Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB8   Type   Machinery gene
Locus tag   D4K04_RS01325 Genome accession   NZ_CP032904
Coordinates   262782..263525 (+) Length   247 a.a.
NCBI ID   WP_108557395.1    Uniprot ID   -
Organism   Helicobacter pylori strain 169-A-EK5     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 257782..268525
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4K04_RS01300 panD 259940..260293 (+) 354 WP_033599840.1 aspartate 1-decarboxylase -
  D4K04_RS01305 - 260296..260598 (+) 303 WP_000347926.1 YbaB/EbfC family nucleoid-associated protein -
  D4K04_RS01310 - 260598..261593 (+) 996 WP_139522314.1 PDZ domain-containing protein -
  D4K04_RS01315 comB6 261601..262656 (+) 1056 WP_139521454.1 P-type conjugative transfer protein TrbL Machinery gene
  D4K04_RS01320 comB7 262672..262785 (+) 114 WP_001217873.1 hypothetical protein Machinery gene
  D4K04_RS01325 comB8 262782..263525 (+) 744 WP_108557395.1 virB8 family protein Machinery gene
  D4K04_RS01330 comB9 263525..264523 (+) 999 WP_139521456.1 TrbG/VirB9 family P-type conjugative transfer protein Machinery gene
  D4K04_RS01335 comB10 264516..265652 (+) 1137 WP_139521457.1 DNA type IV secretion system protein ComB10 Machinery gene
  D4K04_RS01340 - 265722..267134 (+) 1413 WP_139521459.1 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase -
  D4K04_RS01345 gmd 267175..268320 (+) 1146 WP_139521460.1 GDP-mannose 4,6-dehydratase -

Sequence

Protein


Download         Length: 247 a.a.        Molecular weight: 28766.01 Da        Isoelectric Point: 8.9546

>NTDB_id=320167 D4K04_RS01325 WP_108557395.1 262782..263525(+) (comB8) [Helicobacter pylori strain 169-A-EK5]
MKEKPFNSEQLIYLEELLSHQEKHLENKLSGFSVNDLDMQSVFRLERNRLKIAYKLLGLMSFIALILAIVLISLLPLQKT
EHHFVDFLNQDKHYAIIQRADKSISSNEALARSLIGAYVLNRESINRIDDKSRYELVRLQSSSKVWQRFEDLIKTQNSIY
AQSHLEREVHIVNIAIYQQDNNPIASVSIAAKLLNENKLVYEKRYKIVLSYLFDTPDFDYASMPKNPTGFKITRYSITEI
APTNRND

Nucleotide


Download         Length: 744 bp        

>NTDB_id=320167 D4K04_RS01325 WP_108557395.1 262782..263525(+) (comB8) [Helicobacter pylori strain 169-A-EK5]
ATGAAAGAAAAGCCTTTCAATAGCGAGCAGTTGATCTATTTAGAAGAGCTTTTAAGCCACCAAGAAAAGCATTTAGAAAA
CAAGCTTTCTGGTTTTTCGGTGAATGATTTGGACATGCAAAGCGTGTTTCGGTTGGAAAGAAACCGCTTGAAAATCGCTT
ACAAGCTCTTAGGCTTGATGAGTTTTATCGCTCTTATTTTAGCGATCGTGTTAATCAGTCTTCTACCCTTACAAAAAACC
GAACACCATTTCGTGGATTTTTTAAACCAGGACAAGCATTACGCCATTATCCAAAGAGCGGATAAAAGCATTTCTAGTAA
TGAAGCGTTGGCTCGTTCGCTCATTGGGGCGTATGTGTTAAACCGAGAGAGCATTAACCGCATTGACGATAAATCGCGCT
ATGAACTGGTGCGCTTGCAAAGCAGTTCTAAAGTGTGGCAACGCTTTGAAGATTTGATTAAAACCCAAAACAGCATTTAT
GCGCAAAGCCATTTAGAAAGAGAAGTCCATATCGTCAATATTGCGATCTATCAGCAAGACAATAACCCCATTGCGAGCGT
GTCCATTGCGGCTAAACTTTTGAATGAAAACAAGCTCGTGTATGAAAAGCGTTATAAAATCGTATTGAGCTATTTGTTTG
ACACCCCGGATTTTGATTACGCTTCCATGCCTAAAAACCCTACCGGCTTTAAAATCACCCGCTACAGCATCACTGAAATC
GCGCCGACTAACAGGAATGATTGA

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

98.381

100

0.984

Multiple sequence alignment