Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   J5F39_RS00955 Genome accession   NZ_CP071936
Coordinates   193273..195636 (+) Length   787 a.a.
NCBI ID   WP_283492007.1    Uniprot ID   -
Organism   Helicobacter pylori strain MTT03     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 188273..200636
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J5F39_RS00925 groES 188293..188649 (-) 357 WP_000671927.1 co-chaperone GroES -
  J5F39_RS00930 dnaG 188932..190611 (+) 1680 WP_283492006.1 DNA primase -
  J5F39_RS00935 - 190608..191660 (+) 1053 WP_097692071.1 MnmA/TRMU family protein -
  J5F39_RS00940 - 191753..192580 (+) 828 WP_078240978.1 DUF5718 family protein -
  J5F39_RS00945 comB2 192727..193008 (+) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  J5F39_RS00950 comB3 193008..193271 (+) 264 WP_000584956.1 hypothetical protein Machinery gene
  J5F39_RS00955 comB4 193273..195636 (+) 2364 WP_283492007.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  J5F39_RS00965 - 195893..197281 (+) 1389 WP_283492253.1 COG3014 family protein -
  J5F39_RS00970 cheV1 197388..198353 (+) 966 WP_000785462.1 chemotaxis protein CheV1 -
  J5F39_RS00975 nspC 198350..199567 (+) 1218 WP_283492008.1 carboxynorspermidine decarboxylase -
  J5F39_RS00980 lpxE 199585..200121 (-) 537 WP_283492254.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90135.53 Da        Isoelectric Point: 8.2704

>NTDB_id=549277 J5F39_RS00955 WP_283492007.1 193273..195636(+) (comB4) [Helicobacter pylori strain MTT03]
MLEKLLSAVKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQTDSQYLQAILNQFENKEVYENQYFLVLESTHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSTTFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAVGALLYQETPLDIIFSIEPMSVNKALGFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAISSAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNTKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHNFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=549277 J5F39_RS00955 WP_283492007.1 193273..195636(+) (comB4) [Helicobacter pylori strain MTT03]
ATGTTAGAAAAGCTTTTGAGCGCCGTCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTACCTAAAAGCTATTCAAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAACTTAGTGGGCATCCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACTGAGCGCCAGATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAAACTGACTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCACTC
ACTCTTTACAAGGTGTTTTGGAGCATAAGAAAAAATCTCTCATGCATGCTAATAGGGAAAATTTTAAGGATATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCCTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCGGAATACATCAATGGGTTTGATCTCCCTTTAAAGCCCCTAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCTACCACTTTTGAAAAAGATTATTTCATTCAAGAAAGTTTTAACCAAAAAACCTACAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAACGCATCACTTCTATAGCGGTGGGAGCGCTTTTATACCAAGAAACGCC
TTTAGATATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAGCGCTGGGTTTTTTAAAAGAGAGAGCCAAGTTTAGCA
TGTCTAATCTTGTTAAAAACGAGCTGCTAGAATACCAAGAATTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCCAGTTTAGAGGATTTAGACGCTCAAACGAGCTTAATTTTGGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTTCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACTTCTAAAGCCCTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCCAGAGTGAACGGGCATACTCTAATCATAGGGGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCATTTGATAGGATGCAGGGGCTA
TATTCTTTCACCAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTTTTTTTGAGCATGTTTGATCTCGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTCTAGTGCGATTAAGAGCCTTTATGAGACCCTATACCCCAAAGATTTTAGTTTGCTGGATTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAACTGGGCTTGAGCTTGGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAACTCCAACGCTTTTTTAAATGTAATCAACTTAGACGCTATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAGATCTTAGAAGAGTCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTGTTAAACACTAAAATCAACGCTTTAATCACGCAAGCCAGGAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGACATTTACCAACTCAGCGGGGTCAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACAACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCA
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAATGGGAGCTCTAACATGATTGATGT
GAGTTTGGAGGGCTTGGGGCGTTATTTGAAAATCTTTAATTCGGATTCTAGTCATGTCAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTACAGAGTGGCGTGAGAAACTTTTGAAGAGTTAG

Domains

Predicted by InterproScan.

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

(176-375)

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(426-466)


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

97.967

100

0.98