Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4I21_RS07110 Genome accession   NZ_CP032479
Coordinates   1442239..1444602 (-) Length   787 a.a.
NCBI ID   WP_139543463.1    Uniprot ID   -
Organism   Helicobacter pylori strain 21-F-EK1     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1437239..1449602
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4I21_RS07085 lpxE 1437765..1438301 (+) 537 WP_236635071.1 lipid A 1-phosphatase LpxE -
  D4I21_RS07090 nspC 1438320..1439537 (-) 1218 WP_139543461.1 carboxynorspermidine decarboxylase -
  D4I21_RS07095 cheV1 1439534..1440499 (-) 966 WP_139543462.1 chemotaxis protein CheV1 -
  D4I21_RS07100 - 1440599..1441939 (-) 1341 WP_033756636.1 COG3014 family protein -
  D4I21_RS07110 comB4 1442239..1444602 (-) 2364 WP_139543463.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4I21_RS07115 comB3 1444604..1444867 (-) 264 WP_000584956.1 hypothetical protein Machinery gene
  D4I21_RS07120 comB2 1444867..1445148 (-) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  D4I21_RS07125 - 1445294..1446121 (-) 828 WP_139543464.1 DUF5718 family protein -
  D4I21_RS07130 - 1446211..1447263 (-) 1053 WP_139543465.1 MnmA/TRMU family protein -
  D4I21_RS07135 dnaG 1447260..1448939 (-) 1680 WP_139543466.1 DNA primase -
  D4I21_RS07145 groES 1449226..1449582 (+) 357 WP_000671940.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90053.52 Da        Isoelectric Point: 8.7207

>NTDB_id=316301 D4I21_RS07110 WP_139543463.1 1442239..1444602(-) (comB4) [Helicobacter pylori strain 21-F-EK1]
MLEKLLNAVKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQADSQYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSTTFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAVGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLENLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMLDLAPSRDKEALEDMNAISSAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHNFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=316301 D4I21_RS07110 WP_139543463.1 1442239..1444602(-) (comB4) [Helicobacter pylori strain 21-F-EK1]
ATGTTAGAAAAGCTTTTGAACGCTGTCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCAAT
GAGTGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAACTTAGTGGGCATCCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACAGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTAGTGGTTAAAAGGCGTAAAATTGATCACCAGCAAAACATTCAAGCTGACTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCGC
ATTCTTTACAGGGCGTTTTAGAGCATAAGAAAAAATCCTTAATGCATGCCAATAGGGAAAATTTTAAGGATATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCCTAGAAATCCAGCTCAAAAACTATGCCCCCAAACTCTTAAGCTC
CAAAGAGGTTTTGAATTTTTATGCAGAATACATTAACGGGTTTGATCTCCCCTTAAAACCCTTAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCTACCACTTTTGAAAAAGATTATTTCATTCAAGAAAGTTTTAACCAAAAAACCTACAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGGTGGGAGCGCTTCTATACCAAGAGACGCC
ACTAGATATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGAGTTTTTTAAAAGAGAGGGCCAAGTTTAGCA
TGTCTAATCTCGTTAAAAACGAGTTGCTAGAATACCAAGAATTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCCAGTTTAGAGAATTTAGACGCTCAAACGAGCTTAATTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCCTAGCGTGTTTGATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCCAGAGTGAATGGGCATACTCTAATCATAGGGGCTACCGGAAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCCTTTGATAGGATGCAAGGGCTG
TATTCTTTCACCAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATCTAGAATTTTTGCAATCCTTCTTTTTGAGCATGCTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTGG
AAGACATGAATGCGATTTCTAGCGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGCTTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACTTCATCTAACCAATTGGGTTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGATGCGTTCAACTCCAACGCTTTTTTAAATGTAATCAACTTAGACGCTATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATTTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACGCTAAAATCAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGATATTTACCAGTTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTCATTTTGTATCCACAAAAAAACGCTAGGGAGTTGAAACACAATTTCAATGTGCCTTTGAGCGAGACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAACGGGAGTTCCAACATGATTGATGT
GAGTTTGGAGGGCTTGGGGCGTTATTTGAAAATCTTTAATTCAGATTCCAGTCATGTGAATAAAGTGAAAGCGTTACAAA
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

Multiple sequence alignment