Detailed information    

experimental Experimentally validated

Overview

Name   comB6   Type   Machinery gene
Locus tag   C694_RS00205 Genome accession   NC_018939
Coordinates   36556..37611 (+) Length   351 a.a.
NCBI ID   WP_000786660.1    Uniprot ID   A0AAC8N065
Organism   Helicobacter pylori 26695     
Function   transformation-associated type IV transport system   
DNA binding and uptake

Function

By combining computer prediction modeling, experimental topology determination, generation of knockout strains, and genetic complementation studies we identified ComB2, ComB3, and ComB6 as essential components of the transformation apparatus, structurally and functionally homologous to VirB2, VirB3, and VirB6, respectively.


Genomic Context

Location: 31556..42611
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C694_RS00175 (C694_00145) - 31961..32374 (+) 414 WP_001023005.1 universal stress protein -
  C694_RS00180 (C694_00150) - 32405..32680 (+) 276 WP_000784920.1 ATP-dependent Clp protease adaptor ClpS -
  C694_RS00185 (C694_00155) - 32680..34905 (+) 2226 WP_001051514.1 AAA family ATPase -
  C694_RS00190 (C694_00160) panD 34895..35248 (+) 354 WP_000142250.1 aspartate 1-decarboxylase -
  C694_RS00195 (C694_00165) - 35251..35544 (+) 294 WP_000347915.1 YbaB/EbfC family nucleoid-associated protein -
  C694_RS00200 (C694_00170) - 35544..36548 (+) 1005 WP_000468475.1 PDZ domain-containing protein -
  C694_RS00205 (C694_00175) comB6 36556..37611 (+) 1056 WP_000786660.1 P-type conjugative transfer protein TrbL Machinery gene
  C694_RS08725 - 37627..37741 (+) 115 Protein_33 comB7 lipoprotein -
  C694_RS00215 (C694_00180) comB8 37738..38475 (+) 738 WP_000660509.1 type IV secretion system protein Machinery gene
  C694_RS00220 (C694_00185) comB9 38475..39452 (+) 978 WP_001862530.1 TrbG/VirB9 family P-type conjugative transfer protein Machinery gene
  C694_RS00225 (C694_00190) comB10 39445..40581 (+) 1137 WP_001045839.1 DNA type IV secretion system protein ComB10 Machinery gene
  C694_RS00230 (C694_00195) - 40651..42063 (+) 1413 WP_000694809.1 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase -

Sequence

Protein


Download         Length: 351 a.a.        Molecular weight: 39785.73 Da        Isoelectric Point: 8.3278

>NTDB_id=1220 C694_RS00205 WP_000786660.1 36556..37611(+) (comB6) [Helicobacter pylori 26695]
MKNDAYEIILSWFITPLTAILGRFAEFFLYTLHAQLVFNSVVALAFMLFAYRSLKEQNFFSASALTEALLFVGFFALFNY
ALKNPMHFYEFFQNAIFIAPNMIAQSLSQSLSNFSDHALSLDFIFNHGFYALSFISDLSHNEMSVWLFLSVLQGLFLSVL
FAIIILVYLEVHVWCSLGVLFLAFGFFKTWRSVVVICLKKCFALGFYKPFLLLVGFLNVSVTKALIDAHMQEKQDLSLLL
VVALFLCCVFIIGVPFFINALFRVQNSLKETYKLATNLSANLSQNALNSLQYITTPPASSSVSSSMSESVSKEKETHSPT
FKVETTQLDVKIPNFKQKKVKKDTINTKNEI

Nucleotide


Download         Length: 1056 bp        

>NTDB_id=1220 C694_RS00205 WP_000786660.1 36556..37611(+) (comB6) [Helicobacter pylori 26695]
ATGAAAAATGACGCTTATGAAATTATTCTTTCTTGGTTTATCACGCCTCTCACGGCGATTTTAGGGCGTTTCGCTGAATT
TTTTCTCTACACTTTGCATGCGCAATTGGTGTTTAATAGCGTGGTCGCTTTGGCGTTCATGCTCTTTGCTTATAGGAGTT
TGAAAGAACAGAATTTCTTCAGCGCTAGCGCGCTAACAGAAGCGTTATTGTTTGTGGGGTTTTTTGCACTTTTCAACTAC
GCTTTAAAAAATCCCATGCATTTTTATGAATTTTTCCAAAACGCTATTTTTATTGCGCCTAACATGATCGCGCAAAGCCT
CTCTCAAAGCTTGAGTAACTTTTCTGACCATGCGCTTTCTTTAGATTTTATCTTTAATCATGGTTTTTATGCCCTTAGTT
TCATCAGCGATTTGAGCCATAATGAAATGTCTGTGTGGCTTTTTTTAAGCGTTTTGCAAGGGCTTTTTTTGAGCGTGCTG
TTTGCAATCATCATTTTAGTGTATTTAGAAGTGCATGTGTGGTGCTCTTTAGGGGTGCTGTTTTTAGCGTTTGGGTTTTT
TAAAACCTGGAGGAGCGTTGTGGTTATATGCCTAAAAAAGTGCTTCGCTCTTGGGTTTTACAAGCCTTTTTTGTTGTTGG
TAGGGTTTTTGAATGTGTCGGTTACTAAGGCTTTAATAGACGCTCATATGCAAGAAAAACAAGACTTAAGCCTTTTATTG
GTGGTAGCGTTATTTTTGTGTTGCGTTTTTATCATCGGCGTGCCTTTTTTCATCAACGCTTTGTTTAGGGTGCAAAACAG
CCTTAAAGAAACTTACAAACTCGCCACCAATTTGAGTGCCAACCTCAGCCAAAACGCCCTTAATTCCTTACAATACATCA
CGACCCCACCCGCTTCTTCTAGCGTTTCTTCTTCTATGAGTGAAAGCGTCTCTAAAGAAAAAGAAACGCATTCCCCCACA
TTTAAGGTAGAAACCACTCAATTAGATGTAAAAATCCCAAATTTCAAGCAAAAAAAGGTTAAAAAGGATACAATAAATAC
AAAAAATGAAATTTAA

Domains

Predicted by InterproScan.

TrbL/VirB6 plasmid conjugal transfer protein (TrbL)

(44-254)


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

References

[1] Christopher Corbinais et al. (2017) ComB proteins expression levels determine Helicobacter pylori competence capacity. Scientific Reports 7:41495. [PMID: 28128333]
[2] Arno Karnholz et al. (2006) Functional and topological characterization of novel components of the comB DNA transformation competence system in Helicobacter pylori. Journal of Bacteriology 188(3):882-93. [PMID: 16428391]