lactate permease from Staphylococcus xylosus
29% identity, 58% coverage
- Insight into the Genome of Staphylococcus xylosus, a Ubiquitous Species Well Adapted to Meat Products
Leroy, Microorganisms 2017 - “...EIIA SXYL_01308 glkA Glucokinase Sucrose Lactate SXYL_00555 scrA EIIBC SXYL_00250 Lactate permease SXYL_00886 scrR Repressor SXYL_00577 Lactate permease SXYL_00887-88 scrBK Hydrolase, Fructokinase SXYL_00170 lactate-quinone oxidoreductase others Lactose SXYL_00060, SXYL_00626 Arbutin, EIIBC SXYL_00082 lacR Transcription activator SXYL_00528 Beta-glucoside, EIIABC SXYL_00083-84 lacPH Permease, Beta-galactosidase SXYL_00257-60 Cellobiose, EIIC, EIIBA...”
RPA1136 putative L-lactate permease from Rhodopseudomonas palustris CGA009
24% identity, 96% coverage
BF29_RS14480 L-lactate permease from Heyndrickxia coagulans DSM 1 = ATCC 7050
31% identity, 57% coverage
MW2287 L-lactate permease lctP homolog~ORFID:MW2287 from Staphylococcus aureus subsp. aureus MW2
29% identity, 59% coverage
- Balancing the Virulence and Antimicrobial Resistance in VISA DAP-R CA-MRSA Superbug
Salemi, Antibiotics (Basel, Switzerland) 2022 - “...lysyl-transferase MprF Thr345Ala Leu538Phe MW2304 Proton/sodium-glutamate symport protein Val232Glu MW1324 Extracellular matrix-binding protein Ebh Val1768Asp MW2287 L-lactate permease LctP Ile178Phe MW1307 UDP-NAG--NAM-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase MurG Ile121ASn MW0497 DNA-directed RNA polymerase subunit beta RpoB His481Tyr MW0517 Serine-aspartate repeat-containing protein SdrD Thr1313Ser antibiotics-11-01159-t006_Table 6 Table 6 DAVID...”
- The SaeR/S gene regulatory system is essential for innate immune evasion by Staphylococcus aureus
Voyich, The Journal of infectious diseases 2009 - “...unknown 2.10 ES MW2235 unknown 2.30 ES MW2262 unknown 2.18 ES MW2262 unknown 2.53 ES MW2287 Energy production and conversion 2.27 ES MW2309 unknown 4.17 ES MW2473 unknown 2.14 ES MW2503 Inorganic ion transport and metabolism 2.04 ME MW2515 unknown 2.05 ME MW2552 Signal transduction mechanisms...”
GSU1622 L-lactate permease from Geobacter sulfurreducens PCA
28% identity, 49% coverage
SE1945 L-lactate permease lctP-like protein from Staphylococcus epidermidis ATCC 12228
29% identity, 59% coverage
KQ76_12340 L-lactate permease from Staphylococcus aureus
28% identity, 59% coverage
SAFDA_2229 L-lactate permease from Staphylococcus aureus
Q2FVQ4 L-lactate permease from Staphylococcus aureus (strain NCTC 8325 / PS 47)
SAOUHSC_02648 L-lactate permease from Staphylococcus aureus subsp. aureus NCTC 8325
NWMN_2268 L-lactate permease 2 from Staphylococcus aureus subsp. aureus str. Newman
SACOL2363 L-lactate permease from Staphylococcus aureus subsp. aureus COL
28% identity, 59% coverage
- Network analysis for identifying potential anti-virulence targets from whole transcriptome of Pseudomonas aeruginosa and Staphylococcus aureus exposed to certain anti-pathogenic polyherbal formulations
Ruparel, Drug target insights 2023 - “...111 SAFDA_1331 Major facilitator superfamily permease 2.02 0.01 112 dapA 4-hydroxy-tetrahydrodipicolinate synthase 2.01 0.001 113 SAFDA_2229 L-lactate permease 2.00 3.68E-09 Genes are arranged in decreasing order of Fold Change. Table S8. Node degree score of up-down regulated genes mentioned in Table S7 No. Gene symbol Identifier...”
