PaperBLAST
PaperBLAST Hits for GFF4170 (82 a.a., MVTIRLARHG...)
Show query sequence
>GFF4170
MVTIRLARHGAKKRPFYQVVVTDSRNARNGRFIERVGFFNPIASEKEEGTRLDLDRIAHW
VGQGATISDRVAALIKEVKKAA
Running BLASTp...
Found 124 similar proteins in the literature:
SPC_2787 30S ribosomal protein S16 from Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594
STM2676 30S ribosomal subunit protein S16 from Salmonella typhimurium LT2
SEN2597 30S ribosomal subunit protein S16 from Salmonella enterica subsp. enterica serovar Enteritidis str. P125109
100% identity, 100% coverage
RpsP / b2609 30S ribosomal subunit protein S16 from Escherichia coli K-12 substr. MG1655 (see 15 papers)
rpsP / P0A7T3 30S ribosomal subunit protein S16 from Escherichia coli (strain K12) (see 12 papers)
RS16_ECOLI / P0A7T3 Small ribosomal subunit protein bS16; 30S ribosomal protein S16 from Escherichia coli (strain K12) (see 11 papers)
4a2iP / P0A7T3 Cryo-electron microscopy structure of the 30s subunit in complex with the yjeq biogenesis factor (see paper)
rpsP / RF|NP_417100 30S ribosomal protein S16 from Escherichia coli K12 (see 13 papers)
b2609 30S ribosomal protein S16 from Escherichia coli str. K-12 substr. MG1655
NP_417100 30S ribosomal subunit protein S16 from Escherichia coli str. K-12 substr. MG1655
Z3903 30S ribosomal subunit protein S16 from Escherichia coli O157:H7 EDL933
ECs3472 30S ribosomal subunit protein S16 from Escherichia coli O157:H7 str. Sakai
98% identity, 100% coverage
- function: In addition to being a ribosomal protein, S16 also has a cation-dependent endonuclease activity.
function: In-frame fusions with the ribosome maturation factor rimM suppress mutations in the latter (probably due to increased rimM expression) and are found in translationally active 70S ribosomes.
subunit: Part of the 30S ribosomal subunit (PubMed:10094780, PubMed:12244297, PubMed:12809609, PubMed:16272117, PubMed:27906160, PubMed:27906161, PubMed:27934701, PubMed:336510). - Ligand: rna (4a2iP)
- Depletion of the non-coding regulatory 6S RNA in E. coli causes a surprising reduction in the expression of the translation machinery
Neusser, BMC genomics 2010 - “...b3341 rpsG 0.66 30S ribosomal protein S7 b3936 rpmE 0.66 50S ribosomal subunit protein L31 b2609 rpsP 0.66 30S ribosomal protein S16 b1892 flhD 0.66 transcriptional activator FlhD b4202 rpsR 0.65 30S ribosomal protein S18 b3310 rplN 0.65 50S ribosomal protein L14 b3606 yibK 0.65 predicted...”
- Characterization of Escherichia coli MG1655 grown in a low-shear modeled microgravity environment
Tucker, BMC microbiology 2007 - “...rimM b2608 yes -2.67 0.0024 protein required for wild-type 16S rRNA processing cytoplasm present rpsP b2609 yes -3.38 0.0046 30S ribosomal subunit protein S16 cytoplasm present ypjD b2611 -2.26 0.0011 ORF, putative membrane protein membrane orthologue rplU b3186 -2.41 0.0006 50S ribosomal subunit protein L21 cytoplasm...”
- “...ID# ratio sucD b0729 -1.77 sucD STM0739 -3.33 rimM b2608 -2.07 rimM STM2675 <2 rpsP b2609 -2.48 rpsP STM2676 <2 rplA b3984 -2.03 rplA STM4150 <2 rplJ b3985 -2.49 rplJ STM4151 <2 rpsF b4200 -2.23 rpsF STM4391 <2 rpsR b4202 -2.41 rpsR STM4393 <2 rplI b4203...”
- Analysis of promoter targets for Escherichia coli transcription elongation factor GreA in vivo and in vitro
Stepanova, Journal of bacteriology 2007 - “...rplS trmD rimM rpsP b2606 b2607 b2608 b2609 2.2 2.0 2.1 2.3 50S ribosomal subunit protein L19 tRNA methyltransferase; tRNA (guanine-7-)-methyltransferase...”
- Microarray analysis of orthologous genes: conservation of the translational machinery across species at the sequence and expression level
Jiménez, Genome biology 2003 - “...(m1G) methyltransferae Ribosomal protein 4 b2608 No COG0806 J ORF, hypothetical protein Ribosomal protein 4 b2609 Yes COG0228 J3 Ribosomal protein S16 Ribosomal protein 5 b3065 No COG0828 J3 Ribosomal protein S21 Ribosomal protein 5 b3066 No COG0358 L1 DNA primase Ribosomal protein 5 b3067 No...”
- Combined, functional genomic-biochemical approach to intermediary metabolism: interaction of acivicin, a glutamine amidotransferase inhibitor, with Escherichia coli K-12
Smulski, Journal of bacteriology 2001 - “...b3303 b4200 b3341 b3306 b3230 b3321 b3297 b3298 b3307 b2609 b3311 b4202 b3316 b0023 b3065 b3175 b0146 b3908 b0120 b2533 b0053 b0002 b2607 b1265 b4054 b1637...”
- Genome-wide transcriptional profiling of the Escherichia coli responses to superoxide stress and sodium salicylate
Pomposiello, Journal of bacteriology 2001 - “...b3295 b0169 b3314 b3296 b3303 b3306 b3230 b3321 b3297 b3307 b2609 b3311 atpA atpC atpF atpH atpI b0295 fis fusA ompC ompT priB prmA pyrB rplA rplB rplC rplD...”
- S16 throws a conformational switch during assembly of 30S 5' domain.
Ramaswamy, Nature structural & molecular biology 2009 - GeneRIF: The results show that binding of S16 to helices 15 and 17 results in a conformational switch at helix 3, 30 A away, which stabilizes tertiary interactions in the 30S decoding site.
- The complete amino acid sequence of protein S16 from Escherichia coli.
Vandekerckhove, Hoppe-Seyler's Zeitschrift fur physiologische Chemie 1977 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on complete protein
- CRP and IHF act as host regulators in Royal Jelly's antibacterial activity
Xia, Scientific reports 2024 - “...Name FC (T/C) a p -value b P0AG59 Ribosomal subunit protein S14 rpsN 0.12 5.95E09 P0A7T3 Ribosomal subunit protein S16 rpsP 0.2 1.42E07 P0A7U3 Ribosomal subunit protein S19 rpsS 0.2 3.67E06 P0A7T7 Ribosomal subunit protein S18 rpsR 0.22 1.47E08 P0AG63 Ribosomal subunit protein S17 rpsQ 0.24...”
- Label-free quantitative proteomic analysis of the inhibition effect of Lactobacillus rhamnosus GG on Escherichia coli biofilm formation in co-culture
Song, Proteome science 2021 - “...bioD2 P0A6E9 2.10E-05 1.71 ATP-denpendent dethiobiotin synthetase BioD2 panD P0A790 5.20E-05 3.63 Aspartate 1-decarboxylase rpsP P0A7T3 2.83E-04 1.86 30S ribosomal protein S16 hybC P0ACE0 3.31E-04 2.01 Hydrogenase-2 large chain rhIB P0A8J8 3.77E-04 1.06 ATP-dependent RNA helicase RhlB mlaC P0ADV7 4.10E-04 3.60 Intermembrane phospholipid transport system binding...”
- Identification of Functional Interactome of Colistin Resistance Protein MCR-1 in Escherichia coli
Li, Frontiers in microbiology 2020 - “...P0ADS2 Cell division protein ZapA 12,643 zapA 24 Q0TLG8 UPF0325 protein YaeH 15,144 yaeH 25 P0A7T3 30S ribosomal protein S16 9,185 rpsP 26 P69428 Sec-independent protein translocase protein TatA 9,658 tatA 27 P0AG30 Transcription termination factor Rho 47,032 rho 28 P0AGE0 Single-stranded DNA-binding protein 18,963 ssb...”
- Capturing Membrane Protein Ribosome Nascent Chain Complexes in a Native-like Environment for Co-translational Studies
Pellowe, Biochemistry 2020 - “...RS9, P0A7X3; RS10, P0A7R5; RS11, P0A7R9; RS12, P0A7S3; RS13, P0A7S9; RS14, P0AG59; RS15, P0ADZ4; RS16, P0A7T3; RS17, P0AG63; RS18, P0A7T7; RS19, P0A7U3; RS20, P0A7U7; RS21, P68681; RS22, C8U8F3. Large ribosomal subunits (50S): RL1, P0A7L0; RL2, P60422; RL3, P60438; RL4, P60723; RL5, P62399; RL6, P0AG55; RL7, P0A7K2;...”
- A coordinated proteomic approach for identifying proteins that interact with the E. coli ribosomal protein S12
Strader, Journal of proteome research 2013 - “...P0A7S9 S13 19 748 100 P0AG59 S14 7 146 43.5 P0ADZ4 S15 10 213 61.7 P0A7T3 S16 11 720 78 P0AG63 S17 10 274 65.1 P0A7T7 S18 10 520 84 P0A7U3 S19 10 339 70.6 P0A7U7 S20 8 225 60.9 P68679 S21 7 231 34.7 P60422...”
- Transcriptional responses of Escherichia coli K-12 and O157:H7 associated with lettuce leaves
Fink, Applied and environmental microbiology 2012 - “...Z4666 Z4673 Z5809 Z4676 Z4692 Z4667 Z4700 Z4668 Z4677 Z4526 Z3903 Z5811 Z0027 Z4418 Z2230 Z1864 rimP rplA rplB rplD rplE rplF rplK rplM rplN rplR rplW rplX rplY...”
- Global transcriptional response of Escherichia coli O157:H7 to growth transitions in glucose minimal medium
Bergholz, BMC microbiology 2007 - “...rplS -4.28 1 ECs2824 hisH -2.22 1 ECs3470 trmD -5.46 1 ECs2837 wbdQ -2.35 1 ECs3472 rpsP -5.57 1 ECs2888 yegP 4.47 2 ECs3520 ygaT 4.88 2 ECs2892 yegS 3.38 2 ECs3522 gabD 2.53 2 ECs2900 fbaB 2.45 2 ECs3523 gabT 3.14 2 ECs2920 metG -2.59...”
EAMY_0816 30S ribosomal protein S16 from Erwinia amylovora CFBP1430
88% identity, 100% coverage
A1JK22 Small ribosomal subunit protein bS16 from Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
84% identity, 100% coverage
YPTB0834 30S ribosomal subunit protein S16 from Yersinia pseudotuberculosis IP 32953
YPO3295 30S ribosomal protein S16 from Yersinia pestis CO92
82% identity, 100% coverage
Asuc_0520 ribosomal protein S16 from Actinobacillus succinogenes 130Z
72% identity, 100% coverage
- Transcriptome analysis and anaerobic C4 -dicarboxylate transport in Actinobacillus succinogenes
Rhie, MicrobiologyOpen 2018 - “...(Figure 3 , Table S4 , Table S5 ). Genes encoding ribosomal proteins (Asuc_0015, Asuc_00445, Asuc_0520, Asuc_0525, Asuc_0721, Asuc_0774, Asuc_14934, and Asuc_2117) and their accessory proteins were among those classified into this cluster. In addition, members of the betaglucoside operon (Asuc_09725) and 11 genes related to...”
