Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbA   Type   Machinery gene
Locus tag   U4D54_RS00175 Genome accession   NZ_CP143639
Coordinates   32887..33321 (+) Length   144 a.a.
NCBI ID   WP_046309354.1    Uniprot ID   -
Organism   Staphylococcus haemolyticus strain M81.1     
Function   ssDNA binding (predicted from homology)   
DNA processing

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 27774..69196 32887..33321 within 0


Gene organization within MGE regions


Location: 27774..69196
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U4D54_RS00125 (U4D54_00125) - 27774..28898 (-) 1125 WP_103416058.1 tyrosine-type recombinase/integrase -
  U4D54_RS00130 (U4D54_00130) - 28965..29654 (-) 690 WP_053019220.1 VanZ family protein -
  U4D54_RS00135 (U4D54_00135) - 29682..30032 (-) 351 WP_053019221.1 hypothetical protein -
  U4D54_RS00140 (U4D54_00140) - 30190..30531 (-) 342 WP_046309365.1 helix-turn-helix domain-containing protein -
  U4D54_RS00145 (U4D54_00145) - 30694..30885 (+) 192 WP_046309364.1 helix-turn-helix transcriptional regulator -
  U4D54_RS00150 (U4D54_00150) - 30944..31222 (+) 279 WP_046309362.1 hypothetical protein -
  U4D54_RS00155 (U4D54_00155) - 31235..31414 (+) 180 WP_046309361.1 hypothetical protein -
  U4D54_RS00160 (U4D54_00160) - 31483..31746 (+) 264 WP_046309360.1 hypothetical protein -
  U4D54_RS00165 (U4D54_00165) - 31730..32215 (+) 486 WP_046309358.1 siphovirus Gp157 family protein -
  U4D54_RS00170 (U4D54_00170) - 32216..32890 (+) 675 WP_046309356.1 ERF family protein -
  U4D54_RS00175 (U4D54_00175) ssbA 32887..33321 (+) 435 WP_046309354.1 single-stranded DNA-binding protein Machinery gene
  U4D54_RS00180 (U4D54_00180) - 33334..33882 (+) 549 WP_046309352.1 NUMOD4 domain-containing protein -
  U4D54_RS00185 (U4D54_00185) - 33883..34563 (+) 681 WP_046309350.1 putative HNHc nuclease -
  U4D54_RS00190 (U4D54_00190) - 34553..35341 (-) 789 WP_046309348.1 hypothetical protein -
  U4D54_RS00195 (U4D54_00195) - 35405..36157 (+) 753 WP_046309346.1 hypothetical protein -
  U4D54_RS00200 (U4D54_00200) - 36170..36976 (+) 807 WP_046309343.1 ATP-binding protein -
  U4D54_RS00205 (U4D54_00205) - 36976..37137 (+) 162 WP_162491961.1 hypothetical protein -
  U4D54_RS00210 (U4D54_00210) - 37127..37369 (+) 243 WP_046309912.1 hypothetical protein -
  U4D54_RS00215 (U4D54_00215) - 37382..37786 (+) 405 WP_046309339.1 RusA family crossover junction endodeoxyribonuclease -
  U4D54_RS00220 (U4D54_00220) - 37787..37972 (+) 186 WP_046309337.1 hypothetical protein -
  U4D54_RS00225 (U4D54_00225) - 37956..38180 (+) 225 WP_046309335.1 hypothetical protein -
  U4D54_RS00230 (U4D54_00230) - 38186..38632 (+) 447 WP_227489828.1 DUF3310 domain-containing protein -
  U4D54_RS00235 (U4D54_00235) - 38635..39318 (+) 684 WP_046309333.1 hypothetical protein -
  U4D54_RS00240 (U4D54_00240) - 39315..39761 (+) 447 WP_046309330.1 hypothetical protein -
  U4D54_RS00245 (U4D54_00245) - 39762..40073 (+) 312 WP_046309329.1 MazG-like family protein -
  U4D54_RS00250 (U4D54_00250) - 40080..40565 (-) 486 WP_049434411.1 hypothetical protein -
  U4D54_RS00255 (U4D54_00255) - 40649..41113 (+) 465 WP_046309327.1 DUF1381 domain-containing protein -
