Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   I6H68_RS04575 Genome accession   NZ_CP065967
Coordinates   902319..902741 (-) Length   140 a.a.
NCBI ID   WP_195748895.1    Uniprot ID   -
Organism   Pediococcus pentosaceus strain FDAARGOS_1011     
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 872244..919042 902319..902741 within 0


Gene organization within MGE regions


Location: 872244..919042
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  I6H68_RS04375 (I6H68_04375) - 872244..873620 (-) 1377 WP_128886915.1 amino acid permease -
  I6H68_RS04380 (I6H68_04380) - 875004..876341 (-) 1338 WP_195748863.1 GH25 family lysozyme -
  I6H68_RS04385 (I6H68_04385) - 876325..876576 (-) 252 WP_195748864.1 phage holin -
  I6H68_RS04390 (I6H68_04390) - 876576..876860 (-) 285 WP_195748916.1 hypothetical protein -
  I6H68_RS04395 (I6H68_04395) - 876912..877058 (-) 147 WP_195748865.1 XkdX family protein -
  I6H68_RS04400 (I6H68_04400) - 877058..877366 (-) 309 WP_195748866.1 DUF2977 domain-containing protein -
  I6H68_RS04405 (I6H68_04405) - 877378..878145 (-) 768 WP_195748867.1 hypothetical protein -
  I6H68_RS04410 (I6H68_04410) - 878135..879961 (-) 1827 WP_195748868.1 phage baseplate upper protein -
  I6H68_RS04415 (I6H68_04415) - 879965..880411 (-) 447 WP_195748869.1 hypothetical protein -
  I6H68_RS04420 (I6H68_04420) - 880395..883400 (-) 3006 WP_195748870.1 peptidoglycan amidohydrolase family protein -
  I6H68_RS04425 (I6H68_04425) - 883400..884164 (-) 765 WP_195748871.1 phage tail protein -
  I6H68_RS04430 (I6H68_04430) - 884164..887514 (-) 3351 WP_195748872.1 phage tail tape measure protein -
  I6H68_RS04435 (I6H68_04435) - 887507..887839 (-) 333 WP_229572677.1 hypothetical protein -
  I6H68_RS04440 (I6H68_04440) - 887941..888279 (-) 339 WP_158190622.1 tail assembly chaperone -
  I6H68_RS04445 (I6H68_04445) - 888359..888637 (-) 279 WP_159276415.1 hypothetical protein -
  I6H68_RS04450 (I6H68_04450) - 888715..889311 (-) 597 WP_195748873.1 phage major tail protein, TP901-1 family -
  I6H68_RS04455 (I6H68_04455) - 889329..889745 (-) 417 WP_195748874.1 hypothetical protein -
  I6H68_RS04460 (I6H68_04460) - 889746..890117 (-) 372 WP_167399586.1 HK97-gp10 family putative phage morphogenesis protein -
  I6H68_RS04465 (I6H68_04465) - 890110..890412 (-) 303 WP_195748875.1 hypothetical protein -
  I6H68_RS04470 (I6H68_04470) - 890417..890788 (-) 372 WP_195748876.1 phage head-tail connector protein -
  I6H68_RS04475 (I6H68_04475) - 890801..891034 (-) 234 WP_232621578.1 Ig-like domain-containing protein -
  I6H68_RS04480 (I6H68_04480) - 891085..891999 (-) 915 WP_195748877.1 phage capsid protein -
  I6H68_RS04485 (I6H68_04485) - 892014..892625 (-) 612 WP_195748878.1 DUF4355 domain-containing protein -
  I6H68_RS04490 (I6H68_04490) - 892735..892950 (-) 216 WP_195748879.1 hypothetical protein -
  I6H68_RS04495 (I6H68_04495) - 892953..893351 (-) 399 WP_195748880.1 hypothetical protein -
  I6H68_RS04500 (I6H68_04500) - 893354..894316 (-) 963 WP_195748881.1 minor capsid protein -
  I6H68_RS04505 (I6H68_04505) - 894300..895697 (-) 1398 WP_195748882.1 phage portal protein -
  I6H68_RS04510 (I6H68_04510) - 895705..896976 (-) 1272 WP_195748883.1 PBSX family phage terminase large subunit -
  I6H68_RS04515 (I6H68_04515) - 896960..897565 (-) 606 WP_195748884.1 terminase small subunit -
  I6H68_RS04520 (I6H68_04520) - 897565..897738 (-) 174 WP_195748885.1 hypothetical protein -
  I6H68_RS04530 (I6H68_04530) - 898295..898738 (-) 444 WP_195748886.1 hypothetical protein -
  I6H68_RS04535 (I6H68_04535) relB 898869..899099 (+) 231 WP_195748887.1 type II toxin-antitoxin system RelB family antitoxin -
