Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HPATCC43504_RS01915 Genome accession   NZ_AP017632
Coordinates   404920..407289 (+) Length   789 a.a.
NCBI ID   WP_253809749.1    Uniprot ID   -
Organism   Helicobacter pylori strain ATCC 43504     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 399920..412289
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPATCC43504_RS01885 (HPPMSS1_RS02005) - 400104..401640 (-) 1537 Protein_371 DUF262 domain-containing protein -
  HPATCC43504_RS01890 (HPATCC43504_00385) - 401685..402464 (+) 780 WP_108169666.1 hypothetical protein -
  HPATCC43504_RS01895 (HPATCC43504_00386) - 402484..402777 (+) 294 WP_108169667.1 hypothetical protein -
  HPATCC43504_RS01900 (HPATCC43504_00387) - 402784..404307 (+) 1524 WP_108169668.1 hypothetical protein -
  HPATCC43504_RS01905 (HPATCC43504_00388) - 404304..404606 (+) 303 WP_108169669.1 virB2 type IV secretion protein -
  HPATCC43504_RS01910 (HPATCC43504_00389) comB3 404607..404873 (+) 267 WP_001173702.1 hypothetical protein Machinery gene
  HPATCC43504_RS01915 (HPATCC43504_00390) comB4 404920..407289 (+) 2370 WP_253809749.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HPATCC43504_RS01920 (HPATCC43504_00391) - 407292..409325 (+) 2034 WP_108169671.1 type IA DNA topoisomerase -
  HPATCC43504_RS01925 (HPATCC43504_00392) - 409442..410611 (+) 1170 WP_108169672.1 VirB8/TrbF family protein -
  HPATCC43504_RS01930 (HPATCC43504_00393) - 410611..412143 (+) 1533 WP_108169673.1 TrbG/VirB9 family P-type conjugative transfer protein -

Sequence

Protein


Download         Length: 789 a.a.        Molecular weight: 91223.65 Da        Isoelectric Point: 7.3292

>NTDB_id=57398 HPATCC43504_RS01915 WP_253809749.1 404920..407289(+) (comB4) [Helicobacter pylori strain ATCC 43504]
MKEETNIVGIYNEHYLLSEKSNLVGALKLEGISYLSLDDKEIAQKFNERILALNEIVDGVHFKIVARRRKIFMHHEYTQE
EISNPFALEVINLWEQGVEDVYQNFYYLIFETKNDSIKGYLERFKKKITTNELENIQENNKQDEVKYQENYFIGFDNFNL
LDKSKILDSIINNVKNMLSSLFVEKIDANSLLNFYAEYINGVPSEYTFARGRLHDGMINSDVHFKKDFFTHIHNGKEIFK
RFISIKTYDIDKIVSTALSSVLHLSLEFDVILNIDNIPKAKAEKRIETKRKRANKIIRVEIDELNDLIKTDRVLMQEISL
NILVHAKTKTDLDSACIEITNLLKQKGIVSTQESIGMLLMFFSFFPNRNRLNFRKRLLSSQNIASLIILEKQNCGFSRNS
WGDRHLTIFRNQDKSPYLFNFHAYEAKRKNDMVSGHTIIFGGTGAGKTTLIEFLITNCFKYEDLSILALDRNNGMRVMTE
FLDGQYNDSNDFYINPFSLKDTSANCTFLVSWLAFMLNIDEDTKDEKEKKTLSALSKTIRVCYNNITKQGGAIFKLRDFK
DTLEIDYLDSKDILEKESSKDLYKHSNDCLDFAKKLSVIDMDALSSSKKDFNLAVLYLFYKVMNRAKLENKPFYIFIDEA
KSVIENPIMLAKIKDTLAQARKLNGVLTLAFQDINQLDGVEGAKSIIENAAQVILYPTNNFEKLESYGILLSPIEKSFLN
KTPLNARQVLVKNLLTQSSVFLEINLEKLNSTSKKFLRAYNSSASSVFELETLKKDNPKDYKEVYLTKE

Nucleotide


Download         Length: 2370 bp        

>NTDB_id=57398 HPATCC43504_RS01915 WP_253809749.1 404920..407289(+) (comB4) [Helicobacter pylori strain ATCC 43504]
ATGAAAGAAGAAACTAACATTGTTGGCATTTATAATGAGCATTATCTTTTAAGTGAAAAATCAAACCTTGTAGGCGCTCT
TAAATTAGAGGGAATTTCTTATTTGTCTTTAGATGACAAAGAAATAGCGCAAAAATTTAATGAACGCATTTTAGCTCTTA
ATGAGATTGTAGATGGAGTGCATTTTAAAATTGTAGCTAGAAGGCGTAAGATTTTCATGCACCATGAATATACTCAAGAG
GAGATAAGCAATCCTTTTGCATTAGAGGTTATCAATTTATGGGAGCAGGGGGTTGAGGATGTTTATCAAAATTTCTATTA
CTTAATTTTTGAAACTAAGAATGATAGCATTAAAGGTTATTTGGAACGATTTAAGAAAAAAATCACTACCAATGAATTAG
AAAATATTCAAGAAAATAATAAACAAGATGAAGTTAAATATCAAGAAAACTATTTCATAGGCTTTGATAATTTTAATTTA
TTAGATAAATCTAAAATATTAGACAGCATTATCAATAATGTTAAAAACATGCTTTCTAGCTTATTTGTAGAAAAAATAGA
TGCTAATAGTTTGCTTAATTTTTATGCAGAATATATCAATGGTGTTCCTAGTGAATACACTTTCGCTAGAGGTCGTTTGC
ATGATGGCATGATCAATTCTGATGTGCATTTTAAAAAAGATTTTTTCACTCACATTCATAATGGTAAAGAGATTTTCAAG
CGTTTCATCAGCATTAAGACTTATGATATAGACAAAATTGTCAGCACTGCTCTTTCTTCAGTGTTGCATTTATCTTTAGA
ATTTGATGTGATTTTAAACATTGACAACATTCCTAAAGCAAAGGCTGAAAAAAGGATTGAAACTAAAAGAAAAAGAGCGA
ATAAGATCATTAGAGTTGAAATTGATGAATTGAATGACCTTATTAAAACAGACAGAGTTTTGATGCAAGAGATTTCTTTA
AACATTTTAGTTCATGCCAAAACTAAAACCGATTTAGATAGTGCTTGTATAGAAATTACCAACTTGCTTAAACAAAAAGG
TATTGTAAGCACACAAGAGAGTATTGGCATGTTGCTTATGTTTTTTAGCTTTTTCCCCAATCGTAATCGCTTGAATTTTA
GAAAGCGTTTGTTGTCTAGTCAAAACATTGCTTCTTTAATTATATTGGAAAAACAAAATTGTGGTTTTTCTAGAAATTCA
TGGGGTGATCGCCATTTAACTATTTTTAGAAACCAAGACAAATCGCCTTATTTATTCAATTTCCATGCTTATGAGGCAAA
AAGAAAAAATGATATGGTATCAGGGCATACCATCATCTTTGGTGGCACAGGGGCGGGTAAAACCACTTTAATTGAATTTT
TGATCACCAATTGTTTTAAGTATGAAGATTTAAGTATTTTGGCTTTAGACAGAAATAATGGCATGCGTGTGATGACTGAG
TTTTTAGATGGTCAATACAACGATAGCAATGACTTCTACATTAATCCGTTTTCTTTAAAAGACACAAGCGCTAACTGCAC
CTTTTTAGTGAGTTGGTTGGCATTCATGCTCAATATTGATGAAGATACCAAAGATGAAAAAGAAAAAAAGACTTTAAGCG
CTTTATCCAAAACAATCAGAGTTTGCTATAACAATATCACAAAACAAGGGGGTGCTATTTTTAAGTTAAGAGATTTTAAA
GACACCCTAGAAATAGACTATTTAGATAGCAAGGACATTTTAGAAAAAGAGAGTTCAAAAGACTTATACAAGCATTCTAA
TGATTGTTTAGACTTTGCTAAAAAGCTTTCTGTTATTGATATGGATGCTCTTTCTAGTAGTAAAAAAGATTTCAACTTGG
CAGTGCTATACCTATTCTACAAAGTCATGAATAGAGCTAAATTAGAAAACAAGCCTTTTTATATATTCATTGATGAAGCA
AAATCTGTTATTGAAAATCCCATCATGTTAGCTAAAATCAAAGACACACTCGCTCAAGCTAGAAAACTCAATGGGGTTTT
AACTTTAGCCTTTCAAGACATTAACCAACTTGATGGCGTAGAGGGAGCAAAGTCCATTATAGAAAACGCCGCTCAAGTCA
TACTCTATCCTACAAACAATTTTGAGAAATTAGAGAGCTATGGCATTTTATTAAGTCCTATTGAAAAATCCTTTTTAAAC
AAAACGCCGTTAAACGCTAGGCAAGTATTAGTGAAAAACCTTCTCACTCAATCTAGCGTATTTTTAGAAATCAATTTAGA
AAAGCTAAACAGCACCAGTAAAAAATTTTTACGAGCGTATAACTCTAGCGCGTCTAGCGTTTTTGAACTAGAAACGCTTA
AAAAGGATAATCCAAAGGATTATAAAGAAGTTTACTTGACAAAGGAGTAG

Domains

Predicted by InterProScan.

Helicase HerA, central domain (DUF87)

(430-472)

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

(632-706)

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

(176-374)


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

35.985

100

0.361

Multiple sequence alignment