Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB8   Type   Machinery gene
Locus tag   RJ561_RS00940 Genome accession   NZ_CP134393
Coordinates   197735..198478 (+) Length   247 a.a.
NCBI ID   WP_001208395.1    Uniprot ID   I9ZHM7
Organism   Helicobacter pylori strain ICDC15003-50-2     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 192735..203478
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RJ561_RS00915 (RJ561_00915) panD 194888..195238 (+) 351 WP_180662627.1 aspartate 1-decarboxylase -
  RJ561_RS00920 (RJ561_00920) - 195249..195542 (+) 294 WP_000347919.1 YbaB/EbfC family nucleoid-associated protein -
  RJ561_RS00925 (RJ561_00925) - 195542..196546 (+) 1005 WP_310957715.1 PDZ domain-containing protein -
  RJ561_RS00930 (RJ561_00930) comB6 196554..197609 (+) 1056 WP_310958088.1 P-type conjugative transfer protein TrbL Machinery gene
  RJ561_RS00935 (RJ561_00935) comB7 197625..197738 (+) 114 WP_001217873.1 hypothetical protein Machinery gene
  RJ561_RS00940 (RJ561_00940) comB8 197735..198478 (+) 744 WP_001208395.1 virB8 family protein Machinery gene
  RJ561_RS00945 (RJ561_00945) comB9 198478..199461 (+) 984 WP_180662630.1 TrbG/VirB9 family P-type conjugative transfer protein Machinery gene
  RJ561_RS00950 (RJ561_00950) comB10 199454..200590 (+) 1137 WP_310957716.1 DNA type IV secretion system protein ComB10 Machinery gene
  RJ561_RS00955 (RJ561_00955) - 200660..202072 (+) 1413 WP_180662633.1 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase -
  RJ561_RS00960 (RJ561_00960) gmd 202113..203258 (+) 1146 WP_180662634.1 GDP-mannose 4,6-dehydratase -

Sequence

Protein


Download         Length: 247 a.a.        Molecular weight: 28722.95 Da        Isoelectric Point: 8.9604

>NTDB_id=879868 RJ561_RS00940 WP_001208395.1 197735..198478(+) (comB8) [Helicobacter pylori strain ICDC15003-50-2]
MREKPFNSEQLIYLEELLSHQEKHLENKLSGFSVNDLDMQSVFRLERNRLKIAYKLLGLMSFIALVLAIVLISILPLQKT
EHHFVDFLNQDKHYAIIQRADKSISSNEALARSLIGAYVLNRESINRIDDKSRYELVRLQSSSKVWQRFEDLIKTQNSIY
AQSHLEREVHIVNIAIYQQDNNPIASVSIAAKLLNENKLVYEKRYKIVLSYLFDTPDFDYASMPKNPTGFKITRYSITEI
APTNRGD

Nucleotide


Download         Length: 744 bp        

>NTDB_id=879868 RJ561_RS00940 WP_001208395.1 197735..198478(+) (comB8) [Helicobacter pylori strain ICDC15003-50-2]
ATGAGAGAAAAGCCTTTCAATAGCGAGCAGTTGATCTATTTAGAAGAGCTTTTAAGCCACCAAGAAAAGCATTTAGAAAA
CAAGCTTTCTGGTTTTTCGGTGAACGATTTGGACATGCAAAGCGTGTTTCGGCTGGAAAGAAACCGCTTGAAAATCGCTT
ACAAGCTCTTAGGCTTGATGAGTTTTATCGCTCTTGTTTTAGCGATCGTGTTAATCAGCATTCTACCCTTACAAAAAACC
GAACACCATTTCGTGGATTTTTTAAACCAGGACAAGCATTACGCCATTATCCAAAGAGCGGATAAAAGCATTTCCAGTAA
TGAAGCGTTGGCTCGCTCGCTCATTGGGGCGTATGTGTTAAACCGAGAGAGCATTAACCGCATTGACGATAAATCGCGCT
ATGAATTGGTGCGTTTGCAAAGCAGTTCTAAGGTGTGGCAACGCTTTGAAGATTTGATTAAAACCCAAAACAGCATTTAT
GCGCAAAGCCATTTGGAAAGAGAAGTCCATATCGTCAATATTGCGATCTATCAGCAAGACAATAACCCCATTGCGAGCGT
TTCCATTGCGGCTAAACTTTTGAATGAAAACAAGCTCGTGTATGAAAAGCGTTATAAAATCGTATTGAGTTATTTGTTTG
ACACTCCGGATTTTGATTACGCTTCCATGCCTAAAAACCCTACCGGCTTTAAAATCACTCGTTACAGCATCACTGAAATC
GCGCCGACTAACAGGGGCGATTGA

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
  AlphaFold DB I9ZHM7

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

98.381

100

0.984