Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HG581_RS07085 Genome accession   NZ_CP051535
Coordinates   1492884..1495241 (-) Length   785 a.a.
NCBI ID   WP_237389053.1    Uniprot ID   -
Organism   Helicobacter pylori strain LIM-008     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1487884..1500241
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HG581_RS07070 (HG581_07080) - 1488026..1489561 (-) 1536 WP_202137928.1 TrbG/VirB9 family P-type conjugative transfer protein -
  HG581_RS07075 (HG581_07085) - 1489561..1490730 (-) 1170 WP_128078718.1 VirB8/TrbF family protein -
  HG581_RS07080 (HG581_07090) - 1490847..1492881 (-) 2035 Protein_1401 type IA DNA topoisomerase -
  HG581_RS07085 (HG581_07095) comB4 1492884..1495241 (-) 2358 WP_237389053.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HG581_RS07090 (HG581_07100) comB3 1495288..1495554 (-) 267 WP_001964154.1 hypothetical protein Machinery gene
  HG581_RS07095 (HG581_07105) - 1495555..1495857 (-) 303 WP_202137930.1 virB2 type IV secretion protein -
  HG581_RS07100 (HG581_07110) - 1495854..1497380 (-) 1527 WP_202137931.1 hypothetical protein -
  HG581_RS07105 (HG581_07115) - 1497387..1497680 (-) 294 WP_202137932.1 hypothetical protein -
  HG581_RS07110 (HG581_07120) - 1497700..1498479 (-) 780 WP_202137933.1 hypothetical protein -
  HG581_RS08250 - 1498535..1498684 (+) 150 Protein_1408 cagY like protein -
  HG581_RS07115 (HG581_07125) thyX 1498933..1499559 (-) 627 WP_000451924.1 FAD-dependent thymidylate synthase -

Sequence

Protein


Download         Length: 785 a.a.        Molecular weight: 90847.35 Da        Isoelectric Point: 8.3493

>NTDB_id=385287 HG581_RS07085 WP_237389053.1 1492884..1495241(-) (comB4) [Helicobacter pylori strain LIM-008]
MKEETNIVGVYNEYYLLSEKSNLVGALKLEGISYLSLDDKEIAQKFNERILALNEIVDGVHFKIVAKRRKIFMHHEYTQE
EVSNPFALEVINLWEQGVEDVYQNFYYLIFETKNDSIKGYLERFKKKITTNELENNKQDEVKYQENYFIGFDNFNLLDKS
KILDSIINNVKNMLSGLFVEKIDANSLLNFYAEYINGVPGEYTFARGRLHDGMINSDVHFKKDFFTHIHNSKEIFKRFIS
IKTYDIDKIVSTALSSVLHLSLEFDVILNIDNIPKAKAEKRIETKRKRANKSIRVEIDELNDLIKTDRVLMQEISLNILV
HAKTKTDLDSACIEITNLLKQKGIVSTQESIGMLPMFFSFFPNRNRLNFRKRLLSSQNIASLIVLEKQNCGFSRNSWGNR
HLTIFRNQDKSPYLFNFHAYEAKRRDDMVSGHTIIFGGTGAGKTTLIEFLITNCFKYKDLNILALDRNNGMRVMTEFLDG
QYNDSNDFYINPFSLKNTSTNCTFLVSWLAFMLNIDEDTKDEKEKKTLSALSKTIRVCYNNITKQGGAIFKLRDFKDTLE
RDYLDSKDILEKESLKDLYKHSTDCLDFAKKLSVIDMDALSSNKKDFNLAVLYLFYKVMNRAKLENKPFYIFIDEAKSVI
ENPIMLAKIKDTLAQARKLNGVLTLAFQDINQLDGVEGAKSIIENAAQVILYPTNNFEKLESYGILLSPIEKSFLNKTPL
NARQILVKNLLTQSSVFLEINLEKLNSTNKKFLRAYSSSASSVFELEMLKKDNPKDYKEIYLTKE

