Family Search for PF13274 (SocA_Panacea)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
PF13274 hits 17 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
D11S_2261 DUF4065 domain-containing protein from Aggregatibacter phage S1249
Aligns to 29:128 / 146 (68.5%), covers 99.1% of PF13274, 87.3 bits
HSM_0245 type II toxin-antitoxin system antitoxin SocA domain-containing protein from Histophilus somni 2336
HSM_0245 hypothetical protein from Haemophilus somnus 2336
Aligns to 29:127 / 145 (68.3%), covers 99.1% of PF13274, 81.6 bits
BOP93_05630 type II toxin-antitoxin system antitoxin SocA domain-containing protein from Pseudomonas orientalis
Aligns to 29:136 / 162 (66.7%), covers 99.1% of PF13274, 80.7 bits
HD1614 possible prophage ps3 protein01-like protein from Haemophilus ducreyi 35000HP
Aligns to 36:129 / 132 (71.2%), covers 97.4% of PF13274, 79.6 bits
NCTC10931_00949 Panacea domain-containing protein from Neisseria gonorrhoeae
Aligns to 34:151 / 194 (60.8%), covers 95.6% of PF13274, 79.0 bits
NGO1626 hypothetical protein, putative phage associated protein from Neisseria gonorrhoeae FA 1090
Aligns to 55:172 / 215 (54.9%), covers 95.6% of PF13274, 79.0 bits
- Global Network Analysis of Neisseria gonorrhoeae Identifies Coordination between Pathways, Processes, and Regulators Expressed during Human Infection
McClure, mSystems 2020 - “...genes were connected to two other genes, both of which were phage-associated genes (NGO1625 and NGO1626). A second cluster consisted of three genes involved in pilin biogenesis (NGO0096 to NGO0098 [ pilO , pilN , and pilM ]). These genes were connected to a hypothetical protein...”
- “...associated rRNA 0.016 NGO1325 Carbohydrate metabolism Genetic information processing 0.016 NGO1616 Phage associated rRNA 0.022 NGO1626 Phage associated Energy metabolism 0.006 NGO1629 Phage associated Cellular processes/organismal systems/human disease 0.000 NGO1809 Genetic information processing Carbohydrate metabolism 0.001 NGO1823 Genetic information processing Carbohydrate metabolism 0.013 NGO1831 Genetic information...”
- Characterization of the dsDNA prophage sequences in the genome of Neisseria gonorrhoeae and visualization of productive bacteriophage
Piekarowicz, BMC microbiology 2007 - “...[ Azoarcus sp. EbN1] 25,42% on 365 NGO1614 15951991595750 88 NS NGO1625 15960261596241 138 NS NGO1626 15830281584182 215 conserved hypothetical protein CDS21 [Bacteriophage bIL311] (pfam GepA,) 29,48% on 116 NGO1627 15842321584498 133 hypothetical protein HP2p14 protein [ Haemophilus phage (pfam UPFO150 family) HP2] 34,54% on 129...”
SpyM3_1207 conserved hypothetical protein - phage associated from Streptococcus pyogenes MGAS315
Aligns to 26:139 / 174 (65.5%), covers 100.0% of PF13274, 74.3 bits
MAG6440 Putative prophage protein (ps3) from Mycoplasma agalactiae PG2
Aligns to 25:118 / 150 (62.7%), covers 100.0% of PF13274, 71.2 bits
MAGa7400 putative prophage protein (ps3) from Mycoplasma agalactiae
Aligns to 25:118 / 150 (62.7%), covers 100.0% of PF13274, 70.5 bits
NGO1117 hypothetical protein, putative phage associated protein from Neisseria gonorrhoeae FA 1090
Aligns to 28:120 / 179 (52.0%), covers 99.1% of PF13274, 69.4 bits
Cthe_1643 Uncharacterized phage-associated protein-like protein from Clostridium thermocellum ATCC 27405
Aligns to 187:280 / 332 (28.3%), covers 99.1% of PF13274, 69.1 bits
cg0378 putative phage-associated protein from Corynebacterium glutamicum ATCC 13032
Aligns to 29:125 / 148 (65.5%), covers 99.1% of PF13274, 68.8 bits
- Overlapping SigH and SigE sigma factor regulons in Corynebacterium glutamicum
Busche, Frontiers in microbiology 2022 - “...-controlled. Coding sequence a Gene 35 and 10 a Distance from start codon (nt) Function cg0378 GGAACA-N 16 -CGTT 92 Putative phage-associated protein cg0986 b amtR GGAAAC-N 17 -CGTT 397 Transcriptional repressor of nitrogen metabolism, TetR family cg1121 GGAACT-N 16 -CGTT 36 Permease, MFS type cg1272...”
