Detailed information    

experimental Experimentally validated

Overview

Name   comB3   Type   Machinery gene
Locus tag   C694_RS00100 Genome accession   NC_018939
Coordinates   13983..14246 (+) Length   87 a.a.
NCBI ID   WP_000584956.1    Uniprot ID   -
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: 8983..19246
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C694_RS00075 (C694_00050) groES 9268..9624 (-) 357 WP_000671934.1 co-chaperone GroES -
  C694_RS00080 (C694_00055) dnaG 9911..11590 (+) 1680 WP_000601638.1 DNA primase -
  C694_RS00085 (C694_00060) - 11587..12639 (+) 1053 WP_000721203.1 MnmA/TRMU family protein -
  C694_RS00090 (C694_00065) - 12728..13555 (+) 828 WP_001154906.1 DUF5718 family protein -
  C694_RS00095 (C694_00070) comB2 13702..13983 (+) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  C694_RS00100 (C694_00075) comB3 13983..14246 (+) 264 WP_000584956.1 hypothetical protein Machinery gene
  C694_RS00105 (C694_00080) comB4 14248..16611 (+) 2364 WP_000890508.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  C694_RS00110 (C694_00085) - 16932..18272 (+) 1341 WP_015056018.1 COG3014 family protein -

Sequence

Protein


Download         Length: 87 a.a.        Molecular weight: 10006.08 Da        Isoelectric Point: 9.5290

>NTDB_id=1212 C694_RS00100 WP_000584956.1 13983..14246(+) (comB3) [Helicobacter pylori 26695]
MIILSASVKNLREISVKEKFLWLNAKSYLISVFAPFILLPWIDLLSAFLLYLGFLALFSVLEFFDEDIADIIVAKSKIKT
KTKCYRA

Nucleotide


Download         Length: 264 bp        

>NTDB_id=1212 C694_RS00100 WP_000584956.1 13983..14246(+) (comB3) [Helicobacter pylori 26695]
ATGATTATCCTGTCAGCGAGCGTGAAGAATTTGCGTGAAATTTCGGTTAAAGAAAAATTTTTATGGCTGAACGCTAAGTC
TTATTTGATTTCTGTTTTTGCGCCTTTTATCTTGCTCCCTTGGATTGATTTGTTGAGCGCTTTTTTATTGTATTTAGGGT
TTTTAGCGCTCTTTAGCGTGCTGGAATTTTTTGATGAAGACATTGCAGATATTATCGTGGCTAAAAGCAAAATAAAGACT
AAAACCAAATGTTATAGAGCGTAG

Domains


No domain identified.



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] 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]
[2] Tzu-Lung Lin et al. (2006) Isolation and characterization of a competence operon associated with transformation and adhesion in Helicobacter pylori. Microbes And Infection 8(12-13):2756-65. [PMID: 17045509]
[3] L C Smeets et al. (2000) The dprA gene is required for natural transformation of Helicobacter pylori. FEMS Immunology And Medical Microbiology 27(2):99-102. [PMID: 10640603]