Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4H43_RS07805 Genome accession   NZ_CP032911
Coordinates   1606763..1609126 (-) Length   787 a.a.
NCBI ID   WP_139544559.1    Uniprot ID   -
Organism   Helicobacter pylori strain 19-A-EK3     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1601763..1614126
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4H43_RS07780 lpxE 1602264..1602806 (+) 543 WP_236635801.1 lipid A 1-phosphatase LpxE -
  D4H43_RS07785 nspC 1602829..1604046 (-) 1218 WP_139544557.1 carboxynorspermidine decarboxylase -
  D4H43_RS07790 cheV1 1604043..1605008 (-) 966 WP_120865460.1 chemotaxis protein CheV1 -
  D4H43_RS07795 - 1605116..1606456 (-) 1341 WP_201737096.1 hypothetical protein -
  D4H43_RS07805 comB4 1606763..1609126 (-) 2364 WP_139544559.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4H43_RS07810 comB3 1609128..1609391 (-) 264 WP_000584956.1 hypothetical protein Machinery gene
  D4H43_RS07815 comB2 1609391..1609672 (-) 282 WP_001272686.1 TrbC/VirB2 family protein Machinery gene
  D4H43_RS07820 - 1609818..1610645 (-) 828 WP_001920389.1 DUF5718 family protein -
  D4H43_RS07825 - 1610738..1611790 (-) 1053 WP_139544560.1 MnmA/TRMU family protein -
  D4H43_RS07830 dnaG 1611787..1613466 (-) 1680 WP_139544561.1 DNA primase -
  D4H43_RS07840 groES 1613755..1614111 (+) 357 WP_139544562.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90138.58 Da        Isoelectric Point: 8.2750

>NTDB_id=320322 D4H43_RS07805 WP_139544559.1 1606763..1609126(-) (comB4) [Helicobacter pylori strain 19-A-EK3]
MLEKLLGAIKQKVSNYFLGALPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQSDSQYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAISSAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDALNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLESLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=320322 D4H43_RS07805 WP_139544559.1 1606763..1609126(-) (comB4) [Helicobacter pylori strain 19-A-EK3]
ATGTTAGAAAAGCTTTTAGGCGCTATCAAGCAAAAAGTTTCAAATTATTTTTTAGGGGCTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAACATTTTTTACTTACTAAAAACGAAAACTTAGTGGGTATCCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTGGTGGTTAAAAGGCGTAAAATTGATCACCAGCAAAACATTCAATCTGACTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCGC
ATTCTTTACAAGGCGTTTTAGAGCATAAGAAAAAATCCTTAATGCATGCCAATAGGGAAAATTTTAAGGACATCCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCCTAGAAATCCAGCTCAAAAACTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCAGAATACATTAATGGGTTTGATCTCCCCCTAAAACCCCTAGTAGGGGGGTATTTGA
GCGATAGCTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAGACGCC
TTTAGATATTATCTTTTCCATAGAGCCTATGAGCGTCAATAAAACGCTGAGTTTTTTAAAAGAGAGAGCCAAATTTAGCA
TGTCTAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAACTGGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACAAGCTTGGTTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAGGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCATTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAATAACGCTAAAGAAATCGCCAGAGTGAATGGGCATACTTTGATTATAGGGGCTACTGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCATTTGACAGGATGCAAGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATCAACCCCTTTTGCTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTGG
AAGACATGAATGCGATTTCTAGCGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGATTTTAGTTTGCTAGATTTT
AAAGAAACGCTTAAAAGAACTTCATCTAACCAATTGGGTTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCACTCAATTCCAACGCTTTTTTGAATGTGATAAACCTAGATACCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGCTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGATATTTACCAATTAAGCGGGGTCAAAAACGCCCATAGTTTTTTGAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATTTGGGTAATGGGAGTTCTAACATGATTGATGT
GAGTTTGGAGAGTTTGGGGCGTTATTTGAAAATCTTTAATTCGGATTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCCACAGAGTGGCGTGAGAAACTTTTGAAGAGCTAG

Domains

Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(426-466)

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

(176-375)


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

98.348

100

0.983

Multiple sequence alignment