- A Small Membrane Stabilizing Protein Critical to the Pathogenicity of Staphylococcus aureus
Duggan, Infection and immunity 2020 - “...Histidine ammonia-lyase 2.2 0.006 Q2FW51 Truncated major histocompatibility complex class II analog protein 2.2 0.015 Q2FVQ4 l -Lactate permease 2.2 0.006 Q2FV59 crtM Dehydrosqualene synthase 2.2 0.001 Q2FUX7 arcA Arginine deiminase 2.3 0.080 Q2FVE0 ahpD Alkyl hydroperoxide reductase AhpD 2.3 <0.0001 Q2G1C7 Uncharacterized protein 2.3 0.006...”
- Proteomic and Metabolomic Analyses of a Tea-Tree Oil-Selected Staphylococcus aureus Small Colony Variant
Torres, Antibiotics (Basel, Switzerland) 2019 - “...detected in SH1000 SAOUHSC_00197 glutaryl-CoA dehydrogenase lipid metabolism SAOUHSC_01128 ArgF ornithine carbamoyltransferase amino acid metabolism SAOUHSC_02648 L-lactate permease transporter a Numbers represent strain NCTC 8325 locus IDs. antibiotics-08-00248-t002_Table 2 Table 2 Comparison of SH1000-TTORS-1- and SH1000-specific gene expression measured by RT-qPCR. Locus ID Gene Symbol Function...”
- Integrative omics analysis reveals insights into small colony variants of Staphylococcus aureus induced by sulfamethoxazole-trimethoprim
Zhou, BMC microbiology 2024 - “...3 B) clearly demonstrates several genes that were markedly down-regulated in the SCV, such as NWMN_2268 (encoding lactate permease) and NWMN_0176 (encoding L-lactate dehydrogenase), both of which play crucial roles in metabolic pathways. The representative DEGs are listed in Table S5. Table 3 The data of...”
- Sulfide Homeostasis and Nitroxyl Intersect via Formation of Reactive Sulfur Species in Staphylococcus aureus
Peng, mSphere 2017 - “...NAD synthetase (glutamine or ammonia dependent) NWMN_1872 SA1751 map 5.4 MHC class II analog protein NWMN_2268 SA2156 12.7 l -Lactate permease 2 NWMN_2301 SA2189 nirR 10.3 Nitrite reductase transcriptional regulator c NWMN_2375 SA2266 5.0 NAD short-chain dehydrogenase/reductase (SDR) NWMN_2377 SA2268 4.6 Hypothetical (63 residues) NWMN_2412 SA2302...”
- Inactivation of the Ecs ABC transporter of Staphylococcus aureus attenuates virulence by altering composition and function of bacterial wall
Jonsson, PloS one 2010 - “...component 2.1 1.8 NWMN_2246 sodium/glutamate symporter 2.5 2.4 NWMN_2261 ABC transporter ATP-binding protein HtrB 2.2 NWMN_2268 L-lactate permease 3.0 NWMN_2279 PTS system sucrose-specific IIBC component 2.4 NWMN_2311 amino acid ABC transporter ATP-binding protein 2.0 NWMN_2343 drug transporter 0.5 NWMN_2349 amino acid permease 0.6 NWMN_2370 transporter 0.5...”
- One Step Forward with Dry Surface Biofilm (DSB) of Staphylococcus aureus: TMT-Based Quantitative Proteomic Analysis Reveals Proteomic Shifts between DSB and Hydrated Biofilm
Rahman, International journal of molecular sciences 2022 - “...unique/significant differentially expressed proteins associated with stress responses in hydrated biofilm such as L-lactate permease (SACOL2363), cytochrome C oxidase subunit III (QoxC), general stress protein (SA1692), thioredoxin (SA0758), glyoxal reductase (SA1606), and in DSB such as nitrite reductase (NasE), thiol peroxidase (SA1680), and pyridine nucleotide-disulfide oxidoreductase...”