  I6H68_RS04540 (I6H68_04540) - 899096..899362 (+) 267 WP_195748888.1 type II toxin-antitoxin system RelE family toxin -
  I6H68_RS09080 - 899522..899644 (-) 123 WP_267873296.1 hypothetical protein -
  I6H68_RS04545 (I6H68_04545) - 899644..899862 (-) 219 WP_195748889.1 hypothetical protein -
  I6H68_RS04550 (I6H68_04550) - 900278..900514 (-) 237 WP_195748890.1 hypothetical protein -
  I6H68_RS04555 (I6H68_04555) - 900507..900815 (-) 309 WP_198454188.1 hypothetical protein -
  I6H68_RS04560 (I6H68_04560) - 900994..901179 (-) 186 WP_195748891.1 DUF6877 family protein -
  I6H68_RS04565 (I6H68_04565) - 901172..901549 (-) 378 WP_198454189.1 hypothetical protein -
  I6H68_RS04570 (I6H68_04570) - 901704..902168 (-) 465 WP_195748894.1 hypothetical protein -
  I6H68_RS04575 (I6H68_04575) ssb 902319..902741 (-) 423 WP_195748895.1 single-stranded DNA-binding protein Machinery gene
  I6H68_RS04580 (I6H68_04580) - 902734..902886 (-) 153 WP_195748896.1 hypothetical protein -
  I6H68_RS04585 (I6H68_04585) - 902904..903164 (-) 261 WP_195748897.1 hypothetical protein -
  I6H68_RS04590 (I6H68_04590) - 903133..903834 (-) 702 WP_195748898.1 putative HNHc nuclease -
  I6H68_RS04595 (I6H68_04595) - 903838..904665 (-) 828 WP_159234101.1 helix-turn-helix domain-containing protein -
  I6H68_RS04600 (I6H68_04600) - 904675..905502 (-) 828 WP_195748899.1 PD-(D/E)XK nuclease-like domain-containing protein -
  I6H68_RS04605 (I6H68_04605) - 905462..906313 (-) 852 WP_138428639.1 recombinase RecT -
  I6H68_RS04610 (I6H68_04610) - 906306..906587 (-) 282 WP_195748900.1 hypothetical protein -
  I6H68_RS09085 - 906680..906811 (-) 132 WP_267873297.1 hypothetical protein -
  I6H68_RS04615 (I6H68_04615) - 906825..907100 (-) 276 WP_195748901.1 helix-turn-helix domain-containing protein -
  I6H68_RS04620 (I6H68_04620) - 907101..907559 (-) 459 WP_229572679.1 helix-turn-helix domain-containing protein -
  I6H68_RS04625 (I6H68_04625) - 907633..907803 (-) 171 WP_195748902.1 hypothetical protein -
  I6H68_RS04630 (I6H68_04630) - 907834..908043 (-) 210 WP_195748903.1 helix-turn-helix domain-containing protein -
  I6H68_RS04635 (I6H68_04635) - 908208..908576 (+) 369 WP_195748904.1 helix-turn-helix domain-containing protein -
  I6H68_RS04640 (I6H68_04640) - 908580..908978 (+) 399 WP_069825264.1 hypothetical protein -
  I6H68_RS04645 (I6H68_04645) - 909034..909471 (+) 438 WP_195748905.1 hypothetical protein -
  I6H68_RS04650 (I6H68_04650) - 909583..910653 (+) 1071 WP_195748906.1 DUF4236 domain-containing protein -
  I6H68_RS04655 (I6H68_04655) - 910742..911044 (+) 303 WP_195748907.1 hypothetical protein -
  I6H68_RS04660 (I6H68_04660) - 911141..912313 (+) 1173 WP_195748908.1 tyrosine-type recombinase/integrase -
  I6H68_RS04665 (I6H68_04665) fabI 912452..913210 (-) 759 WP_060743755.1 enoyl-ACP reductase FabI -
  I6H68_RS04670 (I6H68_04670) accA 913227..913994 (-) 768 WP_002833592.1 carboxyltransferase subunit alpha -
  I6H68_RS04675 (I6H68_04675) - 914008..914838 (-) 831 WP_002833591.1 acetyl-CoA carboxylase carboxyltransferase subunit beta -
  I6H68_RS04680 (I6H68_04680) - 914828..916195 (-) 1368 WP_029257879.1 acetyl/propionyl/methylcrotonyl-CoA carboxylase subunit alpha -
  I6H68_RS04685 (I6H68_04685) - 916213..916626 (-) 414 WP_011673308.1 3-hydroxyacyl-ACP dehydratase FabZ family protein -
  I6H68_RS04690 (I6H68_04690) - 916626..917063 (-) 438 WP_060743756.1 acetyl-CoA carboxylase biotin carboxyl carrier protein -
  I6H68_RS04695 (I6H68_04695) fabF 917069..918295 (-) 1227 WP_060743707.1 beta-ketoacyl-ACP synthase II -
  I6H68_RS04700 (I6H68_04700) fabG 918314..919042 (-) 729 WP_011673305.1 3-oxoacyl-ACP reductase FabG -

