Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   I6H64_RS05650 Genome accession   NZ_CP066046
Coordinates   1140047..1140472 (-) Length   141 a.a.
NCBI ID   WP_008842074.1    Uniprot ID   -
Organism   Pediococcus acidilactici strain FDAARGOS_1007     
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 1094045..1148302 1140047..1140472 within 0


Gene organization within MGE regions


Location: 1094045..1148302
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  I6H64_RS10120 - 1094045..1094254 (-) 210 WP_205600602.1 hypothetical protein -
  I6H64_RS10125 - 1094398..1101396 (+) 6999 WP_232623491.1 hypothetical protein -
  I6H64_RS10265 - 1102365..1102451 (-) 87 Protein_1046 KxYKxGKxW signal peptide domain-containing protein -
  I6H64_RS05400 (I6H64_05400) - 1102611..1102946 (-) 336 WP_005919288.1 hypothetical protein -
  I6H64_RS05405 (I6H64_05405) - 1103724..1104641 (-) 918 WP_008842374.1 dihydrodipicolinate synthase family protein -
  I6H64_RS05410 (I6H64_05410) - 1104656..1106164 (-) 1509 WP_005919281.1 sodium:solute symporter -
  I6H64_RS05415 (I6H64_05415) - 1106417..1107148 (-) 732 WP_008842377.1 sugar phosphate isomerase/epimerase family protein -
  I6H64_RS05420 (I6H64_05420) - 1107129..1107977 (-) 849 WP_056985220.1 ROK family protein -
  I6H64_RS05425 (I6H64_05425) - 1108743..1109330 (-) 588 WP_008842030.1 GNAT family N-acetyltransferase -
  I6H64_RS05430 (I6H64_05430) - 1109330..1109494 (-) 165 WP_158002714.1 hypothetical protein -
  I6H64_RS05435 (I6H64_05435) - 1109787..1110905 (-) 1119 WP_008842031.1 peptidoglycan recognition family protein -
  I6H64_RS05440 (I6H64_05440) - 1110889..1111131 (-) 243 WP_008842032.1 phage holin -
  I6H64_RS05445 (I6H64_05445) - 1111131..1111421 (-) 291 WP_036685647.1 hypothetical protein -
  I6H64_RS05450 (I6H64_05450) - 1111479..1112969 (-) 1491 WP_008842034.1 hypothetical protein -
  I6H64_RS05455 (I6H64_05455) - 1112981..1113802 (-) 822 WP_008842035.1 collagen-like protein -
  I6H64_RS05460 (I6H64_05460) - 1113814..1114851 (-) 1038 WP_008842036.1 BppU family phage baseplate upper protein -
  I6H64_RS05465 (I6H64_05465) - 1114841..1115398 (-) 558 WP_008842037.1 hypothetical protein -
  I6H64_RS05470 (I6H64_05470) - 1115398..1118313 (-) 2916 WP_056985218.1 phage tail protein -
  I6H64_RS05475 (I6H64_05475) - 1118313..1119074 (-) 762 WP_008842040.1 hypothetical protein -
  I6H64_RS05480 (I6H64_05480) - 1119074..1122094 (-) 3021 WP_008842041.1 phage tail tape measure protein -
  I6H64_RS05485 (I6H64_05485) - 1122078..1122395 (-) 318 WP_008842042.1 hypothetical protein -
  I6H64_RS05490 (I6H64_05490) - 1122494..1122829 (-) 336 WP_008842043.1 tail assembly chaperone -
  I6H64_RS05495 (I6H64_05495) - 1122895..1123173 (-) 279 WP_008842044.1 hypothetical protein -
  I6H64_RS05500 (I6H64_05500) - 1123251..1123853 (-) 603 WP_008842045.1 phage major tail protein, TP901-1 family -
  I6H64_RS05505 (I6H64_05505) - 1123871..1124272 (-) 402 WP_008842046.1 hypothetical protein -
  I6H64_RS05510 (I6H64_05510) - 1124273..1124614 (-) 342 WP_008842047.1 HK97-gp10 family putative phage morphogenesis protein -
  I6H64_RS05515 (I6H64_05515) - 1124607..1124912 (-) 306 WP_036685659.1 hypothetical protein -
  I6H64_RS05520 (I6H64_05520) - 1124917..1125291 (-) 375 WP_008842048.1 phage head-tail connector protein -
  I6H64_RS05525 (I6H64_05525) - 1125303..1125548 (-) 246 WP_008842049.1 Ig-like domain-containing protein -
  I6H64_RS05530 (I6H64_05530) - 1125587..1126405 (-) 819 WP_056985216.1 N4-gp56 family major capsid protein -
  I6H64_RS05535 (I6H64_05535) - 1126405..1127121 (-) 717 WP_008842052.1 capsid assembly scaffolding protein Gp46 family protein -