- Effect of oxygen on glucose metabolism: utilization of lactate in Staphylococcus aureus as revealed by in vivo NMR studies
Ferreira, PloS one 2013 - “...Enzymes involved in pyruvate metabolism and aerobic lactate are shown in grey. LctP, lactate permease SACOL2363; nLDH, NAD + -dependent lactate dehydrogenase; iLDH, NAD + -independent lactate dehydrogenase; PDH, pyruvate dehydrogenase complex; PFL, pyruvate formate-lyase; ALS, -acetolactate synthase; ADH, alcohol dehydrogenas; PTA, phosphotransacetylase; AK, acetate kinase....”
- “...Good candidates to catalyze this step are the two LctP type lactate permeases (SACOL0093 and SACOL2363) found in the genome of S. aureus COL by homology to the LctP permease (LldP) of Escherichia coli [32] . Even though SACOL2363 has been implicated in the secretion of...”
- Alterations in the transcriptome and antibiotic susceptibility of Staphylococcus aureus grown in the presence of diclofenac
Riordan, Annals of clinical microbiology and antimicrobials 2011 - “...support of organic acid fermentation in the presence of diclofenac, both formate (SACOL0301) and lactate (SACOL2363) transporters were strongly up-regulated 16.1- and 25.9-fold. Finally, genes of the urease operon ( ureABCEF and ureD ) were shown to be down-regulated (-3.5- to -11-fold) by diclofenac. These genes...”
- Redox sensing by a Rex-family repressor is involved in the regulation of anaerobic gene expression in Staphylococcus aureus
Pagels, Molecular microbiology 2010 - “...i Up up SACOL2006 (lukM) Aerolysin/leucocidin family protein 66 Shift SACOL2007 Unknown 386 [Shift] j SACOL2363 (lctP) l -lactate permease 124 Shift Up SACOL2364 Conserved hypothetical protein 210 [Shift] k SACOL0019 yycF (vicR) DNA-binding response regulator YycF 85 Shift l No change SACOL0966 pgi Glucose-6-phosphate isomerase...”
- A defect in menadione biosynthesis induces global changes in gene expression in Staphylococcus aureus
Kohler, Journal of bacteriology 2008 - “...a gene coding for a putative lactate permease (SACOL2363) was among the strongly upregulated genes, too. Although the amounts of PflB, SACOL0660 (Adh1), and...”
- “...transporter; SACOL0660, alcohol dehydrogenase I; SACOL2363, L-lactate permease; SACOL2386, nitrate/nitrite extrusion protein; SACOL2535, D-specific...”
- Anaerobic gene expression in Staphylococcus aureus
Fuchs, Journal of bacteriology 2007 - “...of genes possibly involved in secretion of lactate (SACOL2363) and formate (SACOL0301) was found to be induced. The formation of acetyl-coenzyme A or...”
- “...Gene identifiera SACOL0222 ldh1 SACOL0301 gapA1 SACOL1746 pfkA SACOL2363 a b nirR Direction Sequence (5 to 3)b Forward Reverse Forward Reverse Forward Reverse...”
SA2156 hypothetical protein from Staphylococcus aureus subsp. aureus N315
28% identity, 59% coverage
- Sulfide Homeostasis and Nitroxyl Intersect via Formation of Reactive Sulfur Species in Staphylococcus aureus
Peng, mSphere 2017 - “...synthetase (glutamine or ammonia dependent) NWMN_1872 SA1751 map 5.4 MHC class II analog protein NWMN_2268 SA2156 12.7 l -Lactate permease 2 NWMN_2301 SA2189 nirR 10.3 Nitrite reductase transcriptional regulator c NWMN_2375 SA2266 5.0 NAD short-chain dehydrogenase/reductase (SDR) NWMN_2377 SA2268 4.6 Hypothetical (63 residues) NWMN_2412 SA2302 3.7...”
