Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   U063_RS06640 Genome accession   NC_022886
Coordinates   1350536..1352905 (-) Length   789 a.a.
NCBI ID   WP_023592496.1    Uniprot ID   -
Organism   Helicobacter pylori BM012A     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1345536..1357905
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U063_RS06610 (U063_1325) - 1345915..1347174 (+) 1260 WP_023591540.1 RNA-guided endonuclease TnpB family protein -
  U063_RS06615 (U063_1326) - 1347270..1347548 (+) 279 WP_023592491.1 hypothetical protein -
  U063_RS06620 (U063_1327) - 1347550..1348812 (+) 1263 WP_023592492.1 type IV secretion system protein -
  U063_RS06625 (U063_1328) - 1348885..1349568 (+) 684 WP_038420169.1 hypothetical protein -
  U063_RS06630 (U063_1329) - 1349650..1349901 (-) 252 Protein_1275 tyrosine-type recombinase/integrase -
  U063_RS06635 (U063_1330) - 1349898..1350533 (-) 636 Protein_1276 toprim domain-containing protein -
  U063_RS06640 (U063_1331) comB4 1350536..1352905 (-) 2370 WP_023592496.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  U063_RS06645 comB3 1352952..1353218 (-) 267 WP_038420173.1 hypothetical protein Machinery gene
  U063_RS06650 (U063_1333) - 1353219..1353521 (-) 303 WP_000850076.1 hypothetical protein -
  U063_RS06655 (U063_1334) - 1353518..1355041 (-) 1524 WP_023592498.1 hypothetical protein -
  U063_RS06660 (U063_1335) - 1355047..1355340 (-) 294 WP_023592499.1 hypothetical protein -
  U063_RS06665 (U063_1336) - 1355359..1356138 (-) 780 WP_023592500.1 hypothetical protein -

Sequence

Protein


Download         Length: 789 a.a.        Molecular weight: 91265.65 Da        Isoelectric Point: 7.5316

>NTDB_id=52811 U063_RS06640 WP_023592496.1 1350536..1352905(-) (comB4) [Helicobacter pylori BM012A]
MKEETNIVGIYNEHYLLSEKSNLVGALKLEGISYLSLDDKEIAQKFNERILALNEIVDGVHFKIVVKRRKIFMHHEYTQE
EISNPFALEVINLWEQGVEDVYQNFYYLIFETKNDSIKGYLERFKKKITTNELENIQENNRQDEVKYQENYFIGFDNFNL
LDKSKILDSIINNVKNMLSGLFVEKIDANSLLNFYAEYINGVPSEYTFARGRLHDGMINSDVHFKKDFFTHIHNGKEIFK
RFISIKTYDIDKIVSTALSSVLHLSLEFDVILNIDNIPKAKAEKRIETKRKRANKSIRVEIDELNDLIKTDRVLMQEISL
NILVHAKTKTDLDSACIEITNLLKQKGIVSTQESIGMLPMFFSFFPNRNRLNFRKRLLSSQNIASLIILEKQNCGFSRNS
WGDRHLTIFRNQDKSPYLFNFHAYEAKRKNDMVSGHTIIFGGTGAGKTTLIEFLITNCFKYEDLSILALDRNNGMRVMTE
FLDGQYNDSNDFYINPFSLKDTSANCTFLVSWLAFMLNIDEDTKDEKEKKTLSALSKTIRVCYNNITKQGGAIFKLRDFK
DTLERDYLDSKDILEKESSKDLYKHSTDCLDFAKKLSVIDMDALSSSKKDFNLAVLYLFYKVMNRAKLENKPFYIFIDEA
KSVIENPIMLAKIKDTLAQARKLNGILTLAFQDINQLDGVEGAKSIIENAAQVILYPTNNFEKLESYGILLSPIEKSFLN
KTPLNARQVLVKNLLTQSSVFLEINLERLNSTSKKFLRAYNSSASSVFELETLKKDNPKDYKEIYLTKE