HI0204 ribosomal protein S16 (rpS16) from Haemophilus influenzae Rd KW20
P44382 Small ribosomal subunit protein bS16 from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
70% identity, 100% coverage
SO1357 ribosomal protein S16 from Shewanella oneidensis MR-1
72% identity, 100% coverage
7m4up / A0A1V3DIZ9 A. Baumannii ribosome-eravacycline complex: 30s (see paper)
A9801_RS13965 30S ribosomal protein S16 from Acinetobacter baumannii
72% identity, 98% coverage
- Ligand: rna (7m4up)
- Characterization and Transcriptome Studies of Autoinducer Synthase Gene from Multidrug Resistant Acinetobacter baumannii Strain 863
Ng, Genes 2019 - “...strain. Seven of them (S2, A9801_RS17795; S4, A9801_RS14500; S6, A9801_RS16385; S10, A9801_RS14375; S13, A9801_RS14490; S16, A9801_RS13965 & S18, A9801_RS16390) of these genes are associated with the small subunit while the remaining 9 (L2, A9801_RS14395; L4, A9801_RS14385; L11, A9801_RS03460; L13, A9801_RS15160; L14, A9801_RS14430; L17, A9801_RS14510; L23, A9801_RS14390;...”
NGO0174 putative ribosomal protein S16 from Neisseria gonorrhoeae FA 1090
67% identity, 96% coverage
ACIAD3313 30S ribosomal protein S16 from Acinetobacter sp. ADP1
75% identity, 84% coverage
PA3745 30S ribosomal protein S16 from Pseudomonas aeruginosa PAO1
Q9HXP9 Small ribosomal subunit protein bS16 from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
60% identity, 98% coverage
- Proteomic Analysis of Vesicle-Producing Pseudomonas aeruginosa PAO1 Exposed to X-Ray Irradiation
Zhang, Frontiers in microbiology 2020 - “...RahU 0.528 1.684 0.314 Lipid binding protein Q9I494 PA1244 0.665 1.642 0.405 Uncharacterized protein Q9HXP9 PA3745 RpsP 0.595 1.364 0.436 30S ribosomal protein S16 P46384 PA4080 PilG 0.733 1.55 0.473 Twitching motility protein Q9HWF8 PA4240 RpsK 0.411 1.055 0.39 30S ribosomal protein S11 Q9HWD4 PA4264 RpsJ...”
- Molecular mechanism for sphingosine-induced Pseudomonas ceramidase expression through the transcriptional regulator SphR
Okino, Scientific reports 2016 - “...1.591 0.0290015 PA2062 probable pyridoxal-phosphate dependent enzyme 1.587 0.0163330 PA5192 pckA phosphoenolpyruvate carboxykinase 1.572 0.0085155 PA3745 rpsP 30S ribosomal protein S16 1.569 0.0033692 PA3744 rimM 16S rRNA processing protein 1.568 0.0079584 PA5425 purK phosphoribosylaminoimidazole carboxylase 1.566 0.0264866 PA4854 purH phosphoribosylaminoimidazolecarboxamide formyltransferase 1.566 0.0452696 PA4566 obg GTP-binding...”
- Protein-to-mRNA ratios are conserved between Pseudomonas aeruginosa strains
Kwon, Journal of proteome research 2014 - “...spectrometry detectability using the APEX method. Using KEGG pathway enrichment analysis, we identified ribosomal proteins (PA3745, PA4432, and PA5049) with significantly high protein-to-mRNA ratios. We also found that genes involved in terpenoid backbone biosynthesis (PA3627 and PA4557), nucleotide excision repair (PA1529 and PA4234), and one carbon...”
- Analysis of Pseudomonas aeruginosa cell envelope proteome by capture of surface-exposed proteins on activated magnetic nanoparticles
Vecchietti, PloS one 2012 - “...30S rP S3 2 C,3 + rpsB PA3656 30S rP S2 2 C,3,P,1 + rpsP PA3745 30S rP S16 2 C,3 + rpsL PA4268 30S rP S12 2 C,3 + rpsK PA4240 30S rP S11 2 C,3 + rpsD PA4239 30S rP S4 2 C,3 +...”
- Transcriptional and proteomic responses of Pseudomonas aeruginosa PAO1 to spaceflight conditions involve Hfq regulation and reveal a role for oxygen
Crabbé, Applied and environmental microbiology 2011 - “...PA3646 PA3655 PA3656 PA3686 PA3723 PA3742 PA3743 PA3744 PA3745 PA3785 PA3795 PA3807 PA3814 PA3834 PA3920 PA4031 PA4053 PA4220 PA4238 PA4239 PA4240 PA4241 PA4242...”
- Lipotoxin F of Pseudomonas aeruginosa is an AlgU-dependent and alginate-independent outer membrane protein involved in resistance to oxidative stress and adhesion to A549 human lung epithelia
Damron, Microbiology (Reading, England) 2009 - “...0.5 PA1852 PA2622 (CspD) PA2966 (AcpP) PA3031 PA3745 (RpsP) 0.2 0.6 0.6 0.5 0.6 Hypothetical protein (unknown) Peptidyl-prolyl cis-trans isomerase (chaperones...”
- Proteomic Analysis of Vesicle-Producing Pseudomonas aeruginosa PAO1 Exposed to X-Ray Irradiation
Zhang, Frontiers in microbiology 2020 - “...PA0122 RahU 0.528 1.684 0.314 Lipid binding protein Q9I494 PA1244 0.665 1.642 0.405 Uncharacterized protein Q9HXP9 PA3745 RpsP 0.595 1.364 0.436 30S ribosomal protein S16 P46384 PA4080 PilG 0.733 1.55 0.473 Twitching motility protein Q9HWF8 PA4240 RpsK 0.411 1.055 0.39 30S ribosomal protein S11 Q9HWD4 PA4264...”
7unrp / Q9HXP9 7unrp
60% identity, 99% coverage
8rd8Pj / A0A0M4T275 8rd8Pj (see paper)
60% identity, 99% coverage
FTN_1562 30S ribosomal protein S16 from Francisella tularensis subsp. novicida U112
61% identity, 100% coverage
PP_1462 30S ribosomal protein S16 from Pseudomonas putida KT2440
62% identity, 93% coverage
Q47BI5 Small ribosomal subunit protein bS16 from Dechloromonas aromatica (strain RCB)
61% identity, 92% coverage
PA14_15970 30S ribosomal protein S16 from Pseudomonas aeruginosa UCBPP-PA14
59% identity, 98% coverage
FTL_1738 30S ribosomal protein S16 from Francisella tularensis subsp. holarctica
FTH_1677 ribosomal protein S16 from Francisella tularensis subsp. holarctica OSU18
60% identity, 100% coverage
bglu_1g09030 30S ribosomal protein S16 from Burkholderia glumae BGR1
62% identity, 96% coverage
BCAL2928 30S ribosomal protein S16 from Burkholderia cenocepacia J2315
60% identity, 96% coverage
azo2898 30S ribosomal protein S16 from Azoarcus sp. BH72
57% identity, 99% coverage
BTH_I1661 ribosomal protein S16 from Burkholderia thailandensis E264
59% identity, 96% coverage
RS16_RHOPA / P62236 Small ribosomal subunit protein bS16; 30S ribosomal protein S16; RRP-S16 from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009) (see paper)
RPA0244 ribosomal protein S16 from Rhodopseudomonas palustris CGA009
B3Q856 Small ribosomal subunit protein bS16 from Rhodopseudomonas palustris (strain TIE-1)
59% identity, 70% coverage
- ATP Is a Major Determinant of Phototrophic Bacterial Longevity in Growth Arrest
Yin, mBio 2023 - “...RPA3239, RPA3240, RPA3242, RPA3243, RPA3245, RPA3247-RPA3250, RPA3269, RPA3270, RPA3272, RPA3273, RPA4197, RPA4356; 30S ribosome: RPA0064, RPA0244, RPA0433, RPA1589, RPA2768, RPA2922, RPA3077, RPA3078, RPA3227, RPA3228, RPA3233, RPA3236, RPA3237, RPA3241, RPA3244, RPA3246, RPA3251, RPA3254, RPA3255, RPA4005, RPA4176, RPA4836; Photosynthesis gene cluster: RPA1505-RPA1554; ATP synthesis: RPA0175-RPA0179, RPA0843-RPA0847. 10.1128/mbio.03609-22.5 TABLES3...”
- Proteome Response of a Metabolically Flexible Anoxygenic Phototroph to Fe(II) Oxidation
Bryce, Applied and environmental microbiology 2018 (secret)
SPO3253 30S ribosomal protein S16 from Ruegeria pomeroyi DSS-3
49% identity, 62% coverage
BruAb1_1803 RpsP, ribosomal protein S16 from Brucella abortus biovar 1 str. 9-941
56% identity, 52% coverage
BMEI0227 SSU ribosomal protein S16P from Brucella melitensis 16M
56% identity, 52% coverage
SMc03859 PROBABLE 30S RIBOSOMAL PROTEIN S16 from Sinorhizobium meliloti 1021
46% identity, 62% coverage
- Antimicrobial nodule-specific cysteine-rich peptides induce membrane depolarization-associated changes in the transcriptome of Sinorhizobium meliloti
Tiricz, Applied and environmental microbiology 2013 - “...SMc01803 SMc01804 SMc02101 SMc02692 SMc03770 SMc03772 SMc03859 SMc03863 SMc03881 SMc03990 SMc04003 SMc04003 SMc04320 SMc04434 (Continued on following page)...”
- Dual RpoH sigma factors and transcriptional plasticity in a symbiotic bacterium
Barnett, Journal of bacteriology 2012 - “...mapping Barnett et al. jb.asm.org 4985 SMc03857 SMc03858 SMc03859 ffh pheAa rpsP dnaK recF hslU clpB hslV azoR groEL4 degP3 Signal recognition particle protein...”
- Absence of functional TolC protein causes increased stress response gene expression in Sinorhizobium meliloti
Santos, BMC microbiology 2010 - “...SMc02101 rpsB probable 30 S ribosomal protein S2 13.7 SMc03242 typA predicted membrane GTPase 14.4 SMc03859 rpsP probable 30 S ribosomal protein S16 8.2 Metabolism SMa0680 Decarboxylase (lysine, ornithine, arginine) 11.2 SMa0682 Decarboxylase (lysine, ornithine, arginine) 8.3 SMa0765 fixN2 cytochrome c oxidase subunit I 9.8 SMa0767...”