- Exposure of clinical MRSA heterogeneous strains to β-lactams redirects metabolism to optimize energy production through the TCA cycle
Keaton, PloS one 2013 - “...protein Transports L-lactate across the membrane. SA0106 20.3 hypothetical protein homolog of L-lactate permease lctP SA2156 4.6 hypothetical protein Maltose/maltodextrin transport permease SAS0164 2.9 glucose-specific PTS transporter protein, IIABC component Phosphotransferase transport system (PTS), glucose-specific. SA0099 5.5 putative PTS transport system, IIABC component Putative phosphotransferase transport...”
- “...during HeR/HoR selection, including lactate permease ( lctP , SA0106), probable homolog of lactate permease (SA2156), hypothetical maltose/maltodextrin permease homolog (SA0209) and glycerol-3-phosphate transporter ( glpT , SA0325). Amino Acid Transport and Metabolism and Cell Wall Precursors The second group of genes displaying differential expression between...”
- Global regulatory functions of the Staphylococcus aureus endoribonuclease III in gene expression
Lioliou, PLoS genetics 2012 - “...stable in rnc strain Y Y 2298909 2298991 + as secY EL80 nd 2421872 2422221 SA2156 lctP homologue; entire gene covered Y, weak cleavages; degradation? Hypothetical small ORFs 954606 954882 SAS025 SA0841><>SA0842 nd N Y 2000661 2000937 SAS057 SA1748<<>SA1749 N 1006325 1006481 + SAS028 SA0885>>>SAS029 SAS028:...”
- Insights into the mode of action of chitosan as an antibacterial compound
Raafat, Applied and environmental microbiology 2008 - “...respiration, a gene encoding a putative L-lactate permease (SA2156), the regulatory gene srrA, already shown to be involved in oxygen regulation in S. aureus,...”
- Reporter metabolite analysis of transcriptional profiles of a Staphylococcus aureus strain with normal phenotype and its isogenic hemB mutant displaying the small-colony-variant phenotype
Seggewiss, Journal of bacteriology 2006 - “...proteins and lipoproteins SA2426 SA0541 SA1140 SA1960 SA0293 SA2156 SA0589 SA2303 SA0208 SA2302 SA0111 SA0848 SA2167 SA0207 SA0849 0.00 0.00 0.00 0.00 0.00 0.00...”
- Overexpression of genes of the cell wall stimulon in clinical isolates of Staphylococcus aureus exhibiting vancomycin-intermediate- S. aureus-type resistance to vancomycin
McAleese, Journal of bacteriology 2006 - “...February 12, 2017 by University of California, Berkeley SA2156 SA0145 SA0276 SA1602 SA0010 SA0178 SA0179 SA0180 SA0821 SA0822 SA1272 SA1674 SA1675 SA2135 SA2255...”
- Global regulatory impact of ClpP protease of Staphylococcus aureus on regulons involved in virulence, oxidative stress response, autolysis, and DNA repair
Michel, Journal of bacteriology 2006 - “...expressed in the clpP strain N315 ORF SA2156 SA2176 SA2189-SA2188e SA2268 SA2428 SA2430 Up-regulated SA0017-SA0018e SA0175 SA2311 SA2373-SA2371e adhE pflB lctE...”
BC1240 L-lactate permease from Bacillus cereus ATCC 14579
22% identity, 95% coverage
SAUSA300_RS12780 L-lactate permease from Staphylococcus aureus subsp. aureus USA300_FPR3757
28% identity, 59% coverage
- The Staphylococcus aureus Transcriptome during Cystic Fibrosis Lung Infection
Ibberson, mBio 2019 - “...IIBC SAUSA300_RS11445 fbaA Fructose-bisphosphate aldolase SAUSA300_RS11760 htsA ABC transporter substrate-binding protein SAUSA300_RS12210 AcrB/AcrD/AcrF family protein SAUSA300_RS12780 lctP2 l -Lactate permease SAUSA300_RS13075 hlgC Gamma-hemolysin component C SAUSA300_RS13330 cntF ABC transporter ATP-binding protein SAUSA300_RS13355 cntM Staphylopine synthase SAUSA300_RS13745 cidC Pyruvate oxidase SAUSA300_RS14605 DNA-binding protein a Abbreviations: PTS, phosphotransferase...”