Sequence

Protein


Download         Length: 140 a.a.        Molecular weight: 15742.50 Da        Isoelectric Point: 7.7895

>NTDB_id=515822 I6H68_RS04575 WP_195748895.1 902319..902741(-) (ssb) [Pediococcus pentosaceus strain FDAARGOS_1011]
MISRTILVGRLTNDPELKYTGSGVAVATFTVAVNRQFTNSQGEREADFIRCQMWRKAAENFCKFTRKGSLIGIDGRIQTR
SYDNQQGTRVFVTEVVAENFSLLESKNSNQNNQNGQSAPSRNPNDPFNSMPDIKDDDLPF

Nucleotide


Download         Length: 423 bp        

>NTDB_id=515822 I6H68_RS04575 WP_195748895.1 902319..902741(-) (ssb) [Pediococcus pentosaceus strain FDAARGOS_1011]
ATGATTAGTCGAACTATTTTAGTCGGACGTTTAACTAACGATCCAGAACTAAAATACACAGGCAGCGGTGTGGCAGTTGC
AACTTTTACAGTAGCCGTTAATCGGCAATTTACTAATTCGCAAGGCGAACGTGAAGCGGATTTTATTAGATGCCAAATGT
GGCGCAAAGCTGCTGAAAACTTCTGTAAATTCACTCGAAAAGGGTCGCTAATTGGTATTGATGGACGAATTCAAACTCGT
TCATATGATAATCAGCAAGGTACACGAGTTTTTGTTACTGAGGTCGTAGCGGAGAACTTCTCGCTGCTTGAATCTAAAAA
TAGCAATCAAAATAACCAAAATGGTCAATCAGCACCTAGCAGAAATCCTAACGACCCATTTAATAGCATGCCGGATATCA
AGGATGACGATTTACCGTTCTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(3-102)


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

55.294

100

0.671
  ssbA Bacillus subtilis subsp. subtilis str. 168

52.601

100

0.65
  ssbB Bacillus subtilis subsp. subtilis str. 168

53.774

75.714

0.407
  ssbA Streptococcus mutans UA159

37.324

100

0.379
  ssbB/cilA Streptococcus pneumoniae TIGR4

36.62

100

0.371
  ssbB/cilA Streptococcus mitis NCTC 12261

36.62

100

0.371
  ssbB/cilA Streptococcus pneumoniae Rx1

35.915

100

0.364
  ssbB/cilA Streptococcus pneumoniae D39

35.915

100

0.364
  ssbB/cilA Streptococcus pneumoniae R6

35.915

100

0.364
  ssbB/cilA Streptococcus mitis SK321

35.915

100

0.364