Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   VKP55_RS06390 Genome accession   NZ_CP142351
Coordinates   1264514..1264939 (-) Length   141 a.a.
NCBI ID   WP_011285575.1    Uniprot ID   -
Organism   Streptococcus pyogenes strain SS1366     
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 1232079..1274295 1264514..1264939 within 0


Gene organization within MGE regions


Location: 1232079..1274295
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VKP55_RS06165 (VKP55_06165) prx 1232079..1232261 (-) 183 WP_011184907.1 hypothetical protein Regulator
  VKP55_RS06170 (VKP55_06170) sda3 1232499..1233299 (+) 801 WP_326673958.1 streptodornase Sda3 -
  VKP55_RS06175 (VKP55_06175) - 1233571..1234005 (+) 435 WP_011017966.1 hypothetical protein -
  VKP55_RS06180 (VKP55_06180) - 1234055..1234921 (-) 867 WP_011888701.1 DUF334 domain-containing protein -
  VKP55_RS06185 (VKP55_06185) - 1234909..1235433 (-) 525 WP_011017840.1 Panacea domain-containing protein -
  VKP55_RS06190 (VKP55_06190) - 1235573..1236778 (-) 1206 WP_011888700.1 glucosaminidase domain-containing protein -
  VKP55_RS06195 (VKP55_06195) - 1236766..1236888 (-) 123 WP_029713948.1 hypothetical protein -
  VKP55_RS06200 (VKP55_06200) - 1236890..1237345 (-) 456 WP_011184730.1 phage holin family protein -
  VKP55_RS06205 (VKP55_06205) - 1237355..1237987 (-) 633 WP_011888699.1 hypothetical protein -
  VKP55_RS06210 (VKP55_06210) - 1237990..1238421 (-) 432 WP_002983467.1 DUF1617 family protein -
  VKP55_RS06215 (VKP55_06215) - 1238433..1240319 (-) 1887 WP_014635603.1 gp58-like family protein -
  VKP55_RS06220 (VKP55_06220) - 1240332..1241339 (-) 1008 WP_326673965.1 hyaluronoglucosaminidase -
  VKP55_RS06225 (VKP55_06225) - 1241336..1243480 (-) 2145 WP_014635605.1 phage tail spike protein -
  VKP55_RS06230 (VKP55_06230) - 1243477..1244193 (-) 717 WP_011888697.1 distal tail protein Dit -
  VKP55_RS06235 (VKP55_06235) - 1244190..1247450 (-) 3261 WP_029714384.1 tape measure protein -
  VKP55_RS06240 (VKP55_06240) - 1247440..1248021 (-) 582 WP_011888696.1 bacteriophage Gp15 family protein -
  VKP55_RS06245 (VKP55_06245) - 1248025..1248459 (-) 435 WP_011888695.1 hypothetical protein -
  VKP55_RS06250 (VKP55_06250) - 1248503..1248964 (-) 462 WP_011018120.1 phage tail tube protein -
  VKP55_RS06255 (VKP55_06255) - 1248964..1249362 (-) 399 WP_011888694.1 minor capsid protein -
  VKP55_RS06260 (VKP55_06260) - 1249359..1249715 (-) 357 WP_010922083.1 minor capsid protein -
  VKP55_RS06265 (VKP55_06265) - 1249715..1250047 (-) 333 WP_011888693.1 minor capsid protein -
  VKP55_RS06270 (VKP55_06270) - 1250037..1250453 (-) 417 WP_011888692.1 hypothetical protein -
  VKP55_RS06275 (VKP55_06275) - 1250507..1251325 (-) 819 WP_010922080.1 N4-gp56 family major capsid protein -
  VKP55_RS06280 (VKP55_06280) - 1251329..1251943 (-) 615 WP_011888690.1 hypothetical protein -
  VKP55_RS06285 (VKP55_06285) - 1252069..1252335 (-) 267 WP_011888689.1 hypothetical protein -
  VKP55_RS06290 (VKP55_06290) - 1252422..1252649 (-) 228 WP_010922077.1 hypothetical protein -
  VKP55_RS06295 (VKP55_06295) - 1252649..1254142 (-) 1494 WP_014635607.1 phage minor capsid protein -
  VKP55_RS06300 (VKP55_06300) - 1254147..1255649 (-) 1503 WP_010922075.1 phage portal protein -
  VKP55_RS06305 (VKP55_06305) - 1255663..1256954 (-) 1292 Protein_1203 PBSX family phage terminase large subunit -