SSO2126 L-lactate permease from Sulfolobus solfataricus P2
26% identity, 96% coverage
- The genome-wide binding profile of the Sulfolobus solfataricus transcription factor Ss-LrpB shows binding events beyond direct transcription regulation
Nguyen-Duc, BMC genomics 2013 - “...target operon/genes encoding a pyruvate ferredoxin oxidoreductase ( porDAB ) and two putative permeases ( Sso2126 , Sso2127 ) [ 9 ]. At its target promoter regions, Ss-LrpB binds either a single or multiple, regularly spaced, binding sites harbouring a conserved motif [ 9 , 29...”
- “...s (Additional file 7 : Table S2). In vivo binding to Ss-lrpB , porDAB , Sso2126 and Sso2127 operators Upon zooming into the profile at the Ss-lrpB genomic region containing the regulatory target genes identified previously [ 9 ], we observed binding at all target promoters...”
- Nanobody(R)-based chromatin immunoprecipitation/micro-array analysis for genome-wide identification of transcription factor DNA binding sites
Nguyen-Duc, Nucleic acids research 2013 - “...enrichment of two high-affinity Ss-LrpB targets. Two other known Ss-LrpB targets, the operator regions of Sso2126 and Sso2127 , bind Ss-LrpB at a single site in vitro ( 34 ), and Ss-LrpB indeed exerts a weak activation effect on gene expression of these targets. After inspection...”
- “...of the ChIP-chip binding profiles, recorded in the growth conditions in which the expression of Sso2126 and Sso2127 genes was analysed, none of the nanobodies enriched these sequences. Given the weak regulatory effect of Ss-LrpB on these targets under the growth conditions used, the Ss-LrpB binding...”
DealDRAFT_0239 L-lactate permease from Dethiobacter alkaliphilus AHT 1
22% identity, 98% coverage
DVU2683 L-lactate permease family protein from Desulfovibrio vulgaris Hildenborough
24% identity, 95% coverage
- Antimicrobial Effects of Free Nitrous Acid on Desulfovibrio vulgaris: Implications for Sulfide-Induced Corrosion of Concrete
Gao, Applied and environmental microbiology 2016 - “...DVU3032 DVU3028 DVU3033 DVU0600 DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3029 DVU1569 DVU1570 DVU3025 DVU0577 DVU0587 DVU0588 ATP synthesis DVU0918 DVU0779...”
- The primary pathway for lactate oxidation in Desulfovibrio vulgaris
Vita, Frontiers in microbiology 2015 - “...transcription level were observed for any of the genes; however, the expression of DVU2285 and DVU2683 was altered in the 26-28 mutant, with fourfold and fivefold repression, respectively ( Figure 7B ). In this mutant, which did not include DVU3026, DVU2451 expression was increased by 14...”
- Characterization of NaCl tolerance in Desulfovibrio vulgaris Hildenborough through experimental evolution
Zhou, The ISME journal 2013 - “...two L-lactate permease family protein genes DVU2451 and DVU2683 under NaCl stress compared with An (Table 3). Signal transduction and transcription. When...”
- “...DVU0535 DVU0536 DVU0305 (fd II) DVU0384 DVU2451 DVU2683 DVU1780 DVU1781 DVU1782 DVU1783 DVU2286 DVU2287 DVU2288 DVU2289 DVU2290 DVU2291 DVU2292 DVU2293...”
- Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach
Mukhopadhyay, Journal of bacteriology 2006 - “...0.76 (1.32) (NA) Lactate permeases DVU2110 DVU2285 DVU2451 DVU2683 DVU3026 DVU3284 b2975 NA NA NA NA b2975 l-Lactate l-Lactate l-Lactate l-Lactate l-Lactate...”