Nucleotide


Download         Length: 2370 bp        

>NTDB_id=52811 U063_RS06640 WP_023592496.1 1350536..1352905(-) (comB4) [Helicobacter pylori BM012A]
ATGAAAGAAGAAACTAACATTGTGGGCATTTACAATGAGCATTATCTTTTAAGTGAAAAATCAAACCTTGTAGGCGCTCT
TAAATTAGAGGGAATTTCTTATTTGTCTTTAGATGACAAAGAAATAGCGCAAAAATTTAATGAACGCATTTTAGCTCTTA
ATGAGATTGTAGATGGAGTGCATTTTAAAATCGTAGTTAAAAGGCGTAAGATTTTCATGCACCATGAATATACTCAAGAG
GAGATAAGCAATCCTTTTGCATTAGAGGTTATCAATTTATGGGAGCAGGGAGTTGAGGATGTTTATCAAAATTTCTATTA
CTTAATTTTTGAAACTAAGAATGATAGCATTAAAGGTTATTTGGAACGATTTAAGAAAAAAATCACTACCAATGAATTAG
AAAATATTCAAGAAAATAATAGACAAGATGAAGTTAAATATCAAGAAAACTATTTCATAGGCTTTGATAATTTTAATCTA
TTAGATAAATCTAAAATATTAGACAGCATTATCAATAATGTTAAAAACATGCTTTCTGGCTTGTTTGTAGAAAAAATAGA
TGCCAATAGTTTGCTTAATTTTTATGCTGAATATATCAATGGTGTTCCTAGTGAATACACTTTTGCTAGAGGTCGTTTGC
ATGATGGAATGATCAATTCTGATGTGCATTTTAAAAAAGATTTTTTCACTCACATTCATAATGGTAAGGAGATTTTCAAG
CGTTTCATCAGCATTAAGACTTATGATATAGACAAAATTGTCAGCACTGCTCTTTCTTCAGTGTTGCATTTATCTTTAGA
ATTTGATGTGATTTTAAACATTGACAATATTCCTAAAGCAAAGGCTGAAAAAAGGATTGAAACTAAAAGAAAAAGAGCGA
ATAAGAGCATTAGAGTTGAAATTGATGAATTGAATGACCTTATTAAAACAGACAGAGTTTTGATGCAAGAGATTTCTTTA
AACATTTTAGTTCATGCCAAAACTAAAACTGATTTAGATAGTGCTTGTATAGAAATTACCAATTTGCTTAAACAAAAAGG
TATTGTAAGCACACAAGAGAGTATTGGCATGTTGCCTATGTTTTTTAGCTTTTTCCCCAATCGTAATCGCTTGAATTTTA
GAAAGCGTTTGTTGTCTAGTCAAAATATTGCTTCTTTAATCATATTGGAAAAACAAAATTGTGGTTTTTCTAGAAATTCA
TGGGGTGATCGCCATTTGACTATTTTTAGAAACCAAGACAAATCGCCTTATTTATTCAATTTCCATGCTTATGAGGCAAA
AAGAAAAAATGATATGGTATCAGGGCATACCATCATCTTTGGTGGCACAGGGGCTGGTAAAACCACTTTAATTGAATTTT
TAATCACCAATTGTTTTAAGTATGAAGATTTAAGTATTTTGGCTTTAGACAGAAATAATGGCATGCGTGTGATGACTGAG
TTTTTAGATGGTCAATACAACGATAGCAATGATTTCTACATTAATCCGTTTTCTTTAAAAGATACAAGCGCTAATTGCAC
CTTTTTAGTGAGTTGGTTGGCATTCATGCTCAATATTGATGAAGATACTAAAGATGAAAAAGAAAAAAAGACTTTAAGCG
CTTTATCCAAAACAATCAGAGTTTGCTATAACAATATCACAAAACAAGGGGGTGCTATTTTTAAGTTAAGAGATTTTAAA
GACACGCTAGAAAGAGACTATTTAGATAGCAAAGACATTTTAGAAAAAGAGAGCTCAAAAGACTTATACAAGCATTCTAC
TGATTGTTTAGACTTTGCTAAAAAGCTTTCTGTTATTGATATGGATGCTCTTTCTAGTAGTAAAAAAGATTTCAACTTGG
CAGTGCTATACCTATTCTACAAAGTCATGAATAGAGCTAAATTAGAAAACAAGCCTTTTTATATATTCATTGATGAAGCA
AAATCTGTTATTGAAAATCCCATCATGTTAGCTAAAATCAAAGACACACTCGCTCAAGCTAGAAAACTCAATGGGATTTT
AACTTTAGCCTTTCAAGACATTAACCAACTTGATGGCGTAGAGGGGGCGAAGTCTATTATAGAAAACGCCGCTCAAGTCA
TACTCTATCCTACAAACAATTTTGAGAAATTAGAGAGCTATGGCATTTTATTAAGTCCTATTGAAAAATCCTTTTTAAAC
AAAACGCCGTTAAACGCTAGGCAAGTATTAGTGAAAAACCTTCTCACTCAATCTAGCGTATTTTTAGAAATCAATTTAGA
AAGGCTAAACAGCACCAGTAAAAAATTTTTAAGAGCGTATAACTCTAGCGCGTCTAGCGTTTTTGAACTGGAAACGCTTA
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

36.226

100

0.365

Multiple sequence alignment