  I6H64_RS05540 (I6H64_05540) - 1127229..1127438 (-) 210 WP_036685661.1 hypothetical protein -
  I6H64_RS05545 (I6H64_05545) - 1127450..1128421 (-) 972 WP_036685662.1 minor capsid protein -
  I6H64_RS05550 (I6H64_05550) - 1128390..1129685 (-) 1296 WP_144235491.1 phage portal protein -
  I6H64_RS05555 (I6H64_05555) - 1129806..1131074 (-) 1269 WP_036685666.1 PBSX family phage terminase large subunit -
  I6H64_RS05560 (I6H64_05560) - 1131064..1131588 (-) 525 WP_008842056.1 terminase small subunit -
  I6H64_RS05565 (I6H64_05565) - 1132095..1132538 (-) 444 WP_008842057.1 hypothetical protein -
  I6H64_RS05570 (I6H64_05570) - 1132644..1132880 (-) 237 WP_036685668.1 hypothetical protein -
  I6H64_RS05575 (I6H64_05575) - 1132855..1133073 (-) 219 WP_036685670.1 hypothetical protein -
  I6H64_RS05580 (I6H64_05580) - 1133098..1133274 (-) 177 WP_008842059.1 hypothetical protein -
  I6H64_RS05585 (I6H64_05585) - 1133279..1133524 (-) 246 WP_008842060.1 hypothetical protein -
  I6H64_RS05590 (I6H64_05590) - 1133524..1133832 (-) 309 WP_036685671.1 hypothetical protein -
  I6H64_RS05595 (I6H64_05595) - 1133852..1134280 (-) 429 WP_008842062.1 DUF1642 domain-containing protein -
  I6H64_RS05600 (I6H64_05600) - 1134280..1134870 (-) 591 WP_008842063.1 DUF1642 domain-containing protein -
  I6H64_RS05605 (I6H64_05605) - 1135040..1135411 (-) 372 WP_036685673.1 hypothetical protein -
  I6H64_RS05610 (I6H64_05610) - 1135398..1135547 (-) 150 WP_008842066.1 hypothetical protein -
  I6H64_RS05615 (I6H64_05615) - 1135578..1136198 (-) 621 WP_008842067.1 hypothetical protein -
  I6H64_RS05620 (I6H64_05620) - 1136198..1136425 (-) 228 WP_008842068.1 hypothetical protein -
  I6H64_RS05625 (I6H64_05625) - 1136425..1136856 (-) 432 WP_036685676.1 RusA family crossover junction endodeoxyribonuclease -
  I6H64_RS05630 (I6H64_05630) - 1136853..1137260 (-) 408 WP_232623524.1 hypothetical protein -
  I6H64_RS05635 (I6H64_05635) - 1137269..1138501 (-) 1233 WP_008842071.1 replicative DNA helicase -
  I6H64_RS05640 (I6H64_05640) - 1138491..1139357 (-) 867 WP_008842072.1 conserved phage C-terminal domain-containing protein -
  I6H64_RS05645 (I6H64_05645) - 1139335..1140036 (-) 702 WP_008842073.1 putative HNHc nuclease -
  I6H64_RS05650 (I6H64_05650) ssb 1140047..1140472 (-) 426 WP_008842074.1 single-stranded DNA-binding protein Machinery gene
  I6H64_RS05655 (I6H64_05655) - 1140465..1141163 (-) 699 WP_008842075.1 ERF family protein -
  I6H64_RS05660 (I6H64_05660) - 1141164..1141619 (-) 456 WP_036685680.1 hypothetical protein -
  I6H64_RS05665 (I6H64_05665) - 1141782..1142003 (-) 222 WP_036685683.1 hypothetical protein -
  I6H64_RS05670 (I6H64_05670) - 1142101..1142307 (-) 207 WP_008842077.1 hypothetical protein -
  I6H64_RS05675 (I6H64_05675) - 1142376..1143101 (-) 726 WP_008842078.1 Rha family transcriptional regulator -
  I6H64_RS05680 (I6H64_05680) - 1143214..1143402 (-) 189 WP_008842079.1 helix-turn-helix domain-containing protein -
  I6H64_RS05685 (I6H64_05685) - 1143692..1144024 (+) 333 WP_008842080.1 helix-turn-helix domain-containing protein -
  I6H64_RS05690 (I6H64_05690) - 1144039..1144323 (+) 285 WP_008842081.1 hypothetical protein -
  I6H64_RS05695 (I6H64_05695) - 1144383..1145045 (+) 663 WP_008842082.1 hypothetical protein -
  I6H64_RS10135 - 1145112..1145999 (+) 888 WP_066027433.1 DUF5067 domain-containing protein -
  I6H64_RS05705 (I6H64_05705) - 1146138..1147217 (+) 1080 WP_008842084.1 tyrosine-type recombinase/integrase -
  I6H64_RS05715 (I6H64_05715) - 1147613..1148302 (+) 690 WP_008842223.1 N-acetylmannosamine-6-phosphate 2-epimerase -