- Sinorhizobium meliloti ExoR and ExoS proteins regulate both succinoglycan and flagellum production
Yao, Journal of bacteriology 2004 - “...smb21295, smc00323, smc00335, smc00363, smc00646, smc01106, smc02857, smc03859, smc03979, and smc04040), which were printed in 51 replicates. The 70-mer...”
C6AZ07 Small ribosomal subunit protein bS16 from Rhizobium leguminosarum bv. trifolii (strain WSM1325)
46% identity, 63% coverage
HP1151 ribosomal protein S16 (rpS16) from Helicobacter pylori 26695
49% identity, 90% coverage
Cj0710 30S ribosomal protein S16 from Campylobacter jejuni subsp. jejuni NCTC 11168
47% identity, 90% coverage
D0R3G2 Small ribosomal subunit protein bS16 from Lactobacillus johnsonii (strain FI9785)
47% identity, 82% coverage
RT0869 30S ribosomal protein S16 from Rickettsia typhi str. wilmington
49% identity, 68% coverage
- GroEL is an immunodominant surface-exposed antigen of Rickettsia typhi
Rauch, PloS one 2021 - “...is necessary of efficient RNA polymerase transcription elongation, the 30S ribosomal proteins S10 (RT0652), S16 (RT0869) and S7 (RT0120) and the 50S ribosomal proteins L7/L12 (RT0128) and L27 (RT0737), the ribosome recycling factor (RT0143) and the aspartyl/glutamyl-tRNA (Asn/Gln) amidotransferase subunit C (GatC, RT0142). One downregulated protein,...”
SSA_1310 30S ribosomal protein S16, putative from Streptococcus sanguinis SK36
50% identity, 82% coverage
RB12824 probable 30S ribosomal protein S16 from Pirellula sp. 1
45% identity, 52% coverage
- Transcriptional response of the model planctomycete Rhodopirellula baltica SH1(T) to changing environmental conditions
Wecker, BMC genomics 2009 - “...163 conserved hypothetical protein 11.7 - ribosomal machinery RB12821 117 Ribosomal protein L19 11.1 - RB12824 146 Ribosomal protein S16 5.3 - RB12837 65 hypothetical protein 9.8 + ribosomal machinery RB12839 225 Ribosomal protein L1 9.8 + Figure 2 Number of regulated genes with an assigned...”
- “...the whole genome, 18 genes encoding proteins of the small- and large subunit (RB1233, RB12821, RB12824, RB12839, RB7117, RB7837 - RB7841, RB7849, RB7850, RB7852, RB7854, RB7856, RB7857, RB7859 and RB7899) were repressed. Additionally, a set of genes involved in RNA metabolism, protein synthesis, as well as...”
SMU_865 30S ribosomal protein S16 from Streptococcus mutans UA159
50% identity, 81% coverage
8fmwP / O51638 8fmwP (see paper)
46% identity, 89% coverage
A0RHL7 Small ribosomal subunit protein bS16 from Bacillus thuringiensis (strain Al Hakam)
50% identity, 82% coverage
SSU05_0796 30S ribosomal protein S16 from Streptococcus suis 05ZYH33
47% identity, 67% coverage
LSEI_1601 Ribosomal protein S16 from Lactobacillus casei ATCC 334
46% identity, 81% coverage
SP_0775 30S ribosomal protein S16 from Streptococcus pneumoniae TIGR4
spr0682 30S Ribosomal protein S16 from Streptococcus pneumoniae R6
SPD_0674 ribosomal protein S16 from Streptococcus pneumoniae D39
46% identity, 84% coverage
- The Two-Component System YesMN Promotes Pneumococcal Host-to-Host Transmission and Regulates Genes Involved in Zinc Homeostasis
Zafar, Infection and immunity 2023 (secret) - Pneumococcal Metabolic Adaptation and Colonization Are Regulated by the Two-Component Regulatory System 08
Gómez-Mejia, mSphere 2018 - “...TIGR4 cps (A) and D39 cps (B). Specific primers for the ribosomal protein S16 ( sp_0775 ) were used as normalization control. Data indicate the C T of the fold change in the graph bar and heat map for the different tcs08 mutants from three independent...”
- “...Specific primers were used for rr08 and hk08 . Additionally, the ribosomal protein S16 ( sp_0775 ) was used as a control. Download FIGS1, PDF file, 0.2 MB . Copyright 2018 Gmez-Mejia et al. 2018 Gmez-Mejia et al. This content is distributed under the terms of...”
- The accessory Sec system (SecY2A2) in Streptococcus pneumoniae is involved in export of pneumolysin toxin, adhesion and biofilm formation
Bandara, Microbes and infection 2017 - “...0 Q97PP3 (SP_1560) 8.02 Putative uncharacterized lipoprotein (YbbR-like) 23.17 0 3 0 3 0 Q97NS3 (SP_0775) 4.82 Ribosomal protein S16 19.73 0 5 0 3 0 Q97S82 (SP_0506) 9.63 Integrase/recombinase, phage integrase family 13.21 0 3 0 3 0 Q97Q64 (SP_1366) 6.11 Glycosyl transferase, group 1...”
- Penicillin induces alterations in glutamine metabolism in Streptococcus pneumoniae
El, Scientific reports 2017 - “...the glutamine synthetase gene 1.61 2.38 spr0444 glnA e glutamine synthetase, type I 1.45 2.06 spr0682 rpsP 30S ribosomal protein S16 1.26 spr0691 bioY biotin synthase 1.00 spr0714 gph phosphoglycolate phosphatase 1.02 spr0767 IS1167 transposase 1.13 spr0861 infC translation initiation factor IF-3 1.20 spr0864 lguL lactoylglutathione...”
- Reactive Oxygen Species Contribute to the Bactericidal Effects of the Fluoroquinolone Moxifloxacin in Streptococcus pneumoniae
Ferrándiz, Antimicrobial agents and chemotherapy 2016 - “...Role or subrole R6 locus (gene)a Translation spr0682 (rpsP)d spr0861c-0864 (infC-rpmI-rplT-lguL) spr0876 (rpmG) spr0913 (pepT) spr0920 (trmE) spr1082 (lepA)...”
- Transcriptional regulation and signature patterns revealed by microarray analyses of Streptococcus pneumoniae R6 challenged with sublethal concentrations of translation inhibitors
Ng, Journal of bacteriology 2003 - “...spr0192 spr0194 spr0196 spr0197 spr0200 spr0201 spr0204 spr0205 spr0555 spr0682 spr0862 spr0863 spr1212 spr1394 1.9 1.4 1.5 1.6 1.6 1.6 1.7 1.8 1.7 1.7 1.9 1.7...”
- Pivotal Roles for Ribonucleases in Streptococcus pneumoniae Pathogenesis
Sinha, mBio 2021 - “...protein 0.49 5.19E04 SPD_0519 Conserved hypothetical protein 0.51 1.36E02 SPD_0520 Transposase, putative, truncation 0.43 3.75E05 SPD_0674 Ribosomal protein S16 0.54 2.36E03 SPD_0675 Conserved hypothetical protein 0.55 5.79E03 SPD_1410 tRNA-Leu 0.49 4.64E02 SPD_1683 tRNA-Ile 0.52 4.39E03 SPD_1691 tRNA-Arg 0.49 9.77E04 SPD_1789 Cell wall surface anchor family protein...”
TDE0881 ribosomal protein S16 from Treponema denticola ATCC 35405
45% identity, 91% coverage
LLNZ_04795 30S ribosomal protein S16 from Lactococcus cremoris subsp. cremoris NZ9000
46% identity, 82% coverage
RS16_BACSU / P21474 Small ribosomal subunit protein bS16; 30S ribosomal protein S16; BS17 from Bacillus subtilis (strain 168) (see paper)
BSU15990 30S ribosomal protein S16 from Bacillus subtilis subsp. subtilis str. 168
50% identity, 82% coverage
3j9wAP / P21474 3j9wAP (see paper)
50% identity, 83% coverage
RB12824 30S ribosomal protein S16 from Rhodopirellula baltica SH 1
43% identity, 51% coverage
- Transcriptional response of the model planctomycete Rhodopirellula baltica SH1(T) to changing environmental conditions
Wecker, BMC genomics 2009 - “...163 conserved hypothetical protein 11.7 - ribosomal machinery RB12821 117 Ribosomal protein L19 11.1 - RB12824 146 Ribosomal protein S16 5.3 - RB12837 65 hypothetical protein 9.8 + ribosomal machinery RB12839 225 Ribosomal protein L1 9.8 + Figure 2 Number of regulated genes with an assigned...”
- “...the whole genome, 18 genes encoding proteins of the small- and large subunit (RB1233, RB12821, RB12824, RB12839, RB7117, RB7837 - RB7841, RB7849, RB7850, RB7852, RB7854, RB7856, RB7857, RB7859 and RB7899) were repressed. Additionally, a set of genes involved in RNA metabolism, protein synthesis, as well as...”
5myjAP / A2RJS1 of 70S ribosome from Lactococcus lactis (see paper)
46% identity, 86% coverage
RT16_BOVIN / P82915 Small ribosomal subunit protein bS16m; 28S ribosomal protein S16, mitochondrial; MRP-S16; S16mt from Bos taurus (Bovine) (see 2 papers)
44% identity, 55% coverage
- subunit: Component of the mitochondrial ribosome small subunit (28S) which comprises a 12S rRNA and about 30 distinct proteins.
gbs1428 30S ribosomal protein S16 from Streptococcus agalactiae NEM316
46% identity, 82% coverage
- Antibiotic Resistance and Presence of Persister Cells in the Biofilm-like Environments in <i>Streptococcus agalactiae</i>
Lannes-Costa, Antibiotics (Basel, Switzerland) 2024 - “...from blood of a septic neonate; GBS90356 isolated from a 3-day-old neonate with fatal meningitis; GBS1428 isolated from urine of a 71-year-old man with colorectal carcinoma; and GBS85147 isolated from the oropharynx of an adult patient; n = 5) were subjected to multiplex PCR assays. The...”
- “...and tet O; Supplementary Materials Table S2 ) of S. agalactiae strains (COH1, CNCTC10/84, GBS90356, GBS1428, and GBS85147) were detected by PCR. Macrolides and lincosamides are the antibiotic alternative for patients with a history of -lactam allergy. However, the increasing resistance among clinical strains of S....”
- Streptococcus agalactiae strains isolated from cancer patients in Rio de Janeiro, Brazil
de, Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] 2021 - “...detected among 55 clinical isolates tested; only one strain (GBS1428) was capsular type III/ST-17. The fbsB and hylB genes were detected in all isolates, while...”
- “...hvgA gene for S. agalactiae capsular type III (GBS1428) strain, recognized as belonging to the hypervirulent ST-17 clone. The GBS1428 strain was hyperhemolytic...”
- Cas9 Contributes to Group B Streptococcal Colonization and Disease
Spencer, Frontiers in microbiology 2019 - “...capsule production ( Figures 1B,C ). A second cas9 mutant was made in ST-17 strain GBS1428, which was isolated in 2014 from the urine of a 71-year-old male rectal cancer patient at Instituto Nacional do Cancer (INCA) in Rio de Janeiro, Brazil (Sanches and Nagao, unpublished)....”
