Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB10   Type   Machinery gene
Locus tag   HPOKI828_RS02440 Genome accession   NZ_CP006826
Coordinates   500655..501857 (-) Length   400 a.a.
NCBI ID   WP_025222674.1    Uniprot ID   -
Organism   Helicobacter pylori oki828     
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 439938..505767 500655..501857 within 0


Gene organization within MGE regions


Location: 439938..505767
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPOKI828_RS02215 (HPOKI828_02305) - 442732..444627 (-) 1896 WP_025222640.1 motility associated factor glycosyltransferase family protein -
  HPOKI828_RS02220 (HPOKI828_02310) - 444653..445420 (-) 768 WP_025222641.1 TerB family tellurite resistance protein -
  HPOKI828_RS02225 (HPOKI828_02315) - 445430..445744 (-) 315 WP_001860400.1 hypothetical protein -
  HPOKI828_RS02230 (HPOKI828_02320) - 445746..447233 (-) 1488 WP_025222642.1 DUF5644 domain-containing protein -
  HPOKI828_RS02235 (HPOKI828_02325) - 447245..447733 (-) 489 WP_025222643.1 hypothetical protein -
  HPOKI828_RS02240 (HPOKI828_02330) - 447718..449454 (-) 1737 WP_025222644.1 M3 family oligoendopeptidase -
  HPOKI828_RS02245 (HPOKI828_02335) - 449551..450801 (-) 1251 WP_000430106.1 cation:proton antiporter -
  HPOKI828_RS08565 - 450954..451136 (-) 183 WP_080276481.1 hypothetical protein -
  HPOKI828_RS02250 (HPOKI828_02340) - 451120..451680 (-) 561 WP_025222645.1 outer membrane beta-barrel protein -
  HPOKI828_RS08770 (HPOKI828_02345) - 451724..451870 (-) 147 WP_025222646.1 hypothetical protein -
  HPOKI828_RS02255 (HPOKI828_02350) modA 451899..452639 (+) 741 WP_025222647.1 molybdate ABC transporter substrate-binding protein -
  HPOKI828_RS02260 (HPOKI828_02355) modB 452661..453335 (+) 675 WP_025222648.1 molybdate ABC transporter permease subunit -
  HPOKI828_RS02265 (HPOKI828_02360) - 453332..454129 (+) 798 WP_025222649.1 ATP-binding cassette domain-containing protein -
  HPOKI828_RS02270 (HPOKI828_02365) gltX 454214..455605 (-) 1392 WP_025222650.1 glutamate--tRNA ligase -
  HPOKI828_RS02275 (HPOKI828_02370) hopJ 455723..456823 (+) 1101 WP_025222651.1 Hop family outer membrane protein HopJ/HopK -
  HPOKI828_RS02280 (HPOKI828_02375) - 456832..458469 (+) 1638 WP_025222652.1 class I SAM-dependent methyltransferase -
  HPOKI828_RS02285 (HPOKI828_02380) - 458435..459283 (+) 849 WP_025222653.1 glycosyltransferase family 9 protein -
  HPOKI828_RS02290 (HPOKI828_02385) typA 459329..461128 (+) 1800 WP_015085650.1 translational GTPase TypA -
  HPOKI828_RS02295 (HPOKI828_02390) - 461144..462073 (+) 930 WP_025222654.1 DNA adenine methylase -
  HPOKI828_RS02300 (HPOKI828_02395) - 462076..462699 (+) 624 WP_025222655.1 GIY-YIG nuclease family protein -
  HPOKI828_RS02305 (HPOKI828_02400) - 462793..463080 (+) 288 Protein_449 DNA cytosine methyltransferase -
  HPOKI828_RS02310 (HPOKI828_02410) - 463995..465995 (+) 2001 WP_025222657.1 relaxase/mobilization nuclease domain-containing protein -
  HPOKI828_RS02315 (HPOKI828_02415) - 467034..468101 (+) 1068 WP_025222658.1 tyrosine-type recombinase/integrase -