Nucleotide


Download         Length: 2358 bp        

>NTDB_id=385287 HG581_RS07085 WP_237389053.1 1492884..1495241(-) (comB4) [Helicobacter pylori strain LIM-008]
ATGAAAGAAGAAACTAACATTGTGGGCGTTTACAATGAGTATTATCTTTTAAGTGAAAAATCAAACCTTGTAGGCGCTCT
TAAGTTAGAGGGAATTTCTTATTTATCTTTAGATGACAAAGAAATAGCACAAAAATTTAATGAACGCATTTTAGCTCTTA
ATGAGATTGTAGATGGAGTGCATTTTAAAATCGTAGCTAAAAGGCGTAAGATTTTCATGCACCATGAATATACTCAAGAG
GAGGTAAGCAATCCTTTTGCATTAGAGGTTATCAATTTGTGGGAGCAGGGGGTTGAGGATGTCTATCAAAATTTCTATTA
CTTAATTTTTGAAACTAAGAATGATAGCATTAAAGGTTATTTGGAACGATTTAAGAAAAAAATCACTACCAATGAATTAG
AAAATAATAAACAAGATGAAGTTAAATATCAAGAAAACTATTTCATAGGCTTTGATAATTTTAATCTTTTAGACAAATCT
AAAATATTAGACAGCATTATCAATAATGTTAAAAACATGCTTTCTGGCTTATTTGTAGAAAAAATAGATGCCAATAGTTT
GCTTAATTTTTACGCGGAATATATCAATGGTGTTCCTGGTGAATACACTTTTGCTAGAGGTCGTTTGCATGATGGCATGA
TCAATTCTGATGTGCATTTTAAAAAAGATTTTTTCACTCACATTCATAATAGTAAAGAGATTTTCAAGCGTTTCATCAGC
ATTAAGACTTATGATATAGACAAAATTGTCAGCACTGCTCTTTCTTCAGTGTTGCATTTATCTTTAGAATTTGATGTGAT
TTTAAACATTGACAATATTCCTAAAGCAAAGGCTGAAAAAAGGATTGAAACTAAAAGAAAAAGAGCGAATAAGAGCATTA
GAGTTGAAATTGATGAATTGAATGACCTTATTAAAACAGACAGAGTTTTGATGCAAGAGATTTCTTTAAACATTTTAGTT
CATGCCAAAACTAAAACCGATTTAGATAGTGCTTGTATAGAAATTACCAACTTGCTTAAACAAAAAGGTATTGTAAGCAC
ACAAGAGAGTATTGGCATGTTGCCTATGTTTTTTAGCTTCTTCCCCAATCGTAATCGCTTGAATTTTAGAAAGCGTTTGT
TGTCTAGTCAAAATATTGCTTCTTTAATCGTATTAGAAAAACAAAATTGTGGTTTTTCTAGAAATTCATGGGGTAATCGC
CATTTAACTATTTTTAGAAACCAAGACAAATCGCCTTATTTATTCAATTTCCATGCTTATGAGGCAAAAAGAAGAGATGA
TATGGTATCAGGGCATACCATCATCTTTGGTGGCACAGGGGCTGGTAAAACCACTTTAATTGAATTTTTAATCACTAATT
GTTTTAAGTATAAAGATTTAAATATTTTGGCTTTAGACAGAAATAATGGCATGCGTGTGATGACTGAGTTTTTAGATGGT
CAATACAACGATAGCAATGATTTTTATATTAATCCATTTTCTTTAAAAAATACAAGCACTAATTGCACCTTTTTGGTGAG
TTGGTTGGCGTTCATGCTCAATATTGATGAAGATACCAAAGATGAAAAAGAAAAAAAGACCTTAAGTGCCTTGTCTAAAA
CGATCAGAGTTTGCTATAACAATATCACAAAACAAGGTGGTGCTATTTTTAAGTTAAGAGATTTTAAAGACACGCTAGAA
AGAGACTATTTAGATAGCAAAGACATTTTAGAGAAAGAGAGCTTAAAAGACTTATACAAGCATTCTACTGATTGTTTAGA
CTTTGCCAAAAAGCTTTCTGTTATTGATATGGACGCTCTTTCTAGTAATAAAAAAGATTTTAACTTGGCAGTGTTATATC
TATTCTATAAAGTCATGAATAGAGCTAAATTAGAAAATAAGCCTTTTTATATATTCATTGATGAAGCAAAATCTGTTATT
GAAAATCCCATCATGTTAGCTAAAATCAAAGACACACTCGCTCAAGCTAGAAAACTCAATGGGGTTTTAACCTTAGCTTT
TCAAGACATTAACCAACTTGATGGCGTAGAGGGAGCAAAGTCCATTATAGAAAACGCCGCTCAAGTCATACTCTATCCTA
CAAACAATTTTGAGAAATTAGAAAGCTATGGCATTTTATTAAGCCCTATTGAAAAATCCTTTTTAAACAAAACGCCGTTA
AACGCTAGGCAAATATTAGTGAAAAACCTTCTTACTCAATCTAGCGTATTTTTAGAAATCAATTTAGAAAAATTAAACAG
CACCAATAAAAAATTTTTAAGAGCGTATAGCTCTAGCGCGTCTAGCGTTTTTGAACTAGAGATGCTTAAAAAGGATAATC
CAAAAGATTACAAAGAAATTTATCTGACAAAGGAGTAG

Domains

Predicted by InterProScan.

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

(628-702)

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

(172-370)

Helicase HerA, central domain (DUF87)

(426-468)


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

36.283

100

0.366

Multiple sequence alignment