- Temporal transcriptomic analysis as Desulfovibrio vulgaris Hildenborough transitions into stationary phase during electron donor depletion
Clark, Applied and environmental microbiology 2006 - “...putative lactate permease genes (DVU2110, DVU2285, DVU2451, DVU2683, DVU3026, and DVU3284). Two presumptive permease genes were unchanged, three were...”
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 789,361 different protein sequences to 1,256,019 scientific articles. Searches against EuropePMC were last performed on January 10 2025.
PaperBLAST builds a database of protein sequences that are linked
to scientific articles. These links come from automated text searches
against the articles in EuropePMC
and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot,
BRENDA,
CAZy (as made available by dbCAN),
BioLiP,
CharProtDB,
MetaCyc,
EcoCyc,
TCDB,
REBASE,
the Fitness Browser,
and a subset of the European Nucleotide Archive with the /experiment tag.
Given this database and a protein sequence query,
PaperBLAST uses protein-protein BLAST
to find similar sequences with E < 0.001.
To build the database, we query EuropePMC with locus tags, with RefSeq protein
identifiers, and with UniProt
accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use
queries of the form "locus_tag AND genus_name" to try to ensure that
the paper is actually discussing that gene. Because EuropePMC indexes
most recent biomedical papers, even if they are not open access, some
of the links may be to papers that you cannot read or that our
computers cannot read. We query each of these identifiers that
appears in the open access part of EuropePMC, as well as every locus
tag that appears in the 500 most-referenced genomes, so that a gene
may appear in the PaperBLAST results even though none of the papers
that mention it are open access. We also incorporate text-mined links
from EuropePMC that link open access articles to UniProt or RefSeq
identifiers. (This yields some additional links because EuropePMC
uses different heuristics for their text mining than we do.)
For every article that mentions a locus tag, a RefSeq protein
identifier, or a UniProt accession, we try to select one or two
snippets of text that refer to the protein. If we cannot get access to
the full text, we try to select a snippet from the abstract, but
unfortunately, unique identifiers such as locus tags are rarely
provided in abstracts.
PaperBLAST also incorporates manually-curated protein functions:
- Proteins from NCBI's RefSeq are included if a
GeneRIF
entry links the gene to an article in
PubMed®.
GeneRIF also provides a short summary of the article's claim about the
protein, which is shown instead of a snippet.
- Proteins from Swiss-Prot (the curated part of UniProt)
are included if the curators
identified experimental evidence for the protein's function (evidence
code ECO:0000269). For these proteins, the fields of the Swiss-Prot entry that
describe the protein's function are shown (with bold headings).
- Proteins from BRENDA,
a curated database of enzymes, are included if they are linked to a paper in PubMed
and their full sequence is known.
- Every protein from the non-redundant subset of
BioLiP,
a database
of ligand-binding sites and catalytic residues in protein structures, is included. Since BioLiP itself
does not include descriptions of the proteins, those are taken from the
Protein Data Bank.
Descriptions from PDB rely on the original submitter of the
structure and cannot be updated by others, so they may be less reliable.
(For SitesBLAST and Sites on a Tree, we use a larger subset of BioLiP so that every
ligand is represented among a group of structures with similar sequences, but for
PaperBLAST, we use the non-redundant set provided by BioLiP.)
- Every protein from EcoCyc, a curated
database of the proteins in Escherichia coli K-12, is included, regardless
of whether they are characterized or not.
- Proteins from the MetaCyc metabolic pathway database
are included if they are linked to a paper in PubMed and their full sequence is known.
- Proteins from the Transport Classification Database (TCDB)
are included if they have known substrate(s), have reference(s),
and are not described as uncharacterized or putative.
(Some of the references are not visible on the PaperBLAST web site.)
- Every protein from CharProtDB,
a database of experimentally characterized protein annotations, is included.