  VKP55_RS06310 (VKP55_06310) - 1256957..1257433 (-) 477 WP_010922073.1 hypothetical protein -
  VKP55_RS06315 (VKP55_06315) - 1257776..1258942 (-) 1167 Protein_1205 DNA modification methylase -
  VKP55_RS06320 (VKP55_06320) - 1259578..1260012 (-) 435 WP_023611354.1 ArpU family phage packaging/lysis transcriptional regulator -
  VKP55_RS06325 (VKP55_06325) - 1260327..1260626 (-) 300 WP_032467177.1 hypothetical protein -
  VKP55_RS06330 (VKP55_06330) - 1260650..1261369 (-) 720 WP_111687971.1 DUF1642 domain-containing protein -
  VKP55_RS06335 (VKP55_06335) - 1261366..1261659 (-) 294 WP_011888761.1 hypothetical protein -
  VKP55_RS06340 (VKP55_06340) - 1261656..1261841 (-) 186 WP_011184603.1 hypothetical protein -
  VKP55_RS06345 (VKP55_06345) - 1261866..1262093 (-) 228 WP_023611236.1 hypothetical protein -
  VKP55_RS06350 (VKP55_06350) - 1262097..1262582 (-) 486 WP_023611207.1 class I SAM-dependent methyltransferase -
  VKP55_RS06355 (VKP55_06355) - 1262586..1262870 (-) 285 WP_326673982.1 hypothetical protein -
  VKP55_RS06360 (VKP55_06360) - 1262867..1263037 (-) 171 WP_002995952.1 hypothetical protein -
  VKP55_RS06365 (VKP55_06365) - 1263034..1263270 (-) 237 WP_002995955.1 DUF3310 domain-containing protein -
  VKP55_RS06370 (VKP55_06370) - 1263270..1263515 (-) 246 WP_011285573.1 hypothetical protein -
  VKP55_RS06375 (VKP55_06375) - 1263512..1263868 (-) 357 WP_041174291.1 hypothetical protein -
  VKP55_RS06380 (VKP55_06380) - 1263865..1264305 (-) 441 WP_011285574.1 RusA family crossover junction endodeoxyribonuclease -
  VKP55_RS06385 (VKP55_06385) - 1264305..1264508 (-) 204 WP_011106686.1 hypothetical protein -
  VKP55_RS06390 (VKP55_06390) ssb 1264514..1264939 (-) 426 WP_011285575.1 single-stranded DNA-binding protein Machinery gene
  VKP55_RS06395 (VKP55_06395) - 1264932..1265606 (-) 675 WP_014635611.1 ERF family protein -
  VKP55_RS06400 (VKP55_06400) - 1265607..1266089 (-) 483 WP_011018142.1 siphovirus Gp157 family protein -
  VKP55_RS06405 (VKP55_06405) - 1266111..1266365 (-) 255 WP_011018143.1 hypothetical protein -
  VKP55_RS06410 (VKP55_06410) - 1266346..1266699 (-) 354 WP_011285579.1 hypothetical protein -
  VKP55_RS06415 (VKP55_06415) - 1266840..1267622 (-) 783 WP_011888684.1 ATP-binding protein -
  VKP55_RS06420 (VKP55_06420) - 1267609..1268370 (-) 762 WP_014635613.1 DnaD domain protein -
  VKP55_RS06425 (VKP55_06425) - 1268464..1268601 (-) 138 WP_011017881.1 hypothetical protein -
  VKP55_RS06430 (VKP55_06430) - 1268632..1268883 (-) 252 WP_011888682.1 helix-turn-helix transcriptional regulator -
  VKP55_RS06435 (VKP55_06435) - 1268954..1269139 (-) 186 WP_011054585.1 helix-turn-helix domain-containing protein -
  VKP55_RS06440 (VKP55_06440) - 1269306..1269545 (+) 240 WP_011284879.1 hypothetical protein -
  VKP55_RS06445 (VKP55_06445) - 1269643..1270362 (-) 720 WP_011888681.1 phage antirepressor KilAC domain-containing protein -
  VKP55_RS06450 (VKP55_06450) - 1270390..1270602 (-) 213 WP_014635614.1 DNA-binding protein -
  VKP55_RS06455 (VKP55_06455) - 1270800..1271141 (+) 342 WP_011888679.1 helix-turn-helix domain-containing protein -
  VKP55_RS06460 (VKP55_06460) - 1271125..1271511 (+) 387 WP_023605207.1 ImmA/IrrE family metallo-endopeptidase -
  VKP55_RS06465 (VKP55_06465) - 1271526..1272947 (+) 1422 WP_014635616.1 DUF4041 domain-containing protein -
  VKP55_RS06470 (VKP55_06470) - 1273129..1274295 (+) 1167 WP_011018152.1 tyrosine-type recombinase/integrase -