- “...were observed when using a different mouse (CD-1) background ( Supplementary Figure S1A ). The GBS1428 cas9 mutant also exhibited decreased vaginal persistence and brain tissue penetration, with additionally decreased bacterial load in lung tissues and blood compared to the WT GBS1428 strain ( Supplementary Figures...”
T303_08560 30S ribosomal protein S16 from Streptococcus thermophilus ASCC 1275
46% identity, 82% coverage
EF1694 ribosomal protein S16 from Enterococcus faecalis V583
47% identity, 81% coverage
7pntM / Q9CPX7 7pntM (see paper)
43% identity, 59% coverage
D4A7X1 Small ribosomal subunit protein bS16m from Rattus norvegicus
43% identity, 51% coverage
RT16_HUMAN / Q9Y3D3 Small ribosomal subunit protein bS16m; 28S ribosomal protein S16, mitochondrial; MRP-S16; S16mt from Homo sapiens (Human) (see 2 papers)
NP_057149 small ribosomal subunit protein bS16m isoform 1 from Homo sapiens
43% identity, 54% coverage
- subunit: Component of the mitochondrial small ribosomal subunit (mt- SSU). Mature mammalian 55S mitochondrial ribosomes consist of a small (28S) and a large (39S) subunit. The 28S small subunit contains a 12S ribosomal RNA (12S mt-rRNA) and 30 different proteins. The 39S large subunit contains a 16S rRNA (16S mt-rRNA), a copy of mitochondrial valine transfer RNA (mt-tRNA(Val)), which plays an integral structural role, and 52 different proteins. bS16m has a zinc binding site.
- Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression.
Hendrickson, PloS one 2010 - GeneRIF: Observational study of gene-disease association. (HuGE Navigator)
- The effect of mutated mitochondrial ribosomal proteins S16 and S22 on the assembly of the small and large ribosomal subunits in human mitochondria.
Emdadul, Mitochondrion 2008 - GeneRIF: The effect of mutated MRPS16 on the assembly of the small and large ribosomal units in human mitochondria is reported.
- A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease.
Grupe, American journal of human genetics 2006 - GeneRIF: Observational study of gene-disease association. (HuGE Navigator)
- Defective mitochondrial translation caused by a ribosomal protein (MRPS16) mutation.
Miller, Annals of neurology 2004 (PubMed)- GeneRIF: Defective mitochondrial translation caused by a ribosomal protein (MRPS16) mutation.
- [Mutual effect of human ribosomal proteins S5 and S16 on their binding with 18S rRNA fragment 1203-1236/1521-1698].
Ian'shina, Molekuliarnaia biologiia (PubMed)- GeneRIF: Mutual effect of human ribosomal proteins S5 and S16 on their binding with 18S rRNA fragment 1203-1236/1521-1698
- Identification of the differentially expressed proteins in nasopharyngeal carcinoma by proteomics.
Rong, Translational cancer research 2020 - “...Normal tissue H:L NPC tissue H:L NPC/normal 1, 1 Q9UHJ6 78.66655731 Q9UHJ6 0.01010315 7,786.339638 1 Q9Y3D3 78.66655731 Q9Y3D3 0.109218903 720.2650379 1 Q13422 6.447723866 Q13422 0.01010315 638.1894622 1 Q15067 2.477478027 Q15067 0.01010315 245.2183752 1 P51159 78.66655731 P51159 0.324296415 242.576093 1 NPC, nasopharyngeal carcinoma. Table 3 Comparison of...”
6o8wp / A0A1B4XP69 6o8wp (see paper)
47% identity, 83% coverage
RT16_ARATH / Q9LTS6 Small ribosomal subunit protein bS16m/bS16c; 30S ribosomal protein S16-2, mitochondrial/chloroplastic from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
AT5G56940 ribosomal protein S16 family protein from Arabidopsis thaliana
44% identity, 56% coverage
6xywBo / Q9LTS6 6xywBo (see paper)
44% identity, 76% coverage
RS16A_ARATH / O65686 Small ribosomal subunit protein bS16cy; 30S ribosomal protein S16-1, chloroplastic; Small subunit ribosomal protein 16 from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
AT4G34620 SSR16 (SMALL SUBUNIT RIBOSOMAL PROTEIN 16); structural constituent of ribosome from Arabidopsis thaliana
46% identity, 65% coverage
- disruption phenotype: Embryo lethal, arresting development at the transition from the globular to the heart stage of embryonic development.
- Estradiol-inducible AvrRps4 expression reveals distinct properties of TIR-NLR-mediated effector-triggered immunity
Ngou, Journal of experimental botany 2020 - “...(our name: At1, locus identifier AT3G16240, protein symbol name TIP2-1), a ribosomal protein S16 (At2, AT4G34620, RPS16-1), a cysteine synthase isomer CysC1 (At3, AT3G61440, CYSC1), a PSII subunit Q (At4, AT4G21280, PSBQ1), a xyloglucan endotransglucosylase/hydrolase 6 (At5, AT5G65730, XTH6), and a ubiquitin-like protein 5 (At6, AT5G42300,...”
- Separation and Paired Proteome Profiling of Plant Chloroplast and Cytoplasmic Ribosomes
Firmino, Plants (Basel, Switzerland) 2020 - “...NA ATCG00330 plastid 30S uS14c RPS14 + NA ATCG01120 plastid 30S uS15c RPS15 + NA AT4G34620 plastid 30S bS16c RPS16 + NA AT1G79850 plastid 30S uS17c RPS17 + NA ATCG00650 plastid 30S bS18c RPS18 + NA ATCG00820 plastid 30S uS19c RPS19 + NA AT3G15190 plastid 30S...”
- The Sulfate Supply Maximizing Arabidopsis Shoot Growth Is Higher under Long- than Short-Term Exposure to Cadmium
Ferri, Frontiers in plant science 2017 - “...each gene was calculated by the 2 -Ct method using the expression of the S16 (At4g34620) gene as reference. Primers for qRT-PCR are listed in Supplementary Table S1 . Statistical Analysis Statistical analysis was carried out using SigmaPlot for Windows version 11.0 (Systat Software, Inc.). Quantitative...”
- Transcriptome-wide high-throughput deep m(6)A-seq reveals unique differential m(6)A methylation patterns between three organs in Arabidopsis thaliana
Wan, Genome biology 2015 - “...DNA replication and protein synthesis 19 1.63 0.05 AT2G34480, AT5G64650, AT1G56045, AT3G25520, AT1G80750, AT3G09500, AT3G04840, AT4G34620, AT3G28500, AT5G02610, AT4G31985, AT2G01250, AT2G19720, AT2G04390, AT1G61580, AT2G25210, AT1G07070, AT5G39850, AT1G78630 Higher in roots Flavonoid biosynthesis 9 0.46 1.33E-05 AT5G07990, AT1G74550, AT4G34050, AT5G42800, AT2G30490, AT3G55120, AT5G08640, AT5G13930, AT4G22880 Carbonate metabolism...”
- The Receptor for Activated C Kinase in Plant Signaling: Tale of a Promiscuous Little Molecule
Islas-Flores, Frontiers in plant science 2015 - “...factor 3B subunit 4 mRNA Processing e A. thaliana Kundu et al., 2013 91 AtRACK1A AT4G34620 SSR16, Small subunit ribosomal protein 16 Translation/Ribosome biogenesis e A. thaliana Kundu et al., 2013 92 AtRACK1A AT4G39200 S25-4, 40S Ribosomal protein Translation e A. thaliana Kundu et al., 2013...”
- A split-ubiquitin yeast two-hybrid screen to examine the substrate specificity of atToc159 and atToc132, two Arabidopsis chloroplast preprotein import receptors
Dutta, PloS one 2014 - “...Cytochrome b561-2 (ACYB2, Cyt b561-2) AT4G25570 6 + + Small Subunit Ribosomal Protein 16 (SSR16) AT4G34620 22 + Rhomboid-Like Protein 11 (AtBL11) AT5G25752 49 + Membrane-associated progesterone binding protein 3 (ATMAPR3) AT3G48890 51 + Glucose-6-phosphate transmembrane transporter (GPT1) AT5G54800 64 + Thioredoxin F-type 1 (Trx F1)...”
- Unraveling the iron deficiency responsive proteome in Arabidopsis shoot by iTRAQ-OFFGEL approach
Zargar, Plant signaling & behavior 2013 - “...0.824 0.319 ATCG00540 photosynthetic electron transfer A 5.3 0.2 0.425 0.034 0.596 0.112 0.958 0.184 AT4G34620 small subunit ribosomal protein 16 3.3 0.4 0.428 0.158 0.654 0.300 0.943 0.336 AT3G45780 phototropin 1 7.7 0.1 0.434 0.098 0.595 0.061 1.019 0.127 AT2G38040 acetyl Co-enzyme a carboxylase carboxyltransferase...”
- Transcript profiling of cytokinin action in Arabidopsis roots and shoots discovers largely similar but also organ-specific responses
Brenner, BMC plant biology 2012 - “...16 0.69 0.18 1.82E-03 AT2G34420 chlorophyll A-B binding protein (LHB1B2) CATMA4a36460 15 0.99 0.17 3.19E-03 AT4G34620 ribosomal protein S16 family protein CATMA2a24825 13 1.86 0.16 1.26E-02 AT2G26500 cytochrome b6f complex subunit (petM), putative CATMA5a60355 12 0.41 0.15 2.94E-06 AT5G64920 COP1-interacting protein (CIP8) CATMA4a22880 9 1.10 0.15...”
- More
- Estimating the nucleotide diversity in Ceratodon purpureus (Ditrichaceae) from 218 conserved exon-primed, intron-spanning nuclear loci
McDaniel, Applications in plant sciences 2013 - “...to SW:SYS_HELAN O81983 SERYL-TRNA SYNTHETASE 524 0.004272 JY262972, JY263134, JY263299, JY262813 AW087074 similar to TR:O65686 O65686 PUTATIVE RIBOSOMAL PROTEIN S16 700 0 JY263169, JY263329 AW087075 Moss EST library CPU Ceratodon purpureus cDNA clone PEP_SOURCE_ID:CPU031418 5-, mRNA sequence 646 0.014107 JY262905, JY263054, JY263250, JY262743 AW097915 Moss EST...”
B739_1246 30S ribosomal protein S16 from Riemerella anatipestifer RA-CH-1
43% identity, 42% coverage
lp_1636 ribosomal protein S16 from Lactobacillus plantarum WCFS1
45% identity, 82% coverage
- Transcriptional Reprogramming at Genome-Scale of Lactobacillus plantarum WCFS1 in Response to Olive Oil Challenge
Esteban-Torres, Frontiers in microbiology 2017 - “...[RPL18], lp_1053 [RPS5], lp_1061 [RPS11]) and six upregulated ( lp_0009 [RPS6], lp_0512 [RPL31], lp_0737 [RPS30A], lp_1636 [RPS16], lp_1973 [RPS21], lp_2126 [RPS20]). In addition, genes coding for cell division proteins [ lp_0542 ( divIC , septum formation initiator) and lp_2272 ( zapA , cell-division Z-ring component, stimulator...”
P856_237 30S ribosomal protein S16 from Candidatus Endolissoclinum faulkneri L5
39% identity, 74% coverage
A1OE_399 30S ribosomal protein S16 from Candidatus Endolissoclinum faulkneri L2
39% identity, 73% coverage
RS16_THET8 / Q5SJH3 Small ribosomal subunit protein bS16; 30S ribosomal protein S16 from Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8) (see paper)
1hnwP / Q5SJH3 Structure of the thermus thermophilus 30s ribosomal subunit in complex with tetracycline (see paper)
38% identity, 88% coverage
- function: Binds to the lower part of the body of the 30S subunit, where it stabilizes two of its domains
subunit: Part of the 30S ribosomal subunit - Ligand: rna (1hnwP)
TP0905 ribosomal protein S16 (rpsP) from Treponema pallidum subsp. pallidum str. Nichols
45% identity, 59% coverage
MMCAP2_0362 30S ribosomal protein S16 from Mycoplasma mycoides subsp. capri str. GM12
43% identity, 82% coverage
Q71YL9 Small ribosomal subunit protein bS16 from Listeria monocytogenes serotype 4b (strain F2365)
lmo1797 ribosomal protein S16 from Listeria monocytogenes EGD-e
45% identity, 82% coverage
- Proteomic Exploration of Listeria monocytogenes for the Purpose of Vaccine Designing Using a Reverse Vaccinology Approach
Srivastava, International journal of peptide research and therapeutics 2021 - “...0.586 Non-allergen 145 Q71ZK1 1.532 Non-allergen 146 Q71ZD0 1.746 Non-allergen 147 Q71WF4 0.935 Non-allergen 148 Q71YL9 2.126 Non-allergen 149 Q71WG9 1.537 Non-allergen 150 Q71YK0 2.221 Non-allergen 151 Q71WI2 2.143 Non-allergen 152 Q71VQ6 1.957 Non-allergen 153 Q724G8 1.5 Non-allergen 154 Q722D6 1.506 Non-allergen 155 Q71XL9 0.743 Non-allergen...”
- “...46.5 1.9356 Antigen Q71ZD0 DRB1_1301 MLKFDIQHF 45 1.2032 Antigen Q71WF4 DRB1_0101 LFNLRFQLA 1029 2.5288 Antigen Q71YL9 DRB1_1301 MAVKIRLKR 4.3 1.4155 Antigen DRB1_1301 AVKIRLKRI 55.1 1.4342 Antigen Q71YK0 DRB1_1301 RKSRSGNKR 40.5 2.7338 Antigen Q71WI2 DRB1_1301 LLTRDPRMK 16.6 1.3863 Antigen DRB1_1301 KSSVARVRL 68.6 1.0414 Antigen Q71VQ6 DRB1_1301 ASRRRKGRK...”
- SecA2 Associates with Translating Ribosomes and Contributes to the Secretion of Potent IFN-β Inducing RNAs
Teubner, International journal of molecular sciences 2022 - “...ABC transporter ATP-binding protein Inorganic ion transport and metabolism; Coenzyme transport and metabolism; 0.37 0.46 lmo1797 rpsP 30S ribosomal protein S16 Translation 0.39 0.44 lmo0866 cshA DEAD-box ATP-dependent RNA helicase CshA Replication. recombination and repair; Transcription; Translation; 0.32 0.41 lmo2219 prsA2 Foldase protein PrsA 2 Posttranslational...”
FE46_RS01825 30S ribosomal protein S16 from Flavobacterium psychrophilum
FP0344 30S ribosomal protein S16 from Flavobacterium psychrophilum JIP02/86
39% identity, 41% coverage
- Dual RNA-Seq of Flavobacterium psychrophilum and Its Outer Membrane Vesicles Distinguishes Genes Associated with Susceptibility to Bacterial Cold-Water Disease in Rainbow Trout (Oncorhynchus mykiss)
Chapagain, Pathogens (Basel, Switzerland) 2023 - “...B 50S ribosomal L31 43.71 FE46_RS09215 50S ribosomal L33 37.49 FE46_RS12230 50S ribosomal L32 33.37 FE46_RS01825 30S ribosomal S16 30.62 FE46_RS01795 Inorganic pyrophosphatase 29.61 FE46_RS12455 Copper resistance 28.99 FE46_RS11385 50S ribosomal L27 23.06 FE46_RS05880 3,4-Dihydroxy-2-butanone-4-phosphate synthase 22.28 FE46_RS04555 30S ribosomal S6 21.17 FE46_RS04560 30S ribosomal S18...”
- Stress Tolerance-Related Genetic Traits of Fish Pathogen Flavobacterium psychrophilum in a Mature Biofilm
Levipan, Frontiers in microbiology 2018 - “...GO:0008270 2.63 FP0253 Probable transcriptional regulator, AraC family FP0253, FPSM_00280 GO:0003700, GO:0043565, GO:0006351, GO:0006355 2.82 FP0344 30S ribosomal protein S16 rpsP GO:0005840, GO:0003735, GO:0006412 4.52 FP0423 Probable transcriptional regulator, TetR family FPSM_00466, FP0423 GO:0003677, GO:0006351, GO:0006355 2.64 FP0453 Elongation factor Ts (EF-Ts) tsf GO:0005737, GO:0003746, GO:0006414...”
7nhnq / Q8Y699 7nhnq (see paper)
45% identity, 84% coverage
MHJ_0278 30S ribosomal protein S16 from Mycoplasma hyopneumoniae J
41% identity, 81% coverage
DVU0839 ribosomal protein S16 from Desulfovibrio vulgaris Hildenborough
39% identity, 93% coverage
F452_RS0106315 30S ribosomal protein S16 from Porphyromonas gulae DSM 15663
45% identity, 35% coverage
PGN_0167 30S ribosomal protein S16 from Porphyromonas gingivalis ATCC 33277
45% identity, 34% coverage
PG2117 ribosomal protein S16 from Porphyromonas gingivalis W83
45% identity, 34% coverage
NP_295018 ribosomal protein S16 from Deinococcus radiodurans R1
38% identity, 90% coverage
- The importance of peptide detectability for protein identification, quantification, and experiment design in MS/MS proteomics
Li, Journal of proteome research 2010 - “...protein (NP_285656), 30S ribosomal protein S13 (NP_295848), co-chaperonin GroES (NP_294329.2), and 30S ribosomal protein S16 (NP_295018). Empirical limits of detectability prediction The model of peptide detectability is limited by several factors, including the particular peptide-spectrum matching algorithm, data representation, selection of the machine learning model, and...”
7bgdp / Q2FZ45 Staphylococcus aureus 30s ribosomal subunit in presence of spermidine (body only)
39% identity, 82% coverage
SAOUHSC_01208 ribosomal protein S16 from Staphylococcus aureus subsp. aureus NCTC 8325
A6QGD8 Small ribosomal subunit protein bS16 from Staphylococcus aureus (strain Newman)
Q6GHJ7 Small ribosomal subunit protein bS16 from Staphylococcus aureus (strain MRSA252)
SA1081 30S ribosomal protein S16 from Staphylococcus aureus subsp. aureus N315
SAUSA300_1131 30S ribosomal protein S16 from Staphylococcus aureus subsp. aureus USA300_FPR3757
ACIV1F_001630, EKM74_RS15340 30S ribosomal protein S16 from Staphylococcus aureus
39% identity, 81% coverage
- Insights into the global effect on Staphylococcus aureus growth arrest by induction of the endoribonuclease MazF toxin
Sierra, Nucleic acids research 2020 - “...Phenylalanyl-tRNA synthetase subunit alpha [100/UACUUA] Phenylalanyl-tRNA aminoacylation [GO:0006432] ileS SAOUHSC_01159 Isoleucyl-tRNA synthetase [188/UACAUA] n/a rpsP SAOUHSC_01208 30S ribosomal protein S16 [114/UACUUA] Ribosome [GO:0005840] Gid SAOUHSC_01223 tRNA (uracil-5-)-methyltransferase Gid [526/UACUUA] tRNA wobble uridine modification [GO:0002098] infB SAOUHSC_01246 Translation initiation factor IF-2 [1257/UACUUA] Translational initiation [GO:0006413] rpsA SAOUHSC_01493...”
- Trapping and identification of cellular substrates of the Staphylococcus aureus ClpC chaperone
Graham, Journal of bacteriology 2013 - “...25 43 10 23 53 A6QG79 A6QEJ0 A6QH25 A6QGD8 A6QHQ3 A6QIC8 5.0/4.0 18.0/18.5 29.0/20.8 8.0/6.4 65.0/50.2 40.0/65.3 0.0/1.5 7.0/6.4 13.0/9.8 4.0/2.0 22.0/33.9...”
- Structural and Functional Dynamics of Staphylococcus aureus Biofilms and Biofilm Matrix Proteins on Different Clinical Materials
Hiltunen, Microorganisms 2019 - “...Q6GJC3 30S ribosomal protein S13 Q6GEK7 30S ribosomal protein S15 Q99UJ9 30S ribosomal protein S16 Q6GHJ7 30S ribosomal protein S17 Q8NVB4 30S ribosomal protein S18 Q6GJV1 30S ribosomal protein S19 Q6GEI7 30S ribosomal protein S2 Q6GHH9 30S ribosomal protein S20 Q99TR3 30S ribosomal protein S21 Q6GGC5...”
- Studies of the in vitro antibacterial activities of several polyphenols against clinical isolates of methicillin-resistant Staphylococcus aureus
Su, Molecules (Basel, Switzerland) 2014 - “...125 125 1000 >2000 >4000 >4000 3 SA1072 125 125 1000 >2000 >4000 >4000 4 SA1081 125 125 1000 >2000 >4000 >4000 It can be seen that the MIC values of luteolin and quercetin for each of these 34 strains range from 31.25 to 125 g/mL...”
- Analysis of the matrix-assisted laser desorption ionization-time of flight mass spectrum of Staphylococcus aureus identifies mutations that allow differentiation of the main clonal lineages
Josten, Journal of clinical microbiology 2013 - “...(SA2030) SA1452 graC (SAS044) SA2039 rpsP (SA1081) Primer sequence SAS078for SAS078rev SAR1012for SAR1012rev SA0772for SA0772rev SA2039for SA2039rev SA1414for...”
- “...s s k 5.16 9.52 9,627 hup (SA1305) k 9.52 10,105 rpsP (SA1081) 10,153 rpsP (SA1081) 19 9.70 9.70 10.00 9.52 20 8.19 m 9.60 k k 10.32 11.24 sigBb 5.05 y 5.07 y s...”