  U4D54_RS00260 (U4D54_00260) - 41160..41813 (+) 654 WP_046309324.1 hypothetical protein -
  U4D54_RS00265 (U4D54_00265) - 41834..42268 (+) 435 WP_046309322.1 transcriptional regulator -
  U4D54_RS00270 (U4D54_00270) - 42420..42734 (+) 315 WP_046309318.1 HNH endonuclease -
  U4D54_RS00275 (U4D54_00275) - 42874..43182 (+) 309 WP_002493706.1 P27 family phage terminase small subunit -
  U4D54_RS00280 (U4D54_00280) - 43172..44863 (+) 1692 WP_046309315.1 terminase large subunit -
  U4D54_RS00285 (U4D54_00285) - 44868..46133 (+) 1266 WP_103416055.1 phage portal protein -
  U4D54_RS00290 (U4D54_00290) - 46090..46809 (+) 720 WP_046309313.1 head maturation protease, ClpP-related -
  U4D54_RS00295 (U4D54_00295) - 46822..47976 (+) 1155 WP_046309311.1 phage major capsid protein -
  U4D54_RS00300 (U4D54_00300) - 48047..48325 (+) 279 WP_033080018.1 head-tail connector protein -
  U4D54_RS00305 (U4D54_00305) - 48335..48667 (+) 333 WP_046309308.1 head-tail adaptor protein -
  U4D54_RS00310 (U4D54_00310) - 48664..49071 (+) 408 WP_046309306.1 hypothetical protein -
  U4D54_RS00315 (U4D54_00315) - 49068..49463 (+) 396 WP_033080021.1 hypothetical protein -
  U4D54_RS00320 (U4D54_00320) - 49503..50117 (+) 615 Protein_63 major tail protein -
  U4D54_RS00325 (U4D54_00325) - 50274..50504 (+) 231 WP_002493697.1 hypothetical protein -
  U4D54_RS00330 (U4D54_00330) gpG 50548..50889 (+) 342 WP_002493696.1 phage tail assembly chaperone G -
  U4D54_RS00335 (U4D54_00335) - 50940..51113 (+) 174 WP_002493695.1 hypothetical protein -
  U4D54_RS00340 (U4D54_00340) - 51131..57079 (+) 5949 WP_240555916.1 phage tail tape measure protein -
  U4D54_RS00345 (U4D54_00345) - 57079..57906 (+) 828 WP_033080026.1 phage tail domain-containing protein -
  U4D54_RS00350 (U4D54_00350) - 57917..59077 (+) 1161 WP_033080027.1 prophage endopeptidase tail family protein -
  U4D54_RS00355 (U4D54_00355) - 59074..59292 (+) 219 WP_033080028.1 hypothetical protein -
  U4D54_RS00360 (U4D54_00360) - 59273..59854 (+) 582 WP_033080029.1 hypothetical protein -
  U4D54_RS00365 (U4D54_00365) - 59865..60893 (+) 1029 WP_033080030.1 SGNH/GDSL hydrolase family protein -
  U4D54_RS00370 (U4D54_00370) - 60911..62188 (+) 1278 WP_033080031.1 phage baseplate upper protein -
  U4D54_RS00375 (U4D54_00375) - 62241..62633 (+) 393 WP_224743100.1 holin family protein -
  U4D54_RS00380 (U4D54_00380) - 62680..63597 (+) 918 WP_033080032.1 N-acetylmuramoyl-L-alanine amidase family protein -
  U4D54_RS00385 (U4D54_00385) - 63779..64552 (+) 774 WP_033080033.1 HipA family kinase -
  U4D54_RS00390 (U4D54_00390) - 64559..65290 (+) 732 WP_033080034.1 hypothetical protein -
  U4D54_RS00395 (U4D54_00395) - 65674..65886 (+) 213 WP_002457563.1 helix-turn-helix domain-containing protein -
  U4D54_RS00400 (U4D54_00400) - 66417..67708 (+) 1292 Protein_79 minor capsid protein -
  U4D54_RS00405 (U4D54_00405) - 67705..67899 (+) 195 WP_011275887.1 hypothetical protein -
  U4D54_RS12785 - 67976..68069 (+) 94 Protein_81 hypothetical protein -
  U4D54_RS00410 (U4D54_00410) - 68060..68278 (+) 219 WP_033080035.1 hypothetical protein -
  U4D54_RS00415 (U4D54_00415) - 68280..68570 (+) 291 WP_224743105.1 DUF4355 domain-containing protein -
  U4D54_RS00420 (U4D54_00420) - 68954..69196 (+) 243 WP_041615161.1 hypothetical protein -