- “...and 10 sequences GGAACN 18-19 GTT. Figure 7 Activity of / E -dependent promoters P cg0378 , P amtR , P cg1121 , P cg1277 , P1 clgR , P cg3309 , and P cg3344 determined by in vivo two-plasmid system (A,C,E,G,I,K,M) and in vitro transcription...”
- Thiol-based redox switches in prokaryotes
Hillion, Biological chemistry 2015 - “...cg2838 , cg2661 ), methionine sulfoxide reductases ( msrA , msrB ), phage-associated functions ( cg0378 ), the tRNA-(5-methylaminomethyl-2-thiouridylate)-methyltransferase ( cg1397 ), the ubiquitin-like proteasomal conjugation pathway ( pup ) and DNA damage repair enzymes ( uvrA, uvrD3 ) ( Busche et al, 2012 ; Ehira...”
- “...sensitive, Zn-site of ZAS sigH-rshA trxB, trxB1, trxC mshC,mca mtr cg2838, cg2661 msrA, msrB pup cg0378 cg1397 sigM, hspR, cglR, sufR, whcA, whcE uvrA, uvrD3 RshA/SigH thioredoxin/thioredoxin reductase mycothiol biosynthesis and recycling MSH reductase dsbA -like thiol-disulfide oxidoreductases methionine sulfoxide reductases ubiquitin-like protein- conjugation phage-associated tRNA-(5-...”
- Protein S-mycothiolation functions as redox-switch and thiol protection mechanism in Corynebacterium glutamicum under hypochlorite stress
Chi, Antioxidants & redox signaling 2014 - “...were the rH-dependent phage-associated gene cg0378 (50-80fold) and the tRNA-(5-methylaminomethyl-2-thiouridylate)methyltransferase gene cg1397 (17-45-fold). The...”
- Transcriptional regulation of the operon encoding stress-responsive ECF sigma factor SigH and its anti-sigma factor RshA, and control of its regulatory network in Corynebacterium glutamicum
Busche, BMC genomics 2012 - “...formate dehydrogenase, FdhD-family 3.71 cg1397* trmU tRNA (5-methylaminomethyl-2-thiouridylate) -methyltransferase 3.71 cg2423 lipA Lipoyl synthetase 3.34 cg0378 Putative phage-associated protein 2.93 cg2411 Conserved hypothetical protein, HesB/YadR/YfhF family 2.81 cg1799* ribC Riboflavin synthase, alpha chain 2.73 cg2247 Hypothetical protein 2.41 cg1282 Conserved hypothetical protein 2.35 cg2127 Hypothetical protein...”
- The alternative sigma factor SigB of Corynebacterium glutamicum modulates global gene expression during transition from exponential growth to stationary phase
Larisch, BMC genomics 2007 - “...bioD dethiobiotin synthetase protein 1.32 0.76* cg1227 ABC-type cobalt transport system 1.58 1.48 FUNCTION UNKNOWN cg0378 putative phage-associated protein 1.14 1.61 SULFONATE (ESTER) METABOLISM AND TRANSPORT cg1147 ssuI reductase involved in sulfonate degradation -1.25 -1.70 cg1152 seuB sulfonate ester monoxygenase -1.35 -1.25 cg1153 seuC sulfonate ester...”
BruAb2_0400 hypothetical protein from Brucella abortus biovar 1 str. 9-941
Aligns to 33:137 / 185 (56.8%), covers 99.1% of PF13274, 63.4 bits
HA1_08347 type II toxin-antitoxin system antitoxin SocA domain-containing protein from Clostridium perfringens F262
Aligns to 27:119 / 141 (66.0%), covers 99.1% of PF13274, 63.1 bits
- Genome sequencing and analysis of a type A Clostridium perfringens isolate from a case of bovine clostridial abomasitis
Nowell, PloS one 2012 - “...F262 included site-specific recombinases (HA1_01897, HA1_06197, HA1_00723, HA1_07162), unique phage-like proteins (HA1_08482, many in Contig_14, HA1_08347, HA1_13167, HA1_13212, HA1_13597), unique sigma factors (HA1_06057, HA1_13097) and unique predicted transcriptional regulators (HA1_06282, HA1_13192, HA1_13197, HA1_07182). The two large plasmid-associated fragments, pF262A and pF262B, contained no and three unique...”