- Transcriptional profiles of the response of methicillin-resistant Staphylococcus aureus to pentacyclic triterpenoids
Chung, PloS one 2013 - “...rpsL 30S ribosomal protein S12 7.3 Translation SA2025 rpsM 30S ribosomal protein S13 6.1 Translation SA1081 rpsP 30S ribosomal protein S16 2.9 Translation SA2038 rpsQ 30S ribosomal protein S17 10.2 Translation SA0354 rpsR 30S ribosomal protein S18 4.8 Translation SA2043 rpsS 30S ribosomal protein S19 4.8...”
- Direct targets of CodY in Staphylococcus aureus
Majerczyk, Journal of bacteriology 2010 - “...purC 4.9 5 SA1076 SA1077 SA1078 SA1079 SA1080 SA1081 SA0925 SA1083 purS purQ purL purF purM purN purH purD Phosphoribosylaminoimidazole carboxylase, ATPase...”
- Characterizing the effects of inorganic acid and alkaline shock on the Staphylococcus aureus transcriptome and messenger RNA turnover
Anderson, FEMS immunology and medical microbiology 2010 - “...synthase II sa_c680s488_a_at 3.5 2.5 ND purM SA1080 phosphoribosylformylglycinamidine cyclo-ligase sa_c686s494_a_at 4.2 2.5 2.5 purN SA1081 phosphoribosylglycinamide formyltransferase sa_c9991s8687_a_at 6.6 2.5 ND pyrB SA1212 aspartate carbamoyltransferase catalytic subunit sa_c1155s937_a_at * 9.7 2.5 30 pyrC SA1213 dihydroorotase sa_c6327s5497_a_at * 11.7 2.5 2.5 pyrD SA2606 dihydroorotate dehydrogenase 2...”
- Differential gene expression profiling of Staphylococcus aureus cultivated under biofilm and planktonic conditions
Resch, Applied and environmental microbiology 2005 - “...2.614 2.557 2.516 SA2016 SA2017 SA1471 SA2030 SA2045 SA1081 SA2029 SA0504 SA0495 SA1473 SA0354 SA0503 SA2031 SA0497 SA1116 SA2032 SA0496 3.324 3.241 3.173 3.109...”
- Heparin Mimics Extracellular DNA in Binding to Cell Surface-Localized Proteins and Promoting Staphylococcus aureus Biofilm Formation
Mishra, mSphere 2017 - “...21 None SAUSA300_0173 Uncharacterized protein 2 2 17 None SAUSA300_0969 PurS 4 4 59 None SAUSA300_1131 30S ribosomal protein S16 3 3 49 None SAUSA300_1304 Glyoxylase family protein 3 3 18 None SAUSA300_2529 PhnB 2 2 19 None SAUSA300_2245 SarR 2 2 18 None SAUSA300_2315 Lipoprotein...”
- Response of <i>Staphylococcus aureus</i> to combination of virulent bacteriophage vB_SauM-515A1 and linezolid
Abdraimova, Frontiers in microbiology 2024 - “...During combined treatment, transcription of genes encoding both large (ACIV1F_000615; ACIV1F_001627; ACIV1F_002546; ACIV1F_002564) and small (ACIV1F_001630; ACIV1F_002560; ACIV1F_002565) ribosomal subunit proteins also changed, though the GO term for translation was not significantly enriched. Additionally, following 30 min of antibiotic exposure, there was increased transcription of genes...”
- Transcriptomic Analysis Revealed Antimicrobial Mechanisms of Lactobacillus rhamnosus SCB0119 against Escherichia coli and Staphylococcus aureus
Peng, International journal of molecular sciences 2022 - “...ribosomal protein S7 EKM74_RS14380 74.47 6.98 956.98 89.75 3.683755 rpmF ; 50S ribosomal protein L32 EKM74_RS15340 44.89 6.07 387.7 59.81 3.110434 rpsP ; 30S ribosomal protein S16 EKM74_RS15355 56.77 3.55 839.03 212.16 3.885462 rplS ; 50S ribosomal protein L19 EKM74_RS15435 112.72 30.02 3718.42 314.52 5.043867 rpsB...”
SPBC354.06 mitochondrial ribosomal protein subunit S16 from Schizosaccharomyces pombe
34% identity, 85% coverage
- Circular RNA is expressed across the eukaryotic tree of life
Wang, PloS one 2014 - “...gene descriptors. Gene locus tag exons observed circles Gene description, other notes Schizosaccharomyces pombe mrps16 SPBC354.06 3 2-2 mitochondrial ribosomal protein subunit S16 (predicted) pub1 SPAC11G7.02 4 3-3 HECT-type ubiquitin -protein ligase E3 Pub1 SPAC57A7.13 SPAC57A7.13 4 2-2 RNA-binding protein, involved in splicing (predicted) ypt5 SPAC6F6.15...”
- Schizosaccharomyces pombe essential genes: a pilot study
Decottignies, Genome research 2003 - “...SPBC354.02c/sec61 SPBC354.03 SPBC354.04 SPBC354.05c SPBC354.06 SPBC354.07c SPBC354.08c SPBC354.09c SPBC354.10 SPBC354.11c SPBC354.12 SPBC354.13 SPBC354.14c...”
8om2P / Q02608 8om2P (see paper)
39% identity, 64% coverage
RT16_YEAST / Q02608 Small ribosomal subunit protein bS16m; 37S ribosomal protein S16, mitochondrial from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 5 papers)
YPL013C Mitochondrial ribosomal protein of the small subunit from Saccharomyces cerevisiae
39% identity, 64% coverage
- function: Component of the mitochondrial ribosome (mitoribosome), a dedicated translation machinery responsible for the synthesis of mitochondrial genome-encoded proteins, including at least some of the essential transmembrane subunits of the mitochondrial respiratory chain. The mitoribosomes are attached to the mitochondrial inner membrane and translation products are cotranslationally integrated into the membrane.
subunit: Component of the mitochondrial small ribosomal subunit (mt- SSU). Mature yeast 74S mitochondrial ribosomes consist of a small (37S) and a large (54S) subunit. The 37S small subunit contains a 15S ribosomal RNA (15S mt-rRNA) and 34 different proteins. The 54S large subunit contains a 21S rRNA (21S mt-rRNA) and 46 different proteins. - Identification of Genetic Modifiers of TDP-43: Inflammatory Activation of Astrocytes for Neuroinflammation
Kim, Cells 2021 - “...Glycerol-3-phosphate dehydrogenase [NAD(+)] 1 GPD1 32 YDL036C PUS9 Q12069 tRNA pseudouridine(32) synthase, mitochondrial RPUSD2 33 YPL013C MRPS16 Q02608 37S ribosomal protein S16, mitochondrial MRPS16 cells-10-00676-t002_Table 2 Table 2 The gene ontology (GO) terms enriched in the TDP-43 network constructed in this study. GO Term Genes Q-Value...”
- Systematic analysis of nuclear gene function in respiratory growth and expression of the mitochondrial genome in S. cerevisiae
Stenger, Microbial cell (Graz, Austria) 2020 - “...MRP1 YDR347W MRPL9 YGR220C RSM22 YKL155C MRP10 YDL045W-A MRPS12 YNR036C RSM23 YGL129C MRP17 YKL003C MRPS16 YPL013C RSM24 YDR175C MRP20 YDR405W MRPS28 YDR337W RSM27 YGR215W MRP21 YBL090W MRPS5 YBR251W RSM7 YJR113C MRP4 YHL004W MRPS8 YMR158W SLM5 YCR024C MRP51 YPL118W MRS1 YIR021W SLS1 YLR139C MRP7 YNL005C MRX14 YDR115W...”
- “...MRP4 YHL004W MRPL51 YPR100W RSM19 YNR037C MRP51 YPL118W MRPS12 YNR036C RSM23 YGL129C MRP7 YNL005C MRPS16 YPL013C RSM24 YDR175C MRPL10 YNL284C MRPS35 YGR165W RSM27 YGR215W MRPL11 YDL202W MSK1 YNL073W SWS2 YNL081C MRPL16 YBL038W MST1 YKL194C Respiratory chain components and assembly factors COX5A YNL052W Mitochondrial fusion FZO1 YBR179C...”
- Dynamic identifying protein functional modules based on adaptive density modularity in protein-protein interaction networks
Shen, BMC bioinformatics 2015 - “...yjr060w yjr101w yjr113c ykl003c ykl151c ykl155c ymr158w ymr188c ynl081c ynl137c ynl306w ynr036c ynr037c yol143c yor158w ypl013c ypl118w 5.52e-32 23 out of 36 genes, 63.9% mRNA splicing, via spliceosome ybr119w ydl087c ydr020c ydr122w ydr235w ydr240c ydr243c ydr247w ydr515w yer029c yfl018w-a ygr013w ygr074w yhr086w yhr165c yil061c yir009w yjl188c...”
- Origin of co-expression patterns in E. coli and S. cerevisiae emerging from reverse engineering algorithms
Zampieri, PloS one 2008 - “...3 and 1 in cluster 8 (still mitochondrial) and only 2 are missing (YMR158W and YPL013C). Influence of gene distance For E.coli , the operonal structure of the genome is certainly a key factor in the formation of the clusters [20] , [7] . In Fig....”
- Efficient Tor signaling requires a functional class C Vps protein complex in Saccharomyces cerevisiae
Zurita-Martinez, Genetics 2007 - “...NC NC NC NC NC YFL016C YPL118W YMR193W YPL013C YJL063C YCR046C YLR426W YGR171C YPR100W YNL284C YNL073W YMR158W YOR150W YHR091C YKL170W YBR146W YNR037C YIL093C...”
- Ascospore formation in the yeast Saccharomyces cerevisiae
Neiman, Microbiology and molecular biology reviews : MMBR 2005 - “...YOR125c YOR136w YOR142w YOR150w YOR158w YOR196c YOR358w YPL013c YPL060w YPL104w YPL118w YPL172c YPL173w YPL215w ORF Spore formation Gene ORF Unknown sporulation...”
- Schizosaccharomyces pombe essential genes: a pilot study
Decottignies, Genome research 2003 - “...YMR201c/RAD14 YGR173w YLR378c/SEC61 YBR198c/TAF90 YOR032c/HMS1 YPL013c YPL145c/KES1 YMR266w YPL176c YIR019c/MUC1 YJL052w/TDH1 YDR389w/SAC7 YEL013w/VAC8 Fission...”
- Tag-mediated isolation of yeast mitochondrial ribosome and mass spectrometric identification of its new components
Gan, European journal of biochemistry 2002 (PubMed)- “...fractions. Thus, we have newly established Ymr158w (MrpS8), Ypl013c (MrpS16), Ymr188c (MrpS17) and Ygr165w (MrpS35) as small subunit mrps and Img1, Img2,...”
- “...of unknown function mentioned above as well as Ymr158w, Ypl013c, Ymr188c, Ydr116c, Img1, Ynl177c, Ypr100w and Img2 are indeed yeast mrps and, if so, with which...”
