Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB10   Type   Machinery gene
Locus tag   HXS58_RS02255 Genome accession   NZ_AP023036
Coordinates   445787..446989 (+) Length   400 a.a.
NCBI ID   WP_034375657.1    Uniprot ID   -
Organism   Helicobacter suis strain NHP19-0020     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

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)
ICE 442493..510142 445787..446989 within 0


Gene organization within MGE regions


Location: 442493..510142
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HXS58_RS02240 - 442830..442964 (+) 135 WP_000738747.1 hypothetical protein -
  HXS58_RS02245 (NHP190020_04860) - 442957..444126 (+) 1170 WP_006565092.1 VirB8/TrbF family protein -
  HXS58_RS02250 (NHP190020_04870) - 444123..445790 (+) 1668 WP_006565091.1 TrbG/VirB9 family P-type conjugative transfer protein -
  HXS58_RS02255 (NHP190020_04880) comB10 445787..446989 (+) 1203 WP_034375657.1 DNA type IV secretion system protein ComB10 Machinery gene
  HXS58_RS02260 (NHP190020_04890) - 446973..449222 (+) 2250 WP_034375656.1 collagen-like protein -
  HXS58_RS02265 (NHP190020_04900) - 449235..450212 (+) 978 WP_006564524.1 hypothetical protein -
  HXS58_RS02270 (NHP190020_04910) - 450230..450484 (+) 255 WP_176485824.1 hypothetical protein -
  HXS58_RS02275 (NHP190020_04920) - 450489..451433 (+) 945 WP_006564526.1 CpaF/VirB11 family protein -
  HXS58_RS02280 (NHP190020_04930) - 451430..451949 (+) 520 Protein_462 replication regulatory RepB family protein -
  HXS58_RS02285 (NHP190020_04940) - 451946..454210 (+) 2265 WP_034375654.1 type IV secretory system conjugative DNA transfer family protein -
  HXS58_RS02290 (NHP190020_04950) - 454230..454703 (+) 474 Protein_464 hypothetical protein -
  HXS58_RS09275 (NHP190020_04960) - 454867..455187 (+) 321 WP_006564537.1 hypothetical protein -
  HXS58_RS02300 (NHP190020_04970) - 455200..457260 (+) 2061 WP_034375651.1 type IA DNA topoisomerase -
  HXS58_RS02305 (NHP190020_04980) - 457315..457785 (+) 471 WP_000965788.1 hypothetical protein -
  HXS58_RS02310 (NHP190020_04990) - 457755..457910 (+) 156 WP_158650290.1 hypothetical protein -
  HXS58_RS02315 (NHP190020_05000) - 457892..458497 (-) 606 WP_040499212.1 hypothetical protein -
  HXS58_RS02320 (NHP190020_05010) - 458475..458843 (-) 369 WP_021305613.1 hypothetical protein -
  HXS58_RS09280 - 458890..459557 (-) 668 Protein_471 AAA family ATPase -
  HXS58_RS02335 (NHP190020_05040) - 460191..460355 (+) 165 WP_006564534.1 hypothetical protein -
  HXS58_RS02340 (NHP190020_05050) - 460356..461408 (+) 1053 WP_040499211.1 ArdC family protein -
  HXS58_RS02345 - 461408..463264 (+) 1857 Protein_474 hypothetical protein -
  HXS58_RS09285 - 463291..464723 (+) 1433 Protein_475 hypothetical protein -
  HXS58_RS02360 (NHP190020_05110) - 464720..465970 (+) 1251 WP_006564531.1 P-type conjugative transfer protein TrbL -
  HXS58_RS02365 (NHP190020_05120) - 465967..467232 (+) 1266 WP_034375704.1 hypothetical protein -
  HXS58_RS02370 (NHP190020_05130) - 467237..468250 (-) 1014 WP_034375706.1 hypothetical protein -
  HXS58_RS02375 - 468470..468924 (+) 455 Protein_479 CAAX protease -
  HXS58_RS02380 (NHP190020_05160) - 468965..469216 (+) 252 WP_000006537.1 hypothetical protein -
  HXS58_RS02385 (NHP190020_05170) - 469188..469991 (+) 804 WP_034375708.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  HXS58_RS02390 - 470308..471373 (-) 1066 Protein_482 tyrosine-type recombinase/integrase -
  HXS58_RS02400 - 472474..474463 (-) 1990 Protein_483 relaxase/mobilization nuclease domain-containing protein -
  HXS58_RS02405 (NHP190020_05230) - 475421..476077 (-) 657 WP_176486126.1 hypothetical protein -