  HPOKI828_RS02320 (HPOKI828_02420) - 468416..469240 (-) 825 WP_025222659.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  HPOKI828_RS02325 (HPOKI828_02425) - 469212..469463 (-) 252 WP_000393575.1 hypothetical protein -
  HPOKI828_RS02330 (HPOKI828_02430) - 469709..470353 (-) 645 WP_038420970.1 CAAX amino protease -
  HPOKI828_RS02335 (HPOKI828_02435) - 470603..471331 (+) 729 WP_025222661.1 hypothetical protein -
  HPOKI828_RS08840 - 471353..471529 (-) 177 WP_412127280.1 hypothetical protein -
  HPOKI828_RS02340 (HPOKI828_02440) - 471605..472609 (-) 1005 Protein_457 hypothetical protein -
  HPOKI828_RS02345 (HPOKI828_02445) - 472606..473856 (-) 1251 WP_025222662.1 P-type conjugative transfer protein TrbL -
  HPOKI828_RS02350 (HPOKI828_02450) - 473853..475286 (-) 1434 WP_025222663.1 hypothetical protein -
  HPOKI828_RS02355 (HPOKI828_02455) - 475296..477272 (-) 1977 WP_025222664.1 hypothetical protein -
  HPOKI828_RS02360 (HPOKI828_02460) - 477272..478321 (-) 1050 WP_025222665.1 ArdC-like ssDNA-binding domain-containing protein -
  HPOKI828_RS08485 (HPOKI828_02465) - 478322..478486 (-) 165 WP_171924466.1 hypothetical protein -
  HPOKI828_RS02365 (HPOKI828_02470) - 479122..479772 (+) 651 WP_025222666.1 ParA family protein -
  HPOKI828_RS02370 - 479834..480211 (+) 378 WP_000365713.1 hypothetical protein -
  HPOKI828_RS02375 - 480189..480761 (+) 573 WP_025222668.1 hypothetical protein -
  HPOKI828_RS02380 (HPOKI828_02480) - 480883..481683 (-) 801 WP_025222669.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  HPOKI828_RS02385 (HPOKI828_02485) - 481653..482120 (-) 468 WP_025222670.1 hypothetical protein -
  HPOKI828_RS02390 (HPOKI828_02490) - 482191..484240 (-) 2050 Protein_468 type IA DNA topoisomerase -
  HPOKI828_RS02395 (HPOKI828_02495) - 484244..484468 (-) 225 WP_001043180.1 hypothetical protein -
  HPOKI828_RS02400 (HPOKI828_02500) - 484461..484715 (-) 255 WP_000732628.1 hypothetical protein -
  HPOKI828_RS08775 - 484851..490334 (-) 5484 WP_327062225.1 SNF2-related protein -
  HPOKI828_RS08780 - 491249..492058 (-) 810 WP_327062221.1 helicase -
  HPOKI828_RS08785 - 492733..493458 (-) 726 Protein_473 hypothetical protein -
  HPOKI828_RS02410 (HPOKI828_02515) - 493478..495740 (-) 2263 Protein_474 type IV secretory system conjugative DNA transfer family protein -
  HPOKI828_RS02415 (HPOKI828_02525) - 495737..496255 (-) 519 WP_025222671.1 hypothetical protein -
  HPOKI828_RS02420 (HPOKI828_02530) - 496252..497196 (-) 945 WP_025222672.1 ATPase, T2SS/T4P/T4SS family -
  HPOKI828_RS02425 (HPOKI828_02535) - 497201..497473 (-) 273 WP_000883379.1 hypothetical protein -
  HPOKI828_RS02430 (HPOKI828_02540) - 497491..498466 (-) 976 Protein_478 hypothetical protein -
  HPOKI828_RS02435 (HPOKI828_02545) - 498479..500671 (-) 2193 WP_025222673.1 hypothetical protein -
  HPOKI828_RS02440 (HPOKI828_02550) comB10 500655..501857 (-) 1203 WP_025222674.1 DNA type IV secretion system protein ComB10 Machinery gene
  HPOKI828_RS02445 (HPOKI828_02555) - 501854..503521 (-) 1668 WP_025222675.1 TrbG/VirB9 family P-type conjugative transfer protein -
  HPOKI828_RS02450 (HPOKI828_02560) - 503518..504634 (-) 1117 Protein_482 VirB8/TrbF family protein -
  HPOKI828_RS02455 (HPOKI828_02565) - 504627..504761 (-) 135 WP_000738749.1 hypothetical protein -

Sequence

Protein


Download         Length: 400 a.a.        Molecular weight: 44694.32 Da        Isoelectric Point: 9.9914

>NTDB_id=114247 HPOKI828_RS02440 WP_025222674.1 500655..501857(-) (comB10) [Helicobacter pylori oki828]
MNKSLLKKIGLVIGGFGALMALGLLANKGSDNNNKEEIFQVNESKFPLSDYFFEEVKEEPKKEESPKTITTPQPTAPTTT
NVSTNPIITDYSHLNSNLNKQNDTITHLQQVLQSPPKMKPKLKHTKEQLEFLNTRLKPLEPTKPATKPETEYGVDSFSNL
RYKDIGTNEHKLLRTITADRMIPAFLITPISSQIAGKVTAQVESDIFASMGRAVLIPKGSKVIGYYNNNNQIGQYRLNIA
WTRIITPQGINIMLTNARGADVKGYNGLVGKYISRNFQRYGIPLLTNTLSNGLLIGITSALANQQNKKGDGNPFFGDYLL
MQLTRNTGMGINQVINQMPRQYGAQNPIIIIREGSRVFISPNLDIFIPKPKDGEVLAEFFKEKKPLIKKSNEEVNNEEEI

Nucleotide


Download         Length: 1203 bp        

>NTDB_id=114247 HPOKI828_RS02440 WP_025222674.1 500655..501857(-) (comB10) [Helicobacter pylori oki828]
ATGAATAAGTCCTTGCTTAAAAAGATAGGCTTAGTTATAGGGGGCTTTGGTGCTTTAATGGCATTAGGATTGCTTGCTAA
TAAAGGTTCAGACAATAACAATAAAGAAGAAATCTTTCAAGTAAATGAGAGTAAATTCCCACTAAGTGATTATTTCTTTG
AAGAAGTCAAAGAAGAACCAAAAAAAGAAGAAAGCCCCAAAACAATAACTACGCCACAACCTACAGCTCCAACTACTACC
AATGTTTCAACTAATCCTATCATTACAGATTATAGTCATCTTAACAGCAATCTCAACAAGCAAAATGACACCATCACGCA
TTTGCAACAAGTCTTACAAAGCCCCCCTAAAATGAAACCTAAATTAAAGCATACTAAAGAGCAATTAGAGTTTTTAAACA
CACGCCTTAAACCTTTAGAACCAACTAAACCAGCCACTAAGCCTGAGACGGAATATGGCGTGGATAGTTTTAGCAATTTA
AGATATAAAGACATCGGCACTAATGAGCATAAGCTCTTAAGAACTATAACCGCTGATAGAATGATACCAGCCTTTTTAAT
CACGCCTATTAGTTCTCAAATCGCTGGAAAAGTAACCGCTCAAGTAGAGAGTGATATTTTTGCTTCTATGGGTAGAGCGG
TGCTAATTCCTAAAGGCTCTAAGGTTATAGGCTATTACAATAACAATAATCAAATTGGGCAATACCGCTTAAACATTGCT
TGGACTAGAATTATCACCCCTCAAGGCATAAATATCATGCTCACTAATGCAAGGGGGGCTGATGTGAAAGGCTATAATGG
CTTAGTAGGCAAATATATTAGCCGAAATTTTCAACGCTATGGTATCCCCTTACTCACTAACACGCTTTCTAATGGGCTTT
TAATAGGAATTACTTCAGCCTTAGCTAATCAACAAAATAAAAAAGGTGATGGCAACCCTTTTTTTGGGGATTACTTGCTT
ATGCAACTCACTAGAAACACAGGCATGGGGATTAACCAAGTTATCAATCAAATGCCAAGGCAATATGGAGCGCAAAACCC
CATTATCATCATTAGAGAGGGGAGCAGAGTGTTTATTAGTCCTAATTTAGACATCTTTATCCCTAAACCAAAAGATGGGG
AGGTCCTAGCGGAGTTTTTTAAAGAGAAAAAACCGCTAATCAAAAAATCAAACGAGGAAGTTAATAATGAAGAAGAAATC
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

53.266

99.5

0.53

Multiple sequence alignment