- More
- Identification of Genetic Modifiers of TDP-43: Inflammatory Activation of Astrocytes for Neuroinflammation
Kim, Cells 2021 - “...[NAD(+)] 1 GPD1 32 YDL036C PUS9 Q12069 tRNA pseudouridine(32) synthase, mitochondrial RPUSD2 33 YPL013C MRPS16 Q02608 37S ribosomal protein S16, mitochondrial MRPS16 cells-10-00676-t002_Table 2 Table 2 The gene ontology (GO) terms enriched in the TDP-43 network constructed in this study. GO Term Genes Q-Value a Respiratory...”
- Exploring hierarchical and overlapping modular structure in the yeast protein interaction network
Liu, BMC genomics 2010 - “...biogenesis and assembly Q06640 19.64 transcription P53163 14.08 ribosome biogenesis and assembly Q07844 19.64 transcription Q02608 14.08 ribosome biogenesis and assembly Q08923 19.64 transcription Q03162 14.08 ribosome biogenesis and assembly Q12395 19.64 transcription P38254 13.03 RNA metabolic process Q12443 19.64 transcription P38768 13.03 RNA metabolic process...”
E3D753 Small ribosomal subunit protein bS16 from Gardnerella vaginalis (strain ATCC 14019 / 317)
41% identity, 48% coverage
A0A1Z1M242 Small ribosomal subunit protein bS16c from Acrosorium ciliolatum
35% identity, 91% coverage
SERP0804 ribosomal protein S16 from Staphylococcus epidermidis RP62A
SE0913 30S ribosomal protein S16 from Staphylococcus epidermidis ATCC 12228
39% identity, 81% coverage
SRIM_029570 30S ribosomal protein S16 from Streptomyces rimosus subsp. rimosus ATCC 10970
35% identity, 51% coverage
RS16_MYCGE / P47684 Small ribosomal subunit protein bS16; 30S ribosomal protein S16 from Mycoplasma genitalium (strain ATCC 33530 / DSM 19775 / NCTC 10195 / G37) (Mycoplasmoides genitalium) (see paper)
MG_446 ribosomal protein S16 from Mycoplasma genitalium G37
40% identity, 81% coverage
- disruption phenotype: Probably essential, it was not disrupted in a global transposon mutagenesis study.
- A novel sigma factor reveals a unique regulon controlling cell-specific recombination in Mycoplasma genitalium
Torres-Puig, Nucleic acids research 2015 - “...MPN614 531509 TTGTTA-N 19 -ATTAAT MG_423 261 Putative ribonuclease_J - MPN621 550394 TTGTTA-N 19 -ATTTAT MG_446 171 30S ribosomal protein S16 - MPN660 a In this Table, only sequences located less than three-hundred nucleotides upstream from the translational start site of a known gene coded in...”
- Transcriptional response of Mycoplasma genitalium to osmotic stress
Zhang, Microbiology (Reading, England) 2011 - “...MG_444 rplS Ribosomal protein L19 2.16 0.00001 0.00136 MG_445 trmD tRNA (guanine-N1)-methyltransferase 3.96 0.00001 0.00136 MG_446 rpsP Ribosomal protein S16 3.60 0.00001 0.00136 MG_451 tuf Translation elongation factor Tu 3.84 0.00001 0.00136 MG_452 Membrane protein, putative 2.56 0.00002 0.00136 MG_453 galU UTP-glucose-1-phosphate uridylyltransferase 2.36 0.00163 0.00136...”
SCO5591 30S ribosomal protein S16 from Streptomyces coelicolor A3(2)
38% identity, 55% coverage
CTL0281 SSU ribosomal protein S16P from Chlamydia trachomatis 434/Bu
CT026 S16 Ribosomal Protein from Chlamydia trachomatis D/UW-3/CX
33% identity, 66% coverage
BL0305 30S ribosomal protein S16 from Bifidobacterium longum NCC2705
42% identity, 47% coverage
BAD_0209 30S ribosomal protein S16 from Bifidobacterium adolescentis ATCC 15703
YP_909072 30S ribosomal protein S16 from Bifidobacterium adolescentis ATCC 15703
40% identity, 49% coverage
cg2253 30S ribosomal protein S16 from Corynebacterium glutamicum ATCC 13032
37% identity, 45% coverage
RT16_NEUCR / P08580 Small ribosomal subunit protein bS16m; Ribosomal protein S16, mitochondrial; S24 from Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (see paper)
34% identity, 73% coverage
- function: Component of the mitochondrial ribosome (mitoribosome), a dedicated translation machinery responsible for the synthesis of mitochondrial genome-encoded proteins, including at least some of the essential transmembrane subunits of the mitochondrial respiratory chain. The mitoribosomes are attached to the mitochondrial inner membrane and translation products are cotranslationally integrated into the membrane.
subunit: Component of the mitochondrial small ribosomal subunit (mt- SSU). Mature N.crassa 74S mitochondrial ribosomes consist of a small (37S) and a large (54S) subunit. The 37S small subunit contains a 16S ribosomal RNA (16S mt-rRNA) and 32 different proteins. The 54S large subunit contains a 23S rRNA (23S mt-rRNA) and 42 different proteins.
6yw5PP / P08580 structure of the small subunit of the mitoribosome from Neurospora crassa (see paper)
34% identity, 80% coverage
8crxP / Q6A7S4 8crxP (see paper)
42% identity, 57% coverage
LIC_11555 30S ribosomal protein S16 from Leptospira interrogans
37% identity, 86% coverage
MGG_02598 30S ribosomal protein S16 from Pyricularia oryzae 70-15
37% identity, 71% coverage
AFUA_5G08350 37S ribosomal protein S16 from Aspergillus fumigatus Af293
36% identity, 72% coverage
A8JDN8 30S ribosomal protein S16, chloroplastic from Chlamydomonas reinhardtii
36% identity, 59% coverage
- Exploring intrinsically disordered proteins in Chlamydomonas reinhardtii
Zhang, Scientific reports 2018 - “...respectively. Accession Accession Name P D I F Cre16.g659950.t1.1 A8J8M5 S5 + + + Cre12.g494450.t1.2 A8JDN8 S16 + + NF NP_958370 S19 + + + + Cre12.g494750.t1.2 A8JDN4 S20 + + + Cre01.g017300.t1.2 A8HPN4 S21 + + Cre13.g581650.t1.2 A8HTY0 L7/L12 + + Cre10.g423650.t1.2 A8ICE4 L11 +...”
FGSG_09438 ribosomal protein S16 from Fusarium graminearum PH-1
36% identity, 66% coverage
MSMEG_2435 30S ribosomal protein S16 from Mycolicibacterium smegmatis MC2 155
MSMEG_2435 30S ribosomal protein S16 from Mycobacterium smegmatis str. MC2 155
37% identity, 48% coverage
- The Effect of Antimicrobial Photodynamic Inactivation on the Protein Profile of Dormant Mycolicibacterium smegmatis Containing Endogenous Porphyrins
Shashin, International journal of molecular sciences 2023 - “...L5/ MSMEG_1467 , rplE; 50S ribosomal protein L6/ MSMEG_1470 , rplF; 30S ribosomal protein S16/ MSMEG_2435 , rpsP; 50S ribosomal protein L22/ MSMEG_1441 , rplV; 30S ribosomal protein S9/M SMEG_1557 , rpsI; 50S ribosomal protein L20/M SMEG_3791 , rplT; 30S ribosomal protein S17/M SMEG_1445 , rpsQ;...”
- Elucidating the role of c-di-AMP in Mycobacterium smegmatis: Phenotypic characterization and functional analysis
Chaudhary, Heliyon 2023 - “...protein L7/L12 2.43 0.027 6 rplI (MSMEG_6894) 50S ribosomal protein L9 1.94 0.039 7 rpsP (MSMEG_2435) 30S ribosomal protein S16 2.17 0.023 8 rpmG1 (MSMEG_1339) 50S ribosomal protein L33 1.59 0.009 9 Pth (MSMEG_5432) Peptidyl-tRNA hydrolase 1.25 0.018 10 Response to stress MSMEG_5733 Universal stress protein...”
- MnoSR removal in Mycobacterium smegmatis triggers broad transcriptional response to 1,3-propanediol and glucose as sole carbon sources
Płocińska, Frontiers in cellular and infection microbiology 2024 - “..., msmeg_1556-1557 , msmeg_2519-2520 , msmeg_3791-3793, msmeg_4624-4625 as well as isolated ORFs msmeg_1339, msmeg_1346, msmeg_1428, msmeg_2435, msmeg_2440, msmeg_2541, msmeg_2564, msmeg_4571, msmeg_4580, msmeg_4951, msmeg_5222, msmeg_5431, msmeg_5489, msmeg_6894, msmeg_6897 and msmeg_6946 . MnoRS weakly influences utilization of sugars as carbon sources and does not affect nitrogen metabolism Next,...”
- Gene Expression, Bacteria Viability and Survivability Following Spray Drying of Mycobacterium smegmatis
Lauten, Materials (Basel, Switzerland) 2010 - “...S13p/S18e rpsM 0.9 12.3 0.014 12% MSMEG_2654 ribosomal protein S15 rpsO 1.3 11.4 0.001 92% MSMEG_2435 ribosomal protein S16 1.8 11.1 0.003 68% MSMEG_1445 ribosomal protein S17 2.0 12.2 0.001 91% MSMEG_6065 ribosomal protein S18 rpsR -0.3 9.3 0.587 0% MSMEG_6895 ribosomal protein S18 rpsR 1.4...”
Q5D704 Small ribosomal subunit protein bS16c from Phaeodactylum tricornutum (strain CCAP 1055/1)
31% identity, 94% coverage
RR16_SPIOL / P28807 Small ribosomal subunit protein bS16c; 30S ribosomal protein S16, chloroplastic from Spinacia oleracea (Spinach) (see 2 papers)
37% identity, 86% coverage
- function: Component of the chloroplast ribosome (chloro-ribosome), a dedicated translation machinery responsible for the synthesis of chloroplast genome-encoded proteins, including proteins of the transcription and translation machinery and components of the photosynthetic apparatus.
subunit: Component of the chloroplast small ribosomal subunit (SSU). Mature 70S chloroplast ribosomes of higher plants consist of a small (30S) and a large (50S) subunit. The 30S small subunit contains 1 molecule of ribosomal RNA (16S rRNA) and 24 different proteins. The 50S large subunit contains 3 rRNA molecules (23S, 5S and 4.5S rRNA) and 33 different proteins.
6eriBP / P28807 6eriBP (see paper)
37% identity, 93% coverage
RR16_SOLLC / Q2MIB8 Small ribosomal subunit protein bS16c; 30S ribosomal protein S16, chloroplastic from Solanum lycopersicum (Tomato) (Lycopersicon esculentum) (see paper)
34% identity, 88% coverage
- Identification of Tomato Proteins That Interact With Replication Initiator Protein (Rep) of the Geminivirus TYLCV.
Maio, Frontiers in plant science 2020 - “...aldolase + K4D576 Protein RNA-directed DNA methylation 3 + + K4AYP1 Dynamin-related protein 1E + Q2MIB8 30S ribosomal protein S16 + + K4CED0 Uncharacterized protein + K4DBB5 Zinc finger CCCH domain-containing protein + + P07370 Chlorophyll a-b protein 1B + K4CX06 Ribosome biogenesis protein NSA2 homolog...”