Sequence

Protein


Download         Length: 144 a.a.        Molecular weight: 15977.63 Da        Isoelectric Point: 8.4448

>NTDB_id=930158 U4D54_RS00175 WP_046309354.1 32887..33321(+) (ssbA) [Staphylococcus haemolyticus strain M81.1]
MINKVVLVGRLTKNPEYRTTPNGISVSTFTLAVNRTFNNSNGEREADFINVVTFKKQADNVNNYLSKGSLVGVEGRIQTR
NYENNEGQRIYVTEVVAERVHFLDSKGNSQQNNSSQQQRQVPAGNAPFANANGPIEISSDDLPF

Nucleotide


Download         Length: 435 bp        

>NTDB_id=930158 U4D54_RS00175 WP_046309354.1 32887..33321(+) (ssbA) [Staphylococcus haemolyticus strain M81.1]
ATGATAAATAAAGTAGTTTTAGTAGGAAGATTGACTAAAAATCCTGAATATAGAACAACGCCTAATGGGATTAGCGTCTC
GACTTTTACTTTAGCAGTAAATAGGACATTTAATAATTCAAATGGAGAACGTGAAGCGGATTTTATCAATGTAGTTACAT
TCAAAAAGCAAGCAGACAACGTGAATAATTATTTAAGTAAAGGTTCACTTGTTGGAGTAGAAGGACGTATTCAGACACGT
AATTATGAAAATAATGAAGGACAAAGAATATATGTCACTGAAGTTGTAGCTGAAAGAGTTCATTTTTTAGATAGTAAAGG
TAATAGTCAACAAAATAACTCATCTCAACAACAAAGACAAGTACCAGCAGGGAATGCTCCATTTGCTAATGCTAATGGTC
CGATAGAGATTAGTTCGGATGATTTACCGTTTTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-103)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  ssbA Bacillus subtilis subsp. subtilis str. 168

54.802

100

0.674
  ssb Latilactobacillus sakei subsp. sakei 23K

50.588

100

0.597
  ssbB Bacillus subtilis subsp. subtilis str. 168

57.547

73.611

0.424
  ssb Neisseria meningitidis MC58

34.104

100

0.41
  ssb Neisseria gonorrhoeae MS11

34.104

100

0.41
  ssb Glaesserella parasuis strain SC1401

32.768

100

0.403
  ssbB/cilA Streptococcus pneumoniae TIGR4

45.763

81.944

0.375
  ssbB/cilA Streptococcus mitis NCTC 12261

45.763

81.944

0.375
  ssbB Streptococcus sobrinus strain NIDR 6715-7

50.467

74.306

0.375
  ssbB/cilA Streptococcus pneumoniae Rx1

44.915

81.944

0.368
  ssbB/cilA Streptococcus mitis SK321

44.915

81.944

0.368
  ssbB/cilA Streptococcus pneumoniae D39

44.915

81.944

0.368
  ssbB/cilA Streptococcus pneumoniae R6

44.915

81.944

0.368