Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB8   Type   Machinery gene
Locus tag   HPOKI128_RS05945 Genome accession   NZ_CP006822
Coordinates   1245096..1245839 (+) Length   247 a.a.
NCBI ID   WP_025223379.1    Uniprot ID   -
Organism   Helicobacter pylori oki128     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1240096..1250839
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPOKI128_RS05920 (HPOKI128_06125) panD 1242258..1242608 (+) 351 WP_025288488.1 aspartate 1-decarboxylase -
  HPOKI128_RS05925 (HPOKI128_06130) - 1242619..1242912 (+) 294 WP_000347917.1 YbaB/EbfC family nucleoid-associated protein -
  HPOKI128_RS05930 (HPOKI128_06135) - 1242912..1243907 (+) 996 WP_025288489.1 PDZ domain-containing protein -
  HPOKI128_RS05935 (HPOKI128_06140) comB6 1243915..1244970 (+) 1056 WP_025223380.1 P-type conjugative transfer protein TrbL Machinery gene
  HPOKI128_RS05940 (HPOKI128_06145) comB7 1244986..1245099 (+) 114 WP_001217868.1 hypothetical protein Machinery gene
  HPOKI128_RS05945 (HPOKI128_06150) comB8 1245096..1245839 (+) 744 WP_025223379.1 type IV secretion system protein Machinery gene
  HPOKI128_RS05950 (HPOKI128_06155) comB9 1245839..1246801 (+) 963 WP_025223378.1 TrbG/VirB9 family P-type conjugative transfer protein Machinery gene
  HPOKI128_RS05955 (HPOKI128_06160) comB10 1246794..1247930 (+) 1137 WP_025223377.1 DNA type IV secretion system protein ComB10 Machinery gene
  HPOKI128_RS05960 (HPOKI128_06165) - 1248000..1249412 (+) 1413 WP_025288490.1 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase -
  HPOKI128_RS05965 (HPOKI128_06170) gmd 1249426..1250571 (+) 1146 WP_025288491.1 GDP-mannose 4,6-dehydratase -

Sequence

Protein


Download         Length: 247 a.a.        Molecular weight: 28646.82 Da        Isoelectric Point: 8.9830

>NTDB_id=114169 HPOKI128_RS05945 WP_025223379.1 1245096..1245839(+) (comB8) [Helicobacter pylori oki128]
MKEKPFNSEQLAFLEELLSHQEKHLENKFSGFSVNDLDMQSVFRLERNRLKIAYKLLGLMSFIALVLAIVLISVLPLQKT
EHHFVDFLNQDKHYAIIQRADKSISSNEALARSLIGAYVLNRESINRIDDKSRYELVRLQSSSKVWQRFEDLIKTQNSIY
AQSHLEREVHIVNIAIYQQDNNPIASVSIAAKLMNENKLVYEKRYKIALSYLFDTPDFDYASMPKNPTGFKITRYSITEI
APTNRGD

Nucleotide


Download         Length: 744 bp        

>NTDB_id=114169 HPOKI128_RS05945 WP_025223379.1 1245096..1245839(+) (comB8) [Helicobacter pylori oki128]
ATGAAAGAAAAGCCTTTCAATAGCGAGCAGTTGGCTTTTTTAGAAGAGCTTTTAAGCCACCAAGAAAAGCATTTAGAAAA
CAAGTTTTCTGGTTTTTCGGTGAATGATTTGGACATGCAAAGCGTGTTTAGATTGGAGAGGAACCGCTTGAAAATCGCTT
ATAAACTCTTAGGCTTGATGAGTTTTATCGCTCTTGTTTTAGCGATTGTTTTAATCAGTGTTCTACCCTTACAAAAAACC
GAACACCATTTCGTGGATTTTTTAAACCAGGACAAGCATTACGCCATTATCCAAAGAGCGGATAAAAGCATTTCTAGTAA
TGAAGCGTTGGCTCGTTCGCTCATTGGGGCGTATGTGTTAAACCGGGAGAGCATTAATCGCATTGACGATAAATCGCGCT
ATGAATTGGTGCGCTTGCAAAGCAGTTCTAAAGTGTGGCAGCGCTTTGAAGATTTGATTAAAACGCAAAACAGCATTTAT
GCGCAAAGCCATTTGGAAAGAGAAGTCCATATCGTCAATATTGCAATTTATCAGCAAGACAATAACCCCATTGCAAGCGT
TTCTATTGCAGCTAAACTCATGAATGAAAACAAGCTGGTGTATGAAAAGCGTTATAAAATCGCGCTGAGTTATTTGTTTG
ACACCCCGGATTTTGATTACGCTTCCATGCCCAAAAACCCTACCGGCTTTAAAATTACTCGCTACAGCATCACTGAAATC
GCGCCGACTAATAGGGGCGATTGA

Domains

Predicted by InterproScan.

VirB8 protein (VirB8)

(38-239)


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
  comB8 Helicobacter pylori P1

95.951

100

0.96

Multiple sequence alignment