- “...K4DG14 GO:0008152 metabolic processes K4DG37, K4CFD4, K4C144, K4B3P9, P26300, K4DHM2, K4AZV6 GO:0006412 translation P49212, K4BJL2, Q2MIB8, K4CUW3, K4BBI1, K4C4X4 GO:0016043 cellular component organization K4BPK3, K4BCZ4, K4BA70, K4B6B8, K4AYP1, Q38MV0 GO:0006259 DNA metabolic process K4CED0, K4DB32, K4C9J5 _ Other K4ATJ4, K4BRF6, K4D383, K4D6D0, K4B256 GO ID Cellular...”
MPN660 30S ribosomal protein S16 from Mycoplasma pneumoniae M129
36% identity, 82% coverage
7oocO / P75131 Mycoplasma pneumoniae 30s subunit of ribosomes in chloramphenicol- treated cells (see paper)
36% identity, 89% coverage
MAB_3229c 30s ribosomal protein S16 from Mycobacterium abscessus ATCC 19977
39% identity, 48% coverage
ML1618 30S ribosomal protein S16 from Mycobacterium leprae TN
38% identity, 47% coverage
- Mycobacterium leprae and host immune transcriptomic signatures for reactional states in leprosy
Das, Frontiers in microbiology 2023 - “...in comparison to NR. In T2R, genes ML2498, ML1526, ML0394, ML1960, ML2388, ML0429, ML0281, ML1847, ML1618 and ML1271 were significantly upregulated. We noted ML2664 was significantly upregulated in T1R and repressed in T2R. Conversely, we have not noted any genes upregulated in T2R and repressed in...”
- “...et al., 2009 ). In T2R, genes ML2498, ML1526, ML0394, ML1960, ML2388, ML0429, ML0281, ML1847, ML1618 and ML1271 were the Top-10 significantly upregulated genes. These encode conserved membrane proteins, proteins of the 30S and 50S ribosomal subunits, possible enoyl-CoA hydratases and other enzymes. In addition, we...”
- Mycobacterium leprae and host immune transcriptomic signatures for reactional states in leprosy
Das, 2022
Q332Z6 Small ribosomal subunit protein bS16c from Lactuca sativa
35% identity, 88% coverage
- Comparison of proteome response to saline and zinc stress in lettuce
Lucini, Frontiers in plant science 2015 - “...chloroplastic Q332U4 4.139288 30S ribosomal protein S15, chloroplastic Q332S0 -0.13317 30S ribosomal protein S16, chloroplastic Q332Z6 4.159053 30S ribosomal protein S19, chloroplastic Q332T6 -5.81259 30S ribosomal protein S3, chloroplastic Q332T8 -0.13317 -0.37763 30S ribosomal protein S3, chloroplastic Q332T8 -0.37763 30S ribosomal protein S4, chloroplastic Q332X6 -0.13317...”
RR16_LOTJA / P58125 Small ribosomal subunit protein bS16c; 30S ribosomal protein S16, chloroplastic from Lotus japonicus (Lotus corniculatus var. japonicus) (see paper)
36% identity, 94% coverage
ssr0482 30S ribosomal protein S16 from Synechocystis sp. PCC 6803
36% identity, 91% coverage
- A transcriptional regulator Sll0794 regulates tolerance to biofuel ethanol in photosynthetic Synechocystis sp. PCC 6803
Song, Molecular & cellular proteomics : MCP 2014 - “...Slr2059 Ssl1426 Ssl1784 Ssl3044 Ssl3432 Ssl3441 Ssl3445 Ssr0482 Ssr1604 Ssr2799 Mutant_r1 vs. Control_r1 Mutant_r2 vs. Control_r1 Mutant_r1 vs. Control_r2...”
- Proteomic analysis reveals resistance mechanism against biofuel hexane in Synechocystis sp. PCC 6803
Liu, Biotechnology for biofuels 2012 - “...we found that several ribosomal proteins, Sll1816 ( rpsM ), Sll1803 ( rplV ) and Ssr0482 ( rpsP ) were down-regulated under hexane treatment. Interestingly, these three genes, rpsM , rplV , and rpsP , were named as targets as they were also down-regulated in E....”
- “...0.60 0.37 0.64 0.49 30S ribosomal protein S13 Slr0628 0.38 0.35 30S ribosomal protein S14 Ssr0482 0.52 0.48 0.66 30S ribosomal protein S16 Ssl3437 0.49 0.63 30S ribosomal protein S17 Ssr1399 0.52 30S ribosomal protein S18 Sll1804 0.61 0.54 30S ribosomal protein S3 Slr0469 0.47 0.41...”
- Gene expression patterns of sulfur starvation in Synechocystis sp. PCC 6803
Zhang, BMC genomics 2008 - “...(sll1816( rps13 ), slr1984( rps1 ), sml0006( rpl36 ), ssl3437( rps17 ), ssl3445( rpl31 ), ssr0482( rps16 )) 20 slr2075( groES ), Ribosomal proteins (sll1824, slr0628( rps14 ), ssl2233( rps20 )) The differentially expressed genes in Synechocystis sulfate deprivation time course were identified and clustered according...”
8a22Bp 8a22Bp (see paper)
33% identity, 63% coverage
RR16_ORYSJ / P12151 Small ribosomal subunit protein bS16c; 30S ribosomal protein S16, chloroplastic from Oryza sativa subsp. japonica (Rice) (see paper)
37% identity, 91% coverage
P06374 Small ribosomal subunit protein bS16c from Nicotiana tabacum
34% identity, 91% coverage
P10359 Small ribosomal subunit protein bS16c from Sinapis alba
40% identity, 74% coverage
B3DFB2 Small ribosomal subunit protein bS16 from Microcystis aeruginosa (strain NIES-843 / IAM M-2473)
35% identity, 96% coverage
A0A317 Small ribosomal subunit protein bS16c from Coffea arabica
32% identity, 88% coverage
RR16_ANTAG / Q85CF2 Small ribosomal subunit protein bS16c; 30S ribosomal protein S16, chloroplastic from Anthoceros angustus (Hornwort) (Anthoceros formosae) (see 2 papers)
32% identity, 92% coverage
Rv2909c 30S ribosomal protein S16 from Mycobacterium tuberculosis H37Rv
A1KMQ3 Small ribosomal subunit protein bS16 from Mycobacterium bovis (strain BCG / Pasteur 1173P2)
MT2977 30S ribosomal protein S16 from Mycobacterium tuberculosis CDC1551
36% identity, 46% coverage
- Evaluation of the cross-immunity between Mycobacterium tuberculosis and Mycobacterium abscessus in vitro
Xu, BMC microbiology 2025 - “...(Fig. 2 ). The first cluster consisted of 10 proteins (Rv3417c, Rv2462, Rv0685, Rv0732, Rv1309, Rv2909c, Rv3457c, Rv0041, Rv0684, and Rv2534c) and belonged to the cell composition cluster (GO:0044464). The second cluster contained 4 proteins (Rv0952, Rv2215, Rv2195, and Rv0951) and belonged to the growth gene...”
- A chemical proteomics approach to profiling the ATP-binding proteome of Mycobacterium tuberculosis
Wolfe, Molecular & cellular proteomics : MCP 2013 - “...hydratase, Acn Rv1475c 102 kDa (0.1200) 5.00 4.00 0.80 30 S ribosomal protein S16, RpsP Rv2909c 17 kDa (0.3800) 1.67 1.33 0.80 Hypothetical protein, Cfp17 Rv1827 17 kDa (0.2000) 3.33 2.67 0.80 Fructose-bisphosphate aldolase, Fba Rv0363c 37 kDa (0.2000) 3.00 2.33 0.78 Short-chain type dehydrogenase/reductase Rv0148...”
- Protein dynamics in iron-starved Mycobacterium tuberculosis revealed by turnover and abundance measurement using hybrid-linear ion trap-Fourier transform mass spectrometry
Rao, Analytical chemistry 2008 - “...PROTEIN Rv2159c - CONSERVED HYPOTHETICAL 0.00084 1.01 0.971 6.26 0.048 3 10,5 no 40 PROTEIN Rv2909c rpsP PROBABLE 30S RIBOSOMAL 0.00195 0.83 0.150 2.17 <0.001 3 2 no 40 PROTEIN S16 RPSP Rv1133c metE METHIONINE SYNTHASE, 0.01917 1.26 0.006 2.30 0.001 3 7 no 40 VITAMIN-B12...”
- Phosphoproteomic Approaches to Discover Novel Substrates of Mycobacterial Ser/Thr Protein Kinases
Baros, Molecular & cellular proteomics : MCP 2020 (secret) - Identification of Novel Physiological Substrates of Mycobacterium bovis BCG Protein Kinase G (PknG) by Label-free Quantitative Phosphoproteomics
Nakedi, Molecular & cellular proteomics : MCP 2018 - “...S387 0.97 Cytoplasmic 1795.16 Uncharacterized protein A0A0H3MC79 S277 0.78 Cytoplasmic 1767.57 30S ribosomal protein S16 A1KMQ3 S162 0.99 Cytoplasmic 1735.73 proline and threonine-rich protein A0A0H3MAA7 S403 0.98 Integral membrane 1674.22 Uncharacterized protein A0A0H3M751 T371 0.99 Cytoplasmic 1577.51 DNA gyrase subunit A A0A0G2Q9F8 S263 1 Cytoplasmic 1425.1...”
- Conserved codon composition of ribosomal protein coding genes in Escherichia coli, Mycobacterium tuberculosis and Saccharomyces cerevisiae: lessons from supervised machine learning in functional genomics
Lin, Nucleic acids research 2002 - “...MT0727, MT3566, MT0710, MT3567, MT2117, MT0742.1, MT2855, MT2977, MT0737, MT2116, MT0061, MT0732, MT2958, MT2485, MT0734, MT3565, MT0746, MT0059, MT0711,...”
7mscp / P9WH53 70SIC in complex with MtbEttA at Pre_R0 state (see paper)
36% identity, 66% coverage
asr1953 30S ribosomal protein S16 from Nostoc sp. PCC 7120
32% identity, 90% coverage
DeanCp004 ribosomal protein S16 from Deschampsia antarctica
37% identity, 98% coverage
MKAN_RS23125 30S ribosomal protein S16 from Mycobacterium kansasii ATCC 12478
35% identity, 45% coverage
Q09X35 Small ribosomal subunit protein bS16c from Morus indica
34% identity, 87% coverage
RR16_ARATH / P56806 Small ribosomal subunit protein bS16cz; 30S ribosomal protein S16, chloroplastic from Arabidopsis thaliana (Mouse-ear cress) (see paper)
38% identity, 79% coverage
6z1pBp / I7M3F6 6z1pBp (see paper)
29% identity, 18% coverage
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 793,807 different protein sequences to 1,259,118 scientific articles. Searches against EuropePMC were last performed on March 13 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