Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HG583_RS02555 Genome accession   NZ_CP051533
Coordinates   526187..528556 (+) Length   789 a.a.
NCBI ID   WP_237389114.1    Uniprot ID   -
Organism   Helicobacter pylori strain LIM-010     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 521187..533556
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HG583_RS02530 (HG583_02515) - 522953..523732 (+) 780 WP_078243762.1 hypothetical protein -
  HG583_RS02535 (HG583_02520) - 523751..524044 (+) 294 WP_202143254.1 hypothetical protein -
  HG583_RS02540 (HG583_02525) - 524051..525574 (+) 1524 WP_078243764.1 hypothetical protein -
  HG583_RS02545 (HG583_02530) - 525571..525873 (+) 303 WP_077656509.1 virB2 type IV secretion protein -
  HG583_RS02550 (HG583_02535) comB3 525874..526140 (+) 267 WP_077656508.1 virB3 type IV secretion protein Machinery gene
  HG583_RS02555 (HG583_02540) comB4 526187..528556 (+) 2370 WP_237389114.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HG583_RS02560 (HG583_02545) - 528559..530592 (+) 2034 WP_078243766.1 type IA DNA topoisomerase -
  HG583_RS02565 (HG583_02550) - 530709..531878 (+) 1170 WP_078243767.1 VirB8/TrbF family protein -
  HG583_RS02570 (HG583_02555) - 531878..533413 (+) 1536 WP_202143255.1 TrbG/VirB9 family P-type conjugative transfer protein -

Sequence

Protein


Download         Length: 789 a.a.        Molecular weight: 91156.45 Da        Isoelectric Point: 7.3034

>NTDB_id=385186 HG583_RS02555 WP_237389114.1 526187..528556(+) (comB4) [Helicobacter pylori strain LIM-010]
MKEETNIVGIYNEHYLLSEKSNLVGALKLEGISYLSLDDKEIAQKFNERILALNEIVDGVHFKIVAKRRKIFMHHEYTQE
EISNPFALEVINLWEQGVEDVYQNFYYLIFETKNDSIKGYLERFKKKITTNELENIQENNKQDEVKYQENYFIGFDNFNL
ADKSKILDSIINNVKNMLSGLFVEKIDANSLLNFYAEYINGVPSEYTFSRGRLHDGMINSDVHFKKDFFTHIHNSKEIFK
RFISIKTYDIDKIVSTALSSVLHLSLEFDVILNIDNIPKAKAEKRIETKRKRANKSVRVEIDELNDLIKTDRVLMQEISL
NILVYAKTKTDLDSACIEITNLLKQKGIVSTQESIGMLPMFFSFFPNRNRLNFRKRLLSSQNIASLIIFEKQNCGFSRNS
WGDRHLTIFRNQDKSPYLFNFHAYEAKRKNDMVSGHTIIFGGTGAGKTTLIEFLITNCFKYEDLSILALDRNNGMRVMTE
FLDGQYNDSNDFYINPFSLKDTSANCTFLVSWLAFMLNIDEDTKDEKEKKTLSALSKTIRVCYNNITKQGGAIFKLRDFK
DTLEIDYLDSKDILEKESSKDLYKHSTDCLDFAKKLSVIDMDALSSSKKDFNLAVLYLFYKVINRAKLENKPFYIFIDEA
KSVIENPIMLAKIKDTLAQARKLNGVLTLAFQDINQLDGVEGAKSIIENAAQVILYPTNNFEKLESYGILLSPIEKSFLN
KTPLNARQVLVKNLLTQSSVFLEINLEKLNSTSKKFLRAYNSSASSVFELETLKKDNPKDYKEIYLTKE

