Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB10   Type   Machinery gene
Locus tag   HPOKI154_RS02450 Genome accession   NZ_CP006823
Coordinates   500625..501827 (-) Length   400 a.a.
NCBI ID   WP_025366790.1    Uniprot ID   -
Organism   Helicobacter pylori oki154     
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 439909..505737 500625..501827 within 0


Gene organization within MGE regions


Location: 439909..505737
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPOKI154_RS02220 (HPOKI154_02320) - 442703..444598 (-) 1896 WP_025366781.1 motility associated factor glycosyltransferase family protein -
  HPOKI154_RS02225 (HPOKI154_02325) - 444624..445391 (-) 768 WP_025222641.1 TerB family tellurite resistance protein -
  HPOKI154_RS02230 (HPOKI154_02330) - 445401..445715 (-) 315 WP_001860400.1 hypothetical protein -
  HPOKI154_RS02235 (HPOKI154_02335) - 445717..447204 (-) 1488 WP_025222642.1 DUF5644 domain-containing protein -
  HPOKI154_RS02240 (HPOKI154_02340) - 447216..447704 (-) 489 WP_025287999.1 hypothetical protein -
  HPOKI154_RS02245 (HPOKI154_02345) - 447689..449425 (-) 1737 WP_025366782.1 M3 family oligoendopeptidase -
  HPOKI154_RS02250 (HPOKI154_02350) - 449522..450772 (-) 1251 WP_025366783.1 cation:proton antiporter -
  HPOKI154_RS08535 - 450925..451107 (-) 183 WP_080274446.1 hypothetical protein -
  HPOKI154_RS02255 (HPOKI154_02355) - 451091..451651 (-) 561 WP_025366784.1 outer membrane beta-barrel protein -
  HPOKI154_RS08745 (HPOKI154_02360) - 451695..451841 (-) 147 WP_025313751.1 hypothetical protein -
  HPOKI154_RS02260 (HPOKI154_02365) modA 451870..452610 (+) 741 WP_025222647.1 molybdate ABC transporter substrate-binding protein -
  HPOKI154_RS02265 (HPOKI154_02370) modB 452632..453306 (+) 675 WP_025313752.1 molybdate ABC transporter permease subunit -
  HPOKI154_RS02270 (HPOKI154_02375) - 453303..454100 (+) 798 WP_025366785.1 ATP-binding cassette domain-containing protein -
  HPOKI154_RS02275 (HPOKI154_02380) gltX 454185..455576 (-) 1392 WP_025366786.1 glutamate--tRNA ligase -
  HPOKI154_RS02280 (HPOKI154_02385) hopJ 455694..456794 (+) 1101 WP_025313754.1 Hop family outer membrane protein HopJ/HopK -
  HPOKI154_RS02285 (HPOKI154_02390) - 456803..458440 (+) 1638 WP_025313755.1 class I SAM-dependent methyltransferase -
  HPOKI154_RS02290 (HPOKI154_02395) - 458406..459255 (+) 850 Protein_448 glycosyltransferase family 9 protein -
  HPOKI154_RS02295 (HPOKI154_02400) typA 459301..461100 (+) 1800 WP_015085650.1 translational GTPase TypA -
  HPOKI154_RS02300 (HPOKI154_02405) - 461116..462045 (+) 930 WP_025222654.1 DNA adenine methylase -
  HPOKI154_RS02305 (HPOKI154_02410) - 462048..462671 (+) 624 WP_025222655.1 GIY-YIG nuclease family protein -
  HPOKI154_RS02310 (HPOKI154_02415) - 462765..463052 (+) 288 Protein_452 DNA cytosine methyltransferase -
  HPOKI154_RS02315 (HPOKI154_02425) - 463967..465967 (+) 2001 WP_025222657.1 relaxase/mobilization nuclease domain-containing protein -
  HPOKI154_RS02320 (HPOKI154_02430) - 467006..468073 (+) 1068 WP_025222658.1 tyrosine-type recombinase/integrase -
  HPOKI154_RS02325 (HPOKI154_02435) - 468388..469212 (-) 825 WP_025222659.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  HPOKI154_RS02330 (HPOKI154_02440) - 469184..469435 (-) 252 WP_000393575.1 hypothetical protein -
  HPOKI154_RS07950 (HPOKI154_02445) - 469681..470324 (-) 644 Protein_457 CAAX protease -
  HPOKI154_RS02345 (HPOKI154_02450) - 470574..471302 (+) 729 WP_025222661.1 hypothetical protein -
  HPOKI154_RS08790 - 471324..471572 (-) 249 WP_373416435.1 hypothetical protein -
  HPOKI154_RS02350 (HPOKI154_02455) - 471576..472580 (-) 1005 Protein_460 hypothetical protein -
  HPOKI154_RS02355 (HPOKI154_02460) - 472577..473827 (-) 1251 WP_025366787.1 P-type conjugative transfer protein TrbL -
  HPOKI154_RS02360 (HPOKI154_02465) - 473824..475257 (-) 1434 WP_025222663.1 hypothetical protein -
  HPOKI154_RS02365 (HPOKI154_02470) - 475267..477243 (-) 1977 WP_025366788.1 hypothetical protein -
  HPOKI154_RS02370 (HPOKI154_02475) - 477243..478292 (-) 1050 WP_025222665.1 ArdC-like ssDNA-binding domain-containing protein -
  HPOKI154_RS08450 (HPOKI154_02480) - 478293..478457 (-) 165 WP_171924466.1 hypothetical protein -
  HPOKI154_RS02375 (HPOKI154_02485) - 479093..479743 (+) 651 WP_025222666.1 ParA family protein -
  HPOKI154_RS02380 - 479805..480182 (+) 378 WP_000365713.1 hypothetical protein -
  HPOKI154_RS02385 - 480160..480732 (+) 573 WP_025222668.1 hypothetical protein -
  HPOKI154_RS02390 (HPOKI154_02495) - 480854..481654 (-) 801 WP_025222669.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  HPOKI154_RS02395 (HPOKI154_02500) - 481624..482091 (-) 468 WP_025222670.1 hypothetical protein -
  HPOKI154_RS02400 (HPOKI154_02505) - 482162..484211 (-) 2050 Protein_471 type IA DNA topoisomerase -
  HPOKI154_RS02405 (HPOKI154_02510) - 484215..484439 (-) 225 WP_001043180.1 hypothetical protein -
  HPOKI154_RS02410 (HPOKI154_02515) - 484432..484686 (-) 255 WP_000732628.1 hypothetical protein -
  HPOKI154_RS02415 (HPOKI154_02525) - 484822..493428 (-) 8607 WP_025366789.1 SNF2-related protein -
  HPOKI154_RS02420 (HPOKI154_02530) - 493448..495710 (-) 2263 Protein_475 type IV secretory system conjugative DNA transfer family protein -
  HPOKI154_RS02425 (HPOKI154_02540) - 495707..496225 (-) 519 WP_025222671.1 hypothetical protein -
  HPOKI154_RS02430 (HPOKI154_02545) - 496222..497166 (-) 945 WP_025222672.1 ATPase, T2SS/T4P/T4SS family -
  HPOKI154_RS02435 (HPOKI154_02550) - 497171..497443 (-) 273 WP_000883379.1 hypothetical protein -
  HPOKI154_RS02440 (HPOKI154_02555) - 497461..498436 (-) 976 Protein_479 hypothetical protein -
  HPOKI154_RS02445 (HPOKI154_02560) - 498449..500641 (-) 2193 WP_025222673.1 hypothetical protein -
  HPOKI154_RS02450 (HPOKI154_02565) comB10 500625..501827 (-) 1203 WP_025366790.1 DNA type IV secretion system protein ComB10 Machinery gene
  HPOKI154_RS02455 (HPOKI154_02570) - 501824..503491 (-) 1668 WP_025366791.1 TrbG/VirB9 family P-type conjugative transfer protein -
  HPOKI154_RS02460 (HPOKI154_02575) - 503488..504604 (-) 1117 Protein_483 VirB8/TrbF family protein -
  HPOKI154_RS02465 (HPOKI154_02580) - 504597..504731 (-) 135 WP_000738749.1 hypothetical protein -

Sequence

Protein


Download         Length: 400 a.a.        Molecular weight: 44678.32 Da        Isoelectric Point: 9.9914

>NTDB_id=114181 HPOKI154_RS02450 WP_025366790.1 500625..501827(-) (comB10) [Helicobacter pylori oki154]
MNKSLLKKIGLVIGGFGALMALGLLANKGSDNNNKEEIFQVNESKFPLSDYFFEEVKEEPKKEESPKTITTPQPTAPTTT
NVSTNPIITDYSHLNSNLNKQNDTITHLQQVLQSPPKMKPKLKHTKEQLEFLNIRLKPLEPTKPATKPETEYGADSFSNL
RYKDIGTNEHKLLRTITADRMIPAFLITPISSQIAGKVTAQVESDIFASMGRAVLIPKGSKVIGYYNNNNQIGQYRLNIA
WTRIITPQGINIMLTNARGADVKGYNGLVGKYISRNFQRYGIPLLTNTLSNGLLIGITSALANQQNKKGDGNPFFGDYLL
MQLTRNTGMGINQVINQMPRQYGAQNPIIIIREGSRVFISPNLDIFIPKPKDGEVLAEFFKEKKPLIKKSNEEVNNEEEI

Nucleotide


Download         Length: 1203 bp        

>NTDB_id=114181 HPOKI154_RS02450 WP_025366790.1 500625..501827(-) (comB10) [Helicobacter pylori oki154]
ATGAATAAGTCCTTGCTTAAAAAGATAGGCTTAGTTATAGGGGGCTTTGGTGCTTTAATGGCATTAGGATTGCTTGCTAA
TAAAGGTTCAGACAATAACAATAAAGAAGAAATCTTTCAAGTAAATGAGAGTAAATTCCCACTAAGTGATTATTTCTTTG
AAGAAGTCAAAGAAGAACCAAAAAAAGAAGAAAGCCCCAAAACAATAACTACGCCACAACCTACAGCTCCAACTACTACC
AATGTTTCAACTAATCCTATCATTACAGATTATAGTCATCTTAACAGCAATCTCAACAAGCAAAATGACACCATCACGCA
TTTGCAACAAGTCTTACAAAGCCCCCCTAAAATGAAACCTAAATTAAAGCATACTAAAGAGCAATTAGAGTTTTTAAACA
TACGCCTTAAACCTTTAGAACCAACTAAACCAGCCACTAAGCCTGAGACGGAATATGGCGCGGATAGTTTTAGCAATTTA
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