Sequence

Protein


Download         Length: 141 a.a.        Molecular weight: 15598.34 Da        Isoelectric Point: 7.9972

>NTDB_id=516783 I6H64_RS05650 WP_008842074.1 1140047..1140472(-) (ssb) [Pediococcus acidilactici strain FDAARGOS_1007]
MINRTILIGRLTKDVELRHTAKGDAVASFTVAVNRQFTNSQGEREADFINCVMWRKAAENFAKYTQKGSLVGIEGRIQTR
SYENQQGQRVYVTEVVADNFSLLDSKPKGNQQNNARQASTPGDPFANGGQSIDIGDDSLPF

Nucleotide


Download         Length: 426 bp        

>NTDB_id=516783 I6H64_RS05650 WP_008842074.1 1140047..1140472(-) (ssb) [Pediococcus acidilactici strain FDAARGOS_1007]
ATGATTAATCGAACAATACTAATAGGACGTTTAACTAAAGATGTTGAGCTTCGCCACACAGCTAAAGGTGATGCGGTAGC
TAGTTTTACCGTGGCAGTTAACCGACAGTTTACCAACTCACAGGGTGAACGTGAAGCAGATTTCATTAACTGCGTAATGT
GGCGTAAGGCAGCAGAAAACTTCGCTAAGTATACACAAAAAGGTTCGTTGGTAGGTATTGAAGGGCGGATTCAGACCCGT
TCATACGAAAACCAACAAGGACAACGAGTTTATGTAACTGAGGTTGTAGCGGATAACTTCTCGTTGTTAGATTCGAAGCC
AAAAGGCAACCAGCAAAATAACGCACGGCAAGCATCAACGCCAGGAGATCCATTCGCTAATGGCGGGCAGTCAATTGATA
TTGGTGACGATAGTTTGCCTTTCTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-102)


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

57.647

100

0.695
  ssbA Bacillus subtilis subsp. subtilis str. 168

52.907

100

0.645
  ssbB Bacillus subtilis subsp. subtilis str. 168

62.037

76.596

0.475
  ssbB/cilA Streptococcus mitis NCTC 12261

42.254

100

0.426
  ssbB/cilA Streptococcus pneumoniae TIGR4

42.254

100

0.426
  ssbB/cilA Streptococcus pneumoniae Rx1

41.549

100

0.418
  ssbB/cilA Streptococcus pneumoniae D39

41.549

100

0.418
  ssbB/cilA Streptococcus pneumoniae R6

41.549

100

0.418
  ssbB/cilA Streptococcus mitis SK321

41.549

100

0.418
  ssbB Streptococcus sobrinus strain NIDR 6715-7

41.549

100

0.418
  ssbA Streptococcus mutans UA159

38.028

100

0.383