Nucleotide


Download         Length: 2370 bp        

>NTDB_id=385186 HG583_RS02555 WP_237389114.1 526187..528556(+) (comB4) [Helicobacter pylori strain LIM-010]
ATGAAAGAAGAAACTAACATTGTTGGCATTTACAATGAGCATTATCTTTTAAGTGAAAAATCAAACCTTGTAGGCGCTCT
TAAATTAGAGGGAATTTCTTATTTGTCTTTAGATGACAAAGAAATAGCACAAAAATTTAATGAACGCATTTTAGCTCTTA
ATGAGATTGTAGATGGAGTGCATTTTAAAATCGTAGCTAAAAGGCGTAAGATTTTCATGCACCATGAATATACTCAAGAG
GAGATAAGCAATCCTTTTGCATTAGAGGTTATCAATTTATGGGAGCAGGGGGTTGAGGATGTTTATCAAAATTTCTATTA
CTTAATTTTTGAAACTAAGAATGATAGCATTAAAGGTTATTTGGAACGATTTAAGAAAAAAATCACTACCAATGAATTAG
AAAATATTCAAGAAAATAATAAACAAGATGAAGTTAAATATCAAGAAAACTATTTCATAGGCTTTGATAATTTTAATTTA
GCAGATAAATCTAAAATATTAGACAGCATTATCAATAATGTTAAAAACATGCTTTCTGGCTTGTTTGTAGAAAAAATAGA
TGCCAATAGTTTGCTTAATTTTTATGCGGAATATATCAATGGTGTTCCTAGTGAATACACTTTTTCTAGAGGTCGTTTGC
ATGATGGCATGATCAATTCTGATGTGCATTTTAAAAAAGATTTTTTCACTCATATTCATAATAGTAAAGAGATTTTCAAG
CGTTTCATCAGCATTAAGACTTATGATATAGACAAAATTGTCAGCACTGCTCTTTCTTCAGTGTTGCATTTATCTTTAGA
ATTTGATGTGATTTTAAACATTGACAATATTCCTAAAGCAAAGGCTGAAAAAAGGATTGAAACTAAAAGAAAAAGAGCGA
ATAAGAGCGTTAGAGTTGAAATTGATGAATTGAATGACCTTATTAAAACAGACAGAGTTTTGATGCAAGAGATTTCTTTA
AACATTTTAGTTTATGCCAAAACTAAAACCGATTTAGATAGTGCTTGTATAGAAATTACCAACTTGCTTAAACAAAAAGG
TATTGTAAGCACACAAGAGAGTATTGGCATGTTGCCTATGTTTTTTAGCTTTTTCCCCAATCGTAATCGCTTGAATTTTA
GAAAGCGTTTGTTGTCTAGTCAAAATATTGCTTCTTTAATCATATTTGAAAAACAAAATTGTGGTTTTTCTAGAAATTCA
TGGGGTGATCGCCATTTAACTATTTTTAGAAACCAAGACAAATCGCCTTATTTATTCAATTTCCATGCTTATGAGGCAAA
AAGAAAAAATGATATGGTATCAGGGCATACCATCATCTTTGGTGGCACAGGGGCTGGTAAAACCACTTTAATTGAATTTT
TAATCACCAATTGTTTTAAGTATGAAGATTTAAGTATTTTGGCTTTAGACAGAAATAATGGCATGCGTGTGATGACTGAG
TTTTTAGATGGTCAATACAACGATAGTAATGATTTCTACATTAATCCGTTTTCTTTAAAAGATACAAGTGCTAATTGCAC
CTTTTTAGTGAGTTGGTTGGCATTCATGCTCAATATTGATGAAGATACTAAAGATGAAAAAGAAAAAAAGACTTTAAGCG
CTTTATCCAAAACAATCAGAGTTTGCTATAACAATATCACAAAACAAGGAGGTGCTATTTTTAAGCTAAGAGATTTTAAA
GACACGCTAGAAATAGACTATTTAGATAGCAAGGACATTTTAGAAAAAGAGAGTTCAAAAGACTTATACAAGCATTCTAC
TGATTGTTTAGACTTTGCTAAAAAGCTTTCTGTTATTGATATGGATGCTCTTTCTAGTAGTAAAAAAGATTTCAACTTGG
CAGTGCTATACCTATTCTACAAAGTCATAAATAGAGCTAAATTAGAAAACAAGCCTTTTTATATCTTCATTGATGAAGCA
AAATCTGTTATTGAAAATCCCATTATGTTAGCTAAAATCAAAGACACACTCGCTCAAGCTAGAAAACTCAATGGGGTTTT
AACTTTAGCCTTTCAAGACATTAACCAACTTGATGGCGTAGAGGGAGCAAAGTCCATTATAGAAAACGCCGCTCAAGTCA
TACTCTATCCTACAAACAATTTTGAGAAATTAGAGAGCTATGGCATTTTATTAAGTCCTATTGAAAAATCCTTTTTAAAC
AAAACGCCGTTAAACGCTAGGCAAGTATTAGTGAAAAACCTTCTCACTCAATCTAGCGTATTTTTAGAAATCAATTTAGA
AAAGCTAAACAGCACCAGTAAAAAATTTTTAAGAGCGTATAACTCTAGCGCGTCTAGCGTTTTTGAACTGGAAACGCTTA
AAAAAGATAATCCAAAGGATTATAAAGAAATTTACTTGACAAAGGAGTAG

Domains

Predicted by InterProScan.

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

(176-374)

Helicase HerA, central domain (DUF87)

(430-472)

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

(632-706)


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

36.352

100

0.366

Multiple sequence alignment