  HXS58_RS09720 - 476186..476395 (+) 210 WP_370413142.1 hypothetical protein -
  HXS58_RS02410 (NHP190020_05240) - 476304..478100 (-) 1797 WP_104640285.1 hypothetical protein -
  HXS58_RS02415 (NHP190020_05250) - 478090..480342 (-) 2253 WP_232088933.1 restriction endonuclease -
  HXS58_RS02420 (NHP190020_05260) - 480463..480636 (-) 174 WP_155729031.1 hypothetical protein -
  HXS58_RS02425 (NHP190020_05270) - 480633..481103 (-) 471 WP_034376041.1 hypothetical protein -
  HXS58_RS02430 (NHP190020_05280) - 481155..481376 (-) 222 WP_034376043.1 hypothetical protein -
  HXS58_RS02435 (NHP190020_05290) - 481345..482382 (-) 1038 WP_034376045.1 hypothetical protein -
  HXS58_RS02440 (NHP190020_05300) - 482366..482830 (-) 465 WP_158656200.1 C-terminal helicase domain-containing protein -
  HXS58_RS02445 (NHP190020_05310) - 482857..484674 (-) 1818 WP_104685968.1 AAA domain-containing protein -
  HXS58_RS02450 (NHP190020_05320) tnpA 484792..485277 (+) 486 Protein_494 IS200/IS605 family transposase -
  HXS58_RS02455 - 485231..486313 (+) 1083 WP_176486127.1 RNA-guided endonuclease InsQ/TnpB family protein -
  HXS58_RS02460 (NHP190020_05340) - 486353..487315 (-) 963 WP_064430010.1 hypothetical protein -
  HXS58_RS02465 (NHP190020_05350) - 487309..488652 (-) 1344 WP_034375745.1 protein kinase domain-containing protein -
  HXS58_RS02470 (NHP190020_05360) - 488654..489322 (-) 669 WP_050780130.1 protein phosphatase 2C domain-containing protein -
  HXS58_RS02475 (NHP190020_05370) - 489315..489671 (-) 357 WP_034375747.1 hypothetical protein -
  HXS58_RS02480 (NHP190020_05380) - 489725..490435 (-) 711 WP_006563853.1 vWA domain-containing protein -
  HXS58_RS02485 (NHP190020_05390) alr 491116..492258 (-) 1143 WP_176485293.1 alanine racemase -
  HXS58_RS02490 (NHP190020_05400) - 492227..493594 (-) 1368 WP_006563855.1 alanine/glycine:cation symporter family protein -
  HXS58_RS02495 (NHP190020_05410) - 493618..494862 (-) 1245 WP_034375751.1 NAD(P)/FAD-dependent oxidoreductase -
  HXS58_RS02500 (NHP190020_05420) - 494871..495242 (-) 372 WP_034375753.1 RidA family protein -
  HXS58_RS02505 (NHP190020_05430) - 495306..496292 (-) 987 WP_040499047.1 SPOR domain-containing protein -
  HXS58_RS02510 (NHP190020_05440) - 496319..496861 (-) 543 WP_034375756.1 DUF1882 domain-containing protein -
  HXS58_RS02515 (NHP190020_05450) - 496873..498123 (-) 1251 WP_163556534.1 serine hydroxymethyltransferase -
  HXS58_RS02520 (NHP190020_05460) lysS 498116..499609 (-) 1494 WP_034375767.1 lysine--tRNA ligase -
  HXS58_RS02525 (NHP190020_05470) - 499621..500241 (-) 621 WP_006563862.1 CvpA family protein -
  HXS58_RS02530 (NHP190020_05480) - 500338..501609 (+) 1272 WP_006565104.1 apolipoprotein N-acyltransferase -
  HXS58_RS02535 (NHP190020_05490) - 501622..502260 (+) 639 WP_006563864.1 ABC transporter ATP-binding protein -
  HXS58_RS02540 (NHP190020_05500) - 502444..503124 (+) 681 WP_040499048.1 hypothetical protein -
  HXS58_RS02545 (NHP190020_05510) - 503154..504209 (-) 1056 WP_006563865.1 AI-2E family transporter -
  HXS58_RS02550 (NHP190020_05520) dapF 504255..505019 (+) 765 WP_006563866.1 diaminopimelate epimerase -
  HXS58_RS02555 (NHP190020_05530) - 505073..506068 (+) 996 WP_370412825.1 RluA family pseudouridine synthase -
  HXS58_RS02560 (NHP190020_05540) - 505995..507245 (+) 1251 WP_176485185.1 fibronectin type III domain-containing protein -
  HXS58_RS02565 (NHP190020_05550) trmB 507270..508433 (+) 1164 WP_006563869.1 tRNA (guanosine(46)-N7)-methyltransferase TrmB -
  HXS58_RS02570 (NHP190020_05560) - 508444..509115 (+) 672 WP_006563870.1 cell division ATP-binding protein FtsE -
  HXS58_RS02575 (NHP190020_05570) - 509102..509911 (+) 810 WP_006563871.1 hypothetical protein -