SOCA_CAUVN / A0A0H3CCP8 Antitoxin SocA; Adapter protein SocA from Caulobacter vibrioides (strain NA1000 / CB15N) (Caulobacter crescentus) (see paper)
CC_3515 conserved hypothetical protein from Caulobacter crescentus CB15
CCNA_03630 hypothetical protein from Caulobacter crescentus NA1000
Aligns to 36:140 / 188 (55.9%), covers 99.1% of PF13274, 59.7 bits
- function: Antitoxin component of an atypical type II toxin-antitoxin (TA) system. Unlike most type II TA systems, neutralizes the toxic activity of cognate toxin SocB by acting as an adapter to promote its degradation by ClpXP; degradation is dependent on the N-terminus of ClpX.
subunit: Interacts with cognate toxin SocB and with ClpX.
disruption phenotype: Essential, it cannot be deleted unless the downstream gene for cognate toxin socB is also deleted. In depletion experiments the half-life of SocB is 19 minutes in the absence of SocA and about 2 minutes in its presence. - An integrative method for identifying the over-annotated protein-coding genes in microbial genomes
Yu, DNA research : an international journal for rapid publication of reports on genes and genomes 2011 - “...PH1861, PHs009) and 16 (CC_0370, CC_0605, CC_0853, CC_1246, CC_1274, CC_1712, CC_2413, CC_2699, CC_2731, CC_2732, CC_2737, CC_3515, CC_3516, CC_3517, CC_3520, CC_3548) of the recognized non-coding ORFs listed in Supplementary Table S6 are detected as HGTs by the HGT database, 54 respectively. The predicting procedure employed in the...”
- Genome Comparisons of Wild Isolates of Caulobacter crescentus Reveal Rates of Inversion and Horizontal Gene Transfer
Ely, Current microbiology 2019 - “...CCNA_02841 Hypothetical protein absent absent CCNA_02844 parD3 antitoxin present absent CCNA_03274 Hypothetical protein present absent CCNA_03630 socA antitoxin protein absent absent Table 5. Genes present in the NA1000 or CB2 genomes, but not in both. Gene category NA1000 CB2 Hypothetical 121 198 Transposase 40 9 Toxin/antitoxin...”
- Conservation of the Essential Genome Among Caulobacter and Brevundimonas Species
Scott, Current microbiology 2016 - “...protein none CCNA_02841 hypothetical protein none CCNA_02844 antitoxin protein parD-3 K31 CCNA_03307 hypothetical protein none CCNA_03630 socA antitoxin protein none CCNA_03474 SpoVT-AbrB transcription factor, phd antitoxin CB4, K31 CCNA_00364 deoxyhypusine synthase All but DS20 CCNA_01211 hypothetical protein TK0059, CB4, K31 CCNA_01380 pole-organizing protein popZ TK0059, CB4,...”
D805_0077 type II toxin-antitoxin system antitoxin SocA domain-containing protein from Bifidobacterium thermophilum RBL67
Aligns to 3:99 / 131 (74.0%), covers 99.1% of PF13274, 58.3 bits
Amuc_2017 Uncharacterized phage-associated protein-like protein from Akkermansia muciniphila ATCC BAA-835
Aligns to 37:133 / 161 (60.2%), covers 100.0% of PF13274, 50.6 bits
- The genome of Akkermansia muciniphila, a dedicated intestinal mucin degrader, and its use in exploring intestinal metagenomes
van, PloS one 2011 - “...presence of 9 predicted phage-related sequences (Amuc_0323, Amuc_0551, Amuc_1116, Amuc_1335, Amuc_1348, Amuc_1355, Amuc_1367, Amuc_1711 and Amuc_2017) suggests that A. muciniphila experienced frequent infection by bacteriophages. Recently, the human microbiota were found to be a natural reservoir for antibiotic resistance genes [27] . As a frequent and...”
Or search for genetic data about PF13274 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory