Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HP1CH_RS02275 Genome accession   NZ_AP013355
Coordinates   459218..461587 (-) Length   789 a.a.
NCBI ID   WP_229311984.1    Uniprot ID   -
Organism   Helicobacter pylori 26695-1CH     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 454218..466587
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HP1CH_RS02260 - 454713..455996 (+) 1284 WP_000930565.1 RNA-guided endonuclease InsQ/TnpB family protein -
  HP1CH_RS02265 - 455965..457065 (-) 1101 WP_000044730.1 type IV secretion system protein -
  HP1CH_RS02270 - 457182..459215 (-) 2034 WP_000655392.1 type IA DNA topoisomerase -
  HP1CH_RS02275 comB4 459218..461587 (-) 2370 WP_229311984.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HP1CH_RS02280 comB3 461634..461900 (-) 267 WP_001173702.1 hypothetical protein Machinery gene
  HP1CH_RS02285 - 461901..462203 (-) 303 WP_000850076.1 hypothetical protein -
  HP1CH_RS02290 - 462200..463723 (-) 1524 WP_000323332.1 hypothetical protein -
  HP1CH_RS02295 - 463730..464023 (-) 294 WP_001160324.1 hypothetical protein -
  HP1CH_RS02300 - 464042..464821 (-) 780 WP_001158055.1 hypothetical protein -
  HP1CH_RS02305 - 464866..466011 (+) 1146 WP_001862501.1 DEAD/DEAH box helicase family protein -
  HP1CH_RS02310 - 466008..466394 (+) 387 WP_000691910.1 hypothetical protein -

Sequence

Protein


Download         Length: 789 a.a.        Molecular weight: 91246.70 Da        Isoelectric Point: 7.5309

>NTDB_id=55223 HP1CH_RS02275 WP_229311984.1 459218..461587(-) (comB4) [Helicobacter pylori 26695-1CH]
MKEETNIVGIYNEHYLLSEKSNLVGALKLEGISYLSLDDKEIAQKFNERILALNEIVDGVHFKIVVKRRKIFMHHEYTQE
EISNPFALEVINLWEQGVEDVYQNFYYLIFETKNDSIKGYLERFKKKITTNELENIQENNRQDEVKYQENYFIGFDNFNL
LDKSKILYSIINNVKNMLSGLFVEKIDANSLLNFYAEYINGVPSEYTFARGRLHDGMINSDVHFKKDFFTHIHNGKEIFK
RFISIKTYDIDKIVSTALSSVLHLSLEFDVILNIDNIPKAKAEKRIETKRKRANKSIRVEIDELNDMIKTDRVLMQEISL
NILVHAKTKTDLDSACIEITNLLKQKGIVSTQESIGMLPMFFSFFPNRNRLNFRKRLLSSQNIASLIILEKQNCGFSRNS
WGDRHLTIFRNQDKSPYLFNFHAYEAKRKNDMVSGHTIIFGGTGAGKTTLIEFLITNCFKYEDLSILALDRNNGMRVMTE
FLDGQYNDSNDFYINPFSLKDTSANCTFLVSWLAFMLNIDEDTKDEKEKKTLSALSKTIRVCYNNITKQGGAIFKLRDFK
DTLEIDYLDSKDILEKESSKDLYKHSTDCLDFAKKLSVIDMDALSSSKKDFNLAVLYLFYKVMNRAKLENKPFYIFIDEA
KSVIENPIMLAKIKDTLAQARKLNGVLTLAFQDINQLDGVEGAKSIIENAAQVILYPTNNFEKLESYGILLSPIEKSFLN
KTPLNARQVLVKNLLTQSSVFLEINLEKLNSTSKKFLRAYNSSASSVFELETLKKDNPKDYKEIYLTKE

Nucleotide


Download         Length: 2370 bp        

>NTDB_id=55223 HP1CH_RS02275 WP_229311984.1 459218..461587(-) (comB4) [Helicobacter pylori 26695-1CH]
ATGAAAGAAGAAACTAACATTGTGGGTATTTACAATGAGCATTATCTTTTAAGTGAAAAATCAAACCTTGTAGGCGCTCT
TAAATTAGAGGGAATTTCTTATTTGTCTTTAGATGACAAAGAAATAGCGCAAAAATTTAATGAACGCATTTTAGCTCTTA
ATGAGATTGTAGATGGAGTGCATTTTAAAATCGTAGTTAAAAGGCGTAAGATTTTCATGCACCATGAATATACTCAAGAG
GAGATAAGCAATCCTTTTGCATTAGAGGTTATCAATTTATGGGAGCAGGGGGTTGAGGATGTTTATCAAAATTTCTATTA
CTTAATTTTTGAAACTAAGAATGATAGCATTAAAGGTTATTTGGAACGATTTAAGAAAAAAATCACTACCAATGAATTAG
AAAATATTCAAGAAAATAATAGACAAGATGAAGTTAAATATCAAGAAAACTATTTCATAGGCTTTGATAATTTTAATCTA
TTAGATAAATCTAAAATATTATACAGCATTATCAATAATGTTAAAAACATGCTTTCTGGCTTGTTTGTAGAAAAAATAGA
TGCCAATAGTTTGCTTAATTTTTATGCTGAATATATCAATGGTGTTCCTAGTGAATACACTTTTGCTAGAGGTCGTTTGC
ATGATGGCATGATCAATTCTGATGTGCATTTTAAAAAAGATTTTTTCACTCACATTCATAATGGTAAGGAGATTTTCAAG
CGTTTCATCAGCATTAAGACTTATGATATAGACAAAATTGTCAGCACTGCTCTTTCTTCAGTGTTGCATTTATCTTTAGA
ATTTGATGTGATTTTAAACATTGACAATATTCCTAAAGCAAAGGCTGAAAAAAGGATTGAAACTAAAAGAAAAAGAGCGA
ATAAGAGCATTAGAGTTGAAATTGATGAATTGAATGACATGATTAAAACAGACAGAGTTTTGATGCAGGAGATTTCTTTA
AACATTTTAGTTCATGCCAAAACTAAAACCGATTTAGATAGTGCTTGTATAGAAATTACCAACTTGCTTAAACAAAAAGG
TATTGTAAGCACACAAGAGAGTATTGGCATGTTGCCTATGTTTTTTAGCTTTTTCCCCAATCGTAATCGCTTGAATTTTA
GAAAGCGTTTATTGTCTAGTCAAAATATTGCTTCTTTAATCATATTGGAAAAACAAAATTGTGGTTTTTCTAGAAATTCA
TGGGGTGATCGCCATTTGACTATTTTTAGAAACCAAGACAAATCGCCTTATTTATTCAATTTCCATGCTTATGAGGCAAA
AAGAAAAAATGATATGGTATCAGGGCATACCATCATCTTTGGTGGCACAGGGGCTGGTAAAACCACTTTAATTGAATTTT
TAATCACCAATTGTTTTAAGTATGAAGATTTAAGTATTTTGGCTTTAGACAGAAATAATGGCATGCGTGTGATGACTGAG
TTTTTAGATGGTCAATACAACGATAGCAATGATTTCTACATTAATCCGTTTTCTTTAAAAGATACAAGCGCTAATTGCAC
CTTTTTAGTGAGTTGGTTGGCATTCATGCTCAATATTGATGAAGATACTAAAGATGAAAAAGAAAAAAAGACTTTAAGCG
CTTTATCCAAAACAATCAGAGTTTGCTATAACAATATCACAAAACAAGGGGGTGCTATTTTCAAGTTAAGAGATTTTAAA
GACACGCTAGAAATAGACTATTTAGATAGCAAAGACATTTTAGAAAAAGAGAGTTCAAAAGACTTATACAAGCATTCTAC
TGATTGTTTAGACTTTGCTAAAAAGCTTTCTGTTATTGATATGGATGCTCTTTCTAGCAGTAAAAAAGATTTCAACTTGG
CAGTGCTATACCTATTCTACAAAGTCATGAATAGAGCTAAATTAGAAAACAAGCCTTTTTATATCTTCATTGATGAAGCA
AAATCTGTTATTGAAAATCCCATCATGTTAGCTAAAATCAAAGACACACTCGCTCAAGCTAGAAAGCTTAATGGGGTTTT
AACTTTAGCCTTTCAAGACATTAACCAACTTGATGGCGTAGAGGGAGCAAAGTCCATTATAGAAAACGCCGCTCAAGTCA
TACTCTATCCTACAAACAATTTTGAGAAATTAGAGAGCTATGGCATTTTATTAAGTCCTATTGAAAAATCCTTTTTAAAC
AAAACGCCGTTAAACGCTAGGCAAGTATTAGTGAAAAACCTTCTCACTCAATCTAGCGTATTTTTAGAAATCAATTTAGA
AAAGCTAAACAGCACCAGTAAAAAATTTTTAAGAGCGTATAACTCTAGCGCGTCTAGCGTTTTTGAACTGGAAACGCTTA
AAAAGGATAATCCAAAGGATTATAAAGAAATTTACTTGACAAAGGAGTAG

Domains

Predicted by InterProScan.

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

(632-706)

Helicase HerA, central domain (DUF87)

(430-472)

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

36.101

100

0.364

Multiple sequence alignment