- Proteins from the CAZy database of carbohydrate-active enzymes
are included if they are associated with an Enzyme Classification number.
Even though CAZy does not provide links from individual protein sequences to papers,
these should all be experimentally-characterized proteins.
- Proteins from the REBASE database
of restriction enzymes are included if they have known specificity.
- Every protein with an evidence-based reannotation (based on mutant phenotypes)
in the Fitness Browser is included.
- Sequence-specific transcription factors (including sigma factors and DNA-binding response regulators)
with experimentally-determined DNA binding sites from the
PRODORIC database of gene regulation in prokaryotes.
- Putative transcription factors from RegPrecise
that have manually-curated predictions for their binding sites. These predictions are based on
conserved putative regulatory sites across genomes that contain similar transcription factors,
so PaperBLAST clusters the TFs at 70% identity and retains just one member of each cluster.
- Coding sequence (CDS) features from the
European Nucleotide Archive (ENA)
are included if the /experiment tag is set (implying that there is experimental evidence for the annotation),
the nucleotide entry links to paper(s) in PubMed,
and the nucleotide entry is from the STD data class
(implying that these are targeted annotated sequences, not from shotgun sequencing).
Also, to filter out genes whose transcription or translation was detected, but whose function
was not studied, nucleotide entries or papers with more than 25 such proteins are excluded.
Descriptions from ENA rely on the original submitter of the
sequence and cannot be updated by others, so they may be less reliable.
Except for GeneRIF and ENA,
the curated entries include a short curated
description of the protein's function.
For entries from BioLiP, the protein's function may not be known beyond binding to the ligand.
Many of these entries also link to articles in PubMed.
For more information see the
PaperBLAST paper (mSystems 2017)
or the code.
You can download PaperBLAST's database here.
Changes to PaperBLAST since the paper was written:
- November 2023: incorporated PRODORIC and RegPrecise. Many PRODORIC entries were not linked to a protein sequence (no UniProt identifier), so we added this information.
- February 2023: BioLiP changed their download format. PaperBLAST now includes their non-redundant subset. SitesBLAST and Sites on a Tree use a larger non-redundant subset that ensures that every ligand is represented within each cluster. This should ensure that every binding site is represented.
- June 2022: incorporated some coding sequences from ENA with the /experiment tag.
- March 2022: incorporated BioLiP.
- April 2020: incorporated TCDB.
- April 2019: EuropePMC now returns table entries in their search results. This has expanded PaperBLAST's database, but most of the new entries are of low relevance, and the resulting snippets are often just lists of locus tags with annotations.
- February 2018: the alignment page reports the conservation of the hit's functional sites (if available from from Swiss-Prot or UniProt)
- January 2018: incorporated BRENDA.
- December 2017: incorporated MetaCyc, CharProtDB, CAZy, REBASE, and the reannotations from the Fitness Browser.
- September 2017: EuropePMC no longer returns some table entries in their search results. This has shrunk PaperBLAST's database, but has also reduced the number of low-relevance hits.
Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.
PaperBLAST cannot provide snippets for many of the papers that are
published in non-open-access journals. This limitation applies even if
the paper is marked as "free" on the publisher's web site and is
available in PubmedCentral or EuropePMC. If a journal that you publish
in is marked as "secret," please consider publishing elsewhere.
Many important articles are missing from PaperBLAST, either because
the article's full text is not in EuropePMC (as for many older
articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an
article that characterizes a protein's function but is missing from
PaperBLAST, please notify the curators at UniProt
or add an entry to GeneRIF.
Entries in either of these databases will eventually be incorporated
into PaperBLAST. Note that to add an entry to UniProt, you will need
to find the UniProt identifier for the protein. If the protein is not
already in UniProt, you can ask them to create an entry. To add an
entry to GeneRIF, you will need an NCBI Gene identifier, but
unfortunately many prokaryotic proteins in RefSeq do not have
corresponding Gene identifers.
References
PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.
Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.
Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.
UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.
BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.
The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.
CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.
The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.
The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.
REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.
Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory