Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HPOKI898_RS05120 Genome accession   NZ_CP006827
Coordinates   1090636..1092999 (-) Length   787 a.a.
NCBI ID   WP_038418861.1    Uniprot ID   -
Organism   Helicobacter pylori oki898     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1085636..1097999
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPOKI898_RS05100 (HPOKI898_05325) - 1085797..1087314 (-) 1518 WP_025277017.1 TrbG/VirB9 family P-type conjugative transfer protein -
  HPOKI898_RS08670 - 1087314..1088060 (-) 747 WP_038416864.1 type IV secretion system protein -
  HPOKI898_RS08675 - 1088118..1088483 (-) 366 WP_240444701.1 hypothetical protein -
  HPOKI898_RS05115 (HPOKI898_05335) - 1088600..1090633 (-) 2034 WP_025277018.1 type IA DNA topoisomerase -
  HPOKI898_RS05120 (HPOKI898_05340) comB4 1090636..1092999 (-) 2364 WP_038418861.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HPOKI898_RS05125 (HPOKI898_05345) comB3 1093046..1093312 (-) 267 WP_017284177.1 hypothetical protein Machinery gene
  HPOKI898_RS05130 (HPOKI898_05350) - 1093313..1093615 (-) 303 WP_025276170.1 hypothetical protein -
  HPOKI898_RS05135 (HPOKI898_05355) - 1093612..1095135 (-) 1524 WP_025276171.1 hypothetical protein -
  HPOKI898_RS05140 (HPOKI898_05360) - 1095142..1095435 (-) 294 WP_025276172.1 hypothetical protein -
  HPOKI898_RS05145 (HPOKI898_05365) - 1095455..1096234 (-) 780 WP_025276173.1 hypothetical protein -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 91044.37 Da        Isoelectric Point: 7.5314

>NTDB_id=101450 HPOKI898_RS05120 WP_038418861.1 1090636..1092999(-) (comB4) [Helicobacter pylori oki898]
MKEETNIVGIYNEHYLLSEKSNLVGTLKLEGISYLSLDDKEIAQKFNERILALNEIVDGVHFKIVARRRKIFIHHEYTQE
EISNPFALEVINLWEQGVEDVYQNFYYLIFETKNDSIKGYLERFKKKITTNELENIQENNKQDEVKYQENYFIGFDNFNL
ADKSKILDSIINNVKNMLSGLFVEKIDANSLLNFYAEYINGVPSEYTFFRGRLHDGMINSDVHFKKDFFTHIHNSKEIFK
RFISIKTYDIDKIVSTALSSVLHLSLEFDVILNIDNIPKAKAEKRIETKRKRANKIIRVEIDELNDLIKTDRVLMQEISL
NILVHAKTKTDLDSACIEITNLLKQKGIVSTQESIGMLPMFFSFFPNRNRLNFRKRLLSSQNIASLIVLEKQNCGFSRNS
WGDRHLTIFRNQDKSPYLFNFHAYEAKKNDMVSGHTIIFGGTGAGKTTLIEFLITNCFKYEDLSILALDRNNGMRVMTEF
LDGQYNDSNDFYINPFSLKDTSTNCTFLVSWLAFMLNIDEDTKDEKKKTLSALSKTIRVCYNNITKQGGAIFKLRDFKDT
LERDYLDSKDILEKESSKDLYKHSTDCLDFAKKLSVIDMDALSSSKKDFNLAVLYLFYKVMNRAKLENKPFYIFIDEAKS
VIENPIMLAKIKDTLAQARKLNGVLTLAFQDINQLDGVEGSKSIIENAAQVILYPTNNFEKLESYGILLSPIEKSFLNKT
PLNARQVLVKNLLTQSSVFLEINLEKLNSTSKKFLRAYNSSASSVFELETLKKDNPKDYKEIYLTKE

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=101450 HPOKI898_RS05120 WP_038418861.1 1090636..1092999(-) (comB4) [Helicobacter pylori oki898]
ATGAAAGAAGAAACTAACATTGTTGGCATTTATAATGAGCATTATCTTTTAAGTGAAAAATCAAACCTTGTAGGCACTCT
TAAATTAGAGGGAATTTCTTATTTGTCTTTAGATGACAAAGAAATAGCGCAAAAATTCAATGAACGCATTTTAGCTCTTA
ATGAGATTGTAGATGGAGTGCATTTTAAAATCGTAGCTAGAAGGCGTAAGATTTTCATACACCATGAATATACTCAAGAG
GAGATAAGCAATCCTTTTGCATTAGAGGTTATCAATTTATGGGAGCAGGGGGTTGAGGATGTTTATCAAAATTTCTATTA
CTTAATTTTTGAAACTAAGAATGATAGCATTAAAGGTTATTTGGAACGATTTAAGAAAAAAATCACTACCAATGAATTAG
AAAATATTCAAGAAAATAATAAACAAGATGAAGTTAAATATCAAGAAAACTATTTCATAGGCTTTGATAATTTTAATTTA
GCAGATAAATCTAAAATATTAGACAGCATTATCAATAATGTTAAAAACATGCTTTCTGGCTTGTTTGTAGAAAAAATAGA
TGCCAATAGTTTGCTTAATTTTTATGCGGAATATATCAATGGTGTTCCTAGTGAATACACTTTTTTTAGAGGTCGTTTGC
ATGATGGCATGATTAATTCTGATGTGCATTTTAAAAAAGATTTTTTCACTCACATTCATAATAGTAAAGAGATTTTCAAG
CGTTTCATCAGCATTAAGACTTATGATATAGACAAAATTGTCAGCACCGCTCTTTCTTCAGTGTTGCATTTATCTTTAGA
ATTTGATGTGATTTTAAACATTGACAATATTCCTAAAGCAAAGGCTGAAAAAAGGATTGAAACTAAAAGAAAAAGAGCGA
ATAAGATTATTAGAGTTGAAATTGATGAATTGAATGACCTTATTAAAACAGACAGAGTTTTAATGCAAGAGATTTCTTTA
AACATTTTAGTTCATGCCAAAACTAAAACCGATTTAGATAGTGCTTGTATAGAAATTACCAATTTGCTTAAACAAAAAGG
TATTGTAAGCACACAAGAAAGTATTGGCATGTTGCCTATGTTTTTTAGCTTCTTCCCCAATCGTAATCGCTTGAATTTTA
GAAAGCGTTTGTTGTCTAGTCAAAATATTGCTTCTTTAATCGTATTGGAAAAACAAAATTGTGGTTTTTCTAGAAATTCA
TGGGGCGATCGCCATTTAACTATTTTTAGAAACCAAGACAAATCGCCTTATTTATTCAATTTCCATGCTTATGAGGCAAA
AAAAAATGATATGGTATCAGGGCATACCATCATCTTTGGTGGCACAGGGGCTGGTAAAACCACTTTAATTGAATTTTTAA
TCACCAATTGTTTTAAGTATGAAGATTTAAGTATTTTGGCTTTAGACAGAAATAATGGCATGCGTGTGATGACTGAGTTT
TTAGATGGTCAATACAACGATAGCAATGATTTTTACATTAATCCGTTTTCTTTAAAAGATACAAGCACTAACTGCACCTT
TTTAGTGAGTTGGTTGGCATTTATGCTCAATATTGATGAAGATACTAAAGATGAAAAAAAAAAGACTTTAAGCGCTTTAT
CCAAAACAATCAGAGTTTGCTATAACAATATCACAAAACAAGGGGGTGCTATTTTTAAGTTAAGAGATTTTAAAGACACG
CTAGAAAGAGACTATTTAGATAGCAAAGACATTTTAGAAAAAGAGAGCTCAAAAGACTTATACAAGCATTCTACTGATTG
TTTAGACTTTGCTAAAAAGCTTTCTGTTATTGATATGGATGCTCTTTCTAGTAGTAAAAAAGATTTCAACTTGGCAGTGC
TATACCTATTCTACAAAGTCATGAATAGAGCTAAATTAGAAAACAAGCCTTTTTATATCTTCATTGATGAAGCAAAATCT
GTTATTGAAAATCCCATCATGTTAGCTAAAATCAAAGACACACTCGCTCAAGCTAGAAAACTCAATGGGGTTTTAACTTT
AGCCTTTCAAGACATTAACCAACTTGATGGCGTAGAGGGATCAAAGTCCATTATAGAAAACGCCGCTCAAGTCATACTCT
ATCCTACAAACAATTTTGAGAAATTAGAGAGCTATGGCATTTTATTAAGTCCTATTGAAAAATCCTTTTTAAACAAAACG
CCGTTAAACGCTAGGCAAGTATTAGTGAAAAACCTTCTCACTCAATCTAGTGTATTTTTAGAAATCAATTTAGAAAAGCT
AAACAGCACCAGTAAAAAATTTTTAAGAGCGTATAACTCTAGCGCGTCTAGCGTTTTTGAACTGGAAACGCTTAAAAAGG
ATAATCCAAAGGATTATAAAGAAATTTACTTGACAAAGGAGTAG

Domains

Predicted by InterProScan.

Helicase HerA, central domain (DUF87)

(428-471)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(176-374)


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
  comB4 Helicobacter pylori 26695

36.03

100

0.362

Multiple sequence alignment