Detailed information    

experimental Experimentally validated

Overview

Name   comB4   Type   Machinery gene
Locus tag   C694_RS00105 Genome accession   NC_018939
Coordinates   14248..16611 (+) Length   787 a.a.
NCBI ID   WP_000890508.1    Uniprot ID   -
Organism   Helicobacter pylori 26695     
Function   transformation-associated type IV transport system   
DNA binding and uptake

Function

The comB4 knock-out mutant was completely defective in natural transformation competence, indicating that the virB4 homologue hp0017, now designated comB4, is part of the transformation-associated type IV system of Hp.


Genomic Context

Location: 9248..21611
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 -
  C694_RS00115 (C694_00090) cheV1 18380..19345 (+) 966 WP_000785454.1 chemotaxis protein CheV1 -
  C694_RS00120 (C694_00095) nspC 19342..20559 (+) 1218 WP_000760930.1 carboxynorspermidine decarboxylase -
  C694_RS00125 (C694_00100) lpxE 20569..21102 (-) 534 WP_229311985.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90269.80 Da        Isoelectric Point: 8.8783

>NTDB_id=1219 C694_RS00105 WP_000890508.1 14248..16611(+) (comB4) [Helicobacter pylori 26695]
MLEKLLSAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQSDSQYLQAILNQFENKEVYENQYFLVLESTHSLHGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVHKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLENLDAQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHKNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAISSAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNTKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHNFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLESLGRYLKIFNSDSSHVSKVKALQKDYPTEWREKLLRS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=1219 C694_RS00105 WP_000890508.1 14248..16611(+) (comB4) [Helicobacter pylori 26695]
ATGTTAGAAAAGCTTTTAAGCGCTATCAAACAAAAGGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTCTTGCTCACTAAAAACGAAAACTTAGTGGGCATCCTCC
GTTTAGAAGGGGTTAGCTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAGATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAATCTGATTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCACTC
ACTCTTTGCATGGCGTTTTGGAGCATAAGAAAAAATCTCTCATGCATGCTAATAGGGAAAATTTTAAGGATATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
CAAAGAGGTTTTGAATTTTTATGCGGAATACATTAATGGGTTTGATCTCCCCTTAAAACCCTTAGTAGGGGGGTATTTGA
GCGATAGCTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTACAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAAAGGATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAAACGCC
TTTAGATATTATCTTCTCTATAGAGCCTATGAGTGTGCATAAAACGCTGAGTTTTTTAAAAGAGAGGGCCAAGTTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTATTAGAATACCAAGAACTGGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGAATTTAGACGCTCAAACAAGCTTGGTTTTAGGGCTTTTATTTAAAGA
AAATTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAGGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCACTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCTTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAAGAACGCCAAAGAAATCGCCAGAGTGAATGGGCATACTTTAATCATAGGGGCTACTGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCTTTTGATAGGATGCAGGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATCTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTGG
AAGATATGAATGCGATTTCTAGCGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGCTTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACTTCATCTAACCAATTGGGTTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGATGCGTTCAACTCCAACGCTTTTTTAAATGTGATAAACCTGGATACTATCACCCAAAATCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGCTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACACTAAAATCAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCCTTGCAAGATATTTACCAATTAAGCGGGGTTAAAAACGCTCATAGTTTTTTAAGCAACATGGGGA
CTCTCATTTTGTACCCGCAAAAAAACGCTAGGGAGTTGAAACACAATTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAACGGGAGCTCTAACATGATTGATGT
GAGTTTGGAGAGTTTGGGGCGTTATTTGAAAATCTTTAATTCGGATTCTAGCCATGTGAGTAAAGTGAAAGCGTTACAAA
AAGACTACCCTACAGAGTGGCGCGAGAAACTTTTGAGGAGCTAG

Domains

Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(176-375)

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(426-466)


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] D Hofreuter et al. (2001) Natural transformation competence in Helicobacter pylori is mediated by the basic components of a type IV secretion system. Molecular Microbiology 41(2):379-91. [PMID: 11489125]