Sequence

Protein


Download         Length: 400 a.a.        Molecular weight: 44822.58 Da        Isoelectric Point: 10.0240

>NTDB_id=80751 HXS58_RS02255 WP_034375657.1 445787..446989(+) (comB10) [Helicobacter suis strain NHP19-0020]
MKQSLLKKIGLGVGGFVVLMALGLLANKGSNNNNKEEIYSIEESKFPLSDYFFEEVKEEPKKEENPKTITTPQPTAPTTT
NVSTNPIITDYSHLNSNLNKQNDTITHLQQVLQSPPKMKPKLKHTKEQLEFLNTRLKPLEPTKPAIKPETEYGVDSFSNL
KYKDIGTNEHKLLRTITADRMIPAFLITPISSQIAGKVTAQVESDIFASMGRAVLIPKGSKVIGYYNNNNQIGQYRLNIA
WTRIITPQGINIMLTNARGADVKGYNGLVGKYISRNFQRYGIPLLTNTLSNGLLIGITSALANRQNRKGDGNPFFGDYLL
MQLTRNTGMGINQVINQMLRQYGAQNPIIIIREGSRVFITPNLDIFIPKPKDGEVLAEFFKEKKPLIKKSNEEVNNEEEI

Nucleotide


Download         Length: 1203 bp        

>NTDB_id=80751 HXS58_RS02255 WP_034375657.1 445787..446989(+) (comB10) [Helicobacter suis strain NHP19-0020]
ATGAAACAATCCTTGCTTAAAAAGATAGGCTTAGGTGTTGGGGGCTTTGTTGTTTTAATGGCATTAGGATTGCTTGCTAA
TAAAGGTTCAAACAATAACAATAAAGAAGAAATTTACAGCATAGAAGAAAGTAAATTCCCCTTAAGCGATTATTTCTTTG
AAGAAGTCAAAGAAGAACCAAAAAAAGAAGAAAACCCCAAAACAATAACTACGCCACAACCTACAGCTCCAACTACTACC
AATGTTTCAACTAATCCTATCATTACAGATTATAGTCATCTTAACAGCAATCTCAACAAGCAAAATGACACCATCACGCA
TTTGCAACAAGTTTTACAAAGCCCCCCTAAAATGAAACCTAAATTAAAGCATACTAAAGAGCAATTAGAGTTTTTAAACA
CACGCCTTAAACCTTTAGAACCAACTAAACCAGCCATTAAGCCTGAGACGGAATATGGCGTGGATAGTTTTAGCAATTTA
AAATATAAAGACATCGGCACTAATGAGCATAAGCTATTAAGAACTATAACCGCTGATAGAATGATACCAGCCTTTTTAAT
CACGCCTATTAGCTCTCAAATTGCTGGAAAAGTAACCGCCCAAGTAGAGAGCGATATATTTGCTTCTATGGGTAGAGCGG
TGCTAATCCCTAAAGGCTCTAAGGTTATAGGCTATTACAATAATAACAATCAAATTGGACAATACCGCCTTAACATTGCT
TGGACTAGAATTATCACGCCTCAAGGCATAAACATCATGCTCACTAACGCAAGGGGGGCTGATGTGAAGGGTTATAATGG
CTTAGTAGGCAAATACATTAGCCGAAACTTTCAACGCTATGGTATCCCCTTACTCACTAACACGCTCTCTAATGGTCTTT
TAATAGGAATTACTTCAGCCTTAGCTAATAGGCAAAATAGAAAAGGTGATGGCAACCCTTTTTTTGGGGATTACTTGCTT
ATGCAACTCACTAGAAACACAGGCATGGGGATTAACCAAGTTATCAATCAAATGCTAAGACAATACGGAGCGCAAAACCC
CATTATCATCATTAGAGAGGGGAGCAGAGTGTTTATTACCCCTAATTTAGACATCTTTATCCCCAAACCAAAAGATGGGG
AGGTTCTAGCGGAGTTTTTTAAAGAGAAAAAACCACTAATCAAAAAATCAAACGAGGAAGTTAATAATGAAGAAGAAATC
TAA

Domains

Predicted by InterproScan.

Bacterial conjugation TrbI-like protein (TrbI)

(175-365)


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
  comB10 Helicobacter pylori P1

53.181

98.25

0.523

Multiple sequence alignment