Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   NCTC11637_00402 Genome accession   LS483488
Coordinates   404888..407311 (+) Length   807 a.a.
NCBI ID   SQJ03279.1    Uniprot ID   -
Organism   Helicobacter pylori NCTC 11637 = CCUG 17874 = ATCC 43504 = JCM 12093 strain NCTC 11637     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 399888..412311
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NCTC11637_00395 - 400126..400677 (-) 552 SQJ03266.1 Protein of uncharacterised function (DUF1524) -
  NCTC11637_00396 - 400733..401662 (-) 930 SQJ03268.1 RloF -
  NCTC11637_00397 - 401707..402486 (+) 780 SQJ03269.1 PZ1b protein -
  NCTC11637_00398 - 402506..402799 (+) 294 SQJ03271.1 PZ2b protein -
  NCTC11637_00399 - 402806..404329 (+) 1524 SQJ03273.1 Uncharacterised protein -
  NCTC11637_00400 virB2-1 404353..404628 (+) 276 SQJ03275.1 VirB2 type IV secretion protein -
  NCTC11637_00401 comB3 404629..404895 (+) 267 SQJ03277.1 VirB3 type IV secretion protein Machinery gene
  NCTC11637_00402 comB4 404888..407311 (+) 2424 SQJ03279.1 VirB4-like protein Machinery gene
  NCTC11637_00403 topA_4 407314..409347 (+) 2034 SQJ03281.1 DNA topoisomerase I (topA) -
  NCTC11637_00404 virB8-1 409464..410633 (+) 1170 SQJ03283.1 VirB8 type IV secretion protein -
  NCTC11637_00405 - 410633..412165 (+) 1533 SQJ03284.1 VirB9 type IV secretion protein -

Sequence

Protein


Download         Length: 807 a.a.        Molecular weight: 93321.21 Da        Isoelectric Point: 7.7201

>NTDB_id=20759 NCTC11637_00402 SQJ03279.1 404888..407311(+) (comB4) [Helicobacter pylori NCTC 11637 = CCUG 17874 = ATCC 43504 = JCM 12093 strain NCTC 11637]
MLEKIFTSLCSLVPKRYSMKEETNIVGIYNEHYLLSEKSNLVGALKLEGISYLSLDDKEIAQKFNERILALNEIVDGVHF
KIVARRRKIFMHHEYTQEEISNPFALEVINLWEQGVEDVYQNFYYLIFETKNDSIKGYLERFKKKITTNELENIQENNKQ
DEVKYQENYFIGFDNFNLLDKSKILDSIINNVKNMLSSLFVEKIDANSLLNFYAEYINGVPSEYTFARGRLHDGMINSDV
HFKKDFFTHIHNGKEIFKRFISIKTYDIDKIVSTALSSVLHLSLEFDVILNIDNIPKAKAEKRIETKRKRANKIIRVEID
ELNDLIKTDRVLMQEISLNILVHAKTKTDLDSACIEITNLLKQKGIVSTQESIGMLLMFFSFFPNRNRLNFRKRLLSSQN
IASLIILEKQNCGFSRNSWGDRHLTIFRNQDKSPYLFNFHAYEAKRKNDMVSGHTIIFGGTGAGKTTLIEFLITNCFKYE
DLSILALDRNNGMRVMTEFLDGQYNDSNDFYINPFSLKDTSANCTFLVSWLAFMLNIDEDTKDEKEKKTLSALSKTIRVC
YNNITKQGGAIFKLRDFKDTLEIDYLDSKDILEKESSKDLYKHSNDCLDFAKKLSVIDMDALSSSKKDFNLAVLYLFYKV
MNRAKLENKPFYIFIDEAKSVIENPIMLAKIKDTLAQARKLNGVLTLAFQDINQLDGVEGAKSIIENAAQVILYPTNNFE
KLESYGILLSPIEKSFLNKTPLNARQVLVKNLLTQSSVFLEINLEKLNSTSKKFLRAYNSSASSVFELETLKKDNPKDYK
EVYLTKE

Nucleotide


Download         Length: 2424 bp        

>NTDB_id=20759 NCTC11637_00402 SQJ03279.1 404888..407311(+) (comB4) [Helicobacter pylori NCTC 11637 = CCUG 17874 = ATCC 43504 = JCM 12093 strain NCTC 11637]
ATGCTTGAGAAAATTTTCACTTCTTTATGCTCGCTAGTTCCTAAGCGTTATAGCATGAAAGAAGAAACTAACATTGTTGG
CATTTATAATGAGCATTATCTTTTAAGTGAAAAATCAAACCTTGTAGGCGCTCTTAAATTAGAGGGAATTTCTTATTTGT
CTTTAGATGACAAAGAAATAGCGCAAAAATTTAATGAACGCATTTTAGCTCTTAATGAGATTGTAGATGGAGTGCATTTT
AAAATTGTAGCTAGAAGGCGTAAGATTTTCATGCACCATGAATATACTCAAGAGGAGATAAGCAATCCTTTTGCATTAGA
GGTTATCAATTTATGGGAGCAGGGGGTTGAGGATGTTTATCAAAATTTCTATTACTTAATTTTTGAAACTAAGAATGATA
GCATTAAAGGTTATTTGGAACGATTTAAGAAAAAAATCACTACCAATGAATTAGAAAATATTCAAGAAAATAATAAACAA
GATGAAGTTAAATATCAAGAAAACTATTTCATAGGCTTTGATAATTTTAATTTATTAGATAAATCTAAAATATTAGACAG
CATTATCAATAATGTTAAAAACATGCTTTCTAGCTTATTTGTAGAAAAAATAGATGCTAATAGTTTGCTTAATTTTTATG
CAGAATATATCAATGGTGTTCCTAGTGAATACACTTTCGCTAGAGGTCGTTTGCATGATGGCATGATCAATTCTGATGTG
CATTTTAAAAAAGATTTTTTCACTCACATTCATAATGGTAAAGAGATTTTCAAGCGTTTCATCAGCATTAAGACTTATGA
TATAGACAAAATTGTCAGCACTGCTCTTTCTTCAGTGTTGCATTTATCTTTAGAATTTGATGTGATTTTAAACATTGACA
ACATTCCTAAAGCAAAGGCTGAAAAAAGGATTGAAACTAAAAGAAAAAGAGCGAATAAGATCATTAGAGTTGAAATTGAT
GAATTGAATGACCTTATTAAAACAGACAGAGTTTTGATGCAAGAGATTTCTTTAAACATTTTAGTTCATGCCAAAACTAA
AACCGATTTAGATAGTGCTTGTATAGAAATTACCAACTTGCTTAAACAAAAAGGTATTGTAAGCACACAAGAGAGTATTG
GCATGTTGCTTATGTTTTTTAGCTTTTTCCCCAATCGTAATCGCTTGAATTTTAGAAAGCGTTTGTTGTCTAGTCAAAAC
ATTGCTTCTTTAATTATATTGGAAAAACAAAATTGTGGTTTTTCTAGAAATTCATGGGGTGATCGCCATTTAACTATTTT
TAGAAACCAAGACAAATCGCCTTATTTATTCAATTTCCATGCTTATGAGGCAAAAAGAAAAAATGATATGGTATCAGGGC
ATACCATCATCTTTGGTGGCACAGGGGCGGGTAAAACCACTTTAATTGAATTTTTGATCACCAATTGTTTTAAGTATGAA
GATTTAAGTATTTTGGCTTTAGACAGAAATAATGGCATGCGTGTGATGACTGAGTTTTTAGATGGTCAATACAACGATAG
CAATGACTTCTACATTAATCCGTTTTCTTTAAAAGACACAAGCGCTAACTGCACCTTTTTAGTGAGTTGGTTGGCATTCA
TGCTCAATATTGATGAAGATACCAAAGATGAAAAAGAAAAAAAGACTTTAAGCGCTTTATCCAAAACAATCAGAGTTTGC
TATAACAATATCACAAAACAAGGGGGTGCTATTTTTAAGTTAAGAGATTTTAAAGACACCCTAGAAATAGACTATTTAGA
TAGCAAGGACATTTTAGAAAAAGAGAGTTCAAAAGACTTATACAAGCATTCTAATGATTGTTTAGACTTTGCTAAAAAGC
TTTCTGTTATTGATATGGATGCTCTTTCTAGTAGTAAAAAAGATTTCAACTTGGCAGTGCTATACCTATTCTACAAAGTC
ATGAATAGAGCTAAATTAGAAAACAAGCCTTTTTATATATTCATTGATGAAGCAAAATCTGTTATTGAAAATCCCATCAT
GTTAGCTAAAATCAAAGACACACTCGCTCAAGCTAGAAAACTCAATGGGGTTTTAACTTTAGCCTTTCAAGACATTAACC
AACTTGATGGCGTAGAGGGAGCAAAGTCCATTATAGAAAACGCCGCTCAAGTCATACTCTATCCTACAAACAATTTTGAG
AAATTAGAGAGCTATGGCATTTTATTAAGTCCTATTGAAAAATCCTTTTTAAACAAAACGCCGTTAAACGCTAGGCAAGT
ATTAGTGAAAAACCTTCTCACTCAATCTAGCGTATTTTTAGAAATCAATTTAGAAAAGCTAAACAGCACCAGTAAAAAAT
TTTTACGAGCGTATAACTCTAGCGCGTCTAGCGTTTTTGAACTAGAAACGCTTAAAAAGGATAATCCAAAGGATTATAAA
GAAGTTTACTTGACAAAGGAGTAG

Domains

Predicted by InterProScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(650-724)

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

(194-392)

Helicase HerA, central domain (DUF87)

(448-490)


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
  comB4 Helicobacter pylori 26695

35.819

100

0.363

Multiple sequence alignment