Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4G81_RS01020 Genome accession   NZ_CP032913
Coordinates   212327..214690 (+) Length   787 a.a.
NCBI ID   WP_139523917.1    Uniprot ID   -
Organism   Helicobacter pylori strain 5-A-EK1     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 207327..219690
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4G81_RS00985 groES 207349..207705 (-) 357 WP_000671934.1 co-chaperone GroES -
  D4G81_RS00995 dnaG 207992..209671 (+) 1680 WP_139523914.1 DNA primase -
  D4G81_RS01000 - 209668..210720 (+) 1053 WP_139523915.1 MnmA/TRMU family protein -
  D4G81_RS01005 - 210809..211636 (+) 828 WP_139523916.1 DUF5718 family protein -
  D4G81_RS01010 comB2 211781..212062 (+) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  D4G81_RS01015 comB3 212062..212325 (+) 264 WP_000584956.1 hypothetical protein Machinery gene
  D4G81_RS01020 comB4 212327..214690 (+) 2364 WP_139523917.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4G81_RS01030 - 214992..216332 (+) 1341 WP_201737685.1 COG3014 family protein -
  D4G81_RS01035 cheV1 216442..217407 (+) 966 WP_139523919.1 chemotaxis protein CheV1 -
  D4G81_RS01040 nspC 217404..218621 (+) 1218 WP_139523920.1 carboxynorspermidine decarboxylase -
  D4G81_RS01045 lpxE 218640..219176 (-) 537 WP_236636966.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90183.66 Da        Isoelectric Point: 8.2664

>NTDB_id=320349 D4G81_RS01020 WP_139523917.1 212327..214690(+) (comB4) [Helicobacter pylori strain 5-A-EK1]
MLEKLLGAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGVLRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDYKQNIQSDSQYLQAILNQFENKEVYENQYFLVLESTHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLGFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKETARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTEFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLTPSRDKEALEDMNAISSAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLSLSLEPYLNNPLFNALNDAFNSNAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPIEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=320349 D4G81_RS01020 WP_139523917.1 212327..214690(+) (comB4) [Helicobacter pylori strain 5-A-EK1]
ATGTTAGAAAAGCTTTTAGGCGCTATCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAGAATGAAAACTTAGTGGGCGTTCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTGGTGGTTAAAAGGCGTAAAATTGATTATAAACAAAACATTCAATCTGATTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCACTC
ACTCTTTACAGGGCGTTTTGGAGCATAAGAAAAAATCTCTCATGCATGCCAATAGGGAAAATTTTAAGGATATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCCTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCCCTAAAGCCCCTAGTAGGGGGGTATTTGA
GCGATAGCTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAACGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAGACGCC
ACTAGACATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGGGTTTTTTAAAAGAGAGGGCCAAGTTTAGCA
TGTCTAATCTTGTTAAAAACGAGCTGCTAGAATACCAAGAACTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCCAGTTTAGAGGATTTAGACGCTCAAACCAGCTTAATTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCACTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCTTAGCGTGTTTGATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAACCGCCAGAGTGAATGGGCATACTTTAATCATAGGGGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTGGCTTTTGACAGGATGCAAGGGCTG
TATTCTTTCACCGAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATTAACCCCTTTTGTTTAGAGCCTAA
TTTACAGAATCTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTCGATCTTACCCCTTCAAGGGATAAAGAAGCCTTGG
AAGATATGAATGCGATTTCTAGCGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGCCTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACTTCATCTAACCAACTAAGCTTGAGCTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAACTCCAACGCTTTTTTAAATGTAATCAACTTAGACGCTATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGCTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCCTTGCAAGATATTTACCAATTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCATTTCAATGTGCCTTTGAGCGAGACTGAAATTTCT
TTTTTAGAAAACACGCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAATGGGAGTTCTAACATGATTGATGT
GAGTTTGGAGGGCTTGGGGCGTTATTTGAAAATCTTTAATTCAGATTCTAGTCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTATAGAGTGGCGTGAAAAACTTTTGAAGAGTTAG

Domains

Predicted by InterproScan.

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

(176-375)

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(425-466)


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

97.332

100

0.973

Multiple sequence alignment