Sequence

Protein


Download         Length: 141 a.a.        Molecular weight: 15995.63 Da        Isoelectric Point: 4.5748

>NTDB_id=925060 VKP55_RS06390 WP_011285575.1 1264514..1264939(-) (ssb) [Streptococcus pyogenes strain SS1366]
MINNIVLVGRMTKDAELRYTASQVAVATFTLAVNRRFKEQNGEREADFINCVIWRQSAENLANWAKKGALIGVTGRIQTR
NYENQQEQRVYVTEVVAESFQMLESRNSQQQSGQDNSSQNDNSQPFGNSNPMDISDDDLPF

Nucleotide


Download         Length: 426 bp        

>NTDB_id=925060 VKP55_RS06390 WP_011285575.1 1264514..1264939(-) (ssb) [Streptococcus pyogenes strain SS1366]
ATGATTAACAACATTGTGCTAGTTGGTCGCATGACCAAGGACGCAGAGCTTCGCTATACAGCGAGTCAAGTAGCTGTAGC
TACGTTCACACTTGCGGTAAACCGCAGATTTAAAGAGCAAAACGGGGAGAGAGAAGCAGATTTCATTAACTGTGTTATCT
GGCGACAGTCTGCTGAAAATTTAGCCAACTGGGCTAAAAAAGGTGCTTTGATCGGAGTTACGGGTCGTATTCAGACACGT
AACTACGAAAACCAACAAGAACAACGTGTCTATGTGACGGAAGTTGTTGCAGAGAGTTTCCAAATGTTGGAAAGTCGAAA
TAGCCAGCAACAATCTGGTCAAGATAACTCTTCGCAAAACGATAACAGTCAACCGTTTGGCAATTCAAACCCAATGGATA
TTTCAGACGATGATCTGCCGTTTTAA

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
  ssb Latilactobacillus sakei subsp. sakei 23K

55.294

100

0.667
  ssbA Bacillus subtilis subsp. subtilis str. 168

54.07

100

0.66
  ssbB/cilA Streptococcus pneumoniae TIGR4

43.972

100

0.44
  ssbB/cilA Streptococcus pneumoniae Rx1

43.262

100

0.433
  ssbB Streptococcus sobrinus strain NIDR 6715-7

43.262

100

0.433
  ssbB/cilA Streptococcus mitis NCTC 12261

43.262

100

0.433
  ssbB/cilA Streptococcus pneumoniae D39

43.262

100

0.433
  ssbB/cilA Streptococcus pneumoniae R6

43.262

100

0.433
  ssbB/cilA Streptococcus mitis SK321

43.262

100

0.433
  ssbB Bacillus subtilis subsp. subtilis str. 168

51.786

79.433

0.411
  ssbA Streptococcus mutans UA159

40.426

100

0.404
  ssb Glaesserella parasuis strain SC1401

29.379

100

0.369
  ssbB Lactococcus lactis subsp. cremoris KW2

49.524

74.468

0.369