Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HPOKI828_RS07635 Genome accession   NZ_CP006826
Coordinates   1584311..1586674 (-) Length   787 a.a.
NCBI ID   WP_025223396.1    Uniprot ID   -
Organism   Helicobacter pylori oki828     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1579311..1591674
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPOKI828_RS07615 (HPOKI828_07945) lpxE 1579795..1580367 (+) 573 WP_025223392.1 lipid A 1-phosphatase LpxE -
  HPOKI828_RS07620 (HPOKI828_07950) nspC 1580377..1581594 (-) 1218 WP_025223393.1 carboxynorspermidine decarboxylase -
  HPOKI828_RS07625 (HPOKI828_07955) cheV1 1581591..1582556 (-) 966 WP_025223394.1 chemotaxis protein CheV1 -
  HPOKI828_RS07630 (HPOKI828_07960) - 1582650..1583990 (-) 1341 WP_025223395.1 COG3014 family protein -
  HPOKI828_RS07635 (HPOKI828_07965) comB4 1584311..1586674 (-) 2364 WP_025223396.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HPOKI828_RS07640 (HPOKI828_07970) comB3 1586677..1586940 (-) 264 WP_000584955.1 hypothetical protein Machinery gene
  HPOKI828_RS07645 (HPOKI828_07975) comB2 1586940..1587221 (-) 282 WP_001272686.1 TrbC/VirB2 family protein Machinery gene
  HPOKI828_RS07650 (HPOKI828_07980) - 1587366..1588193 (-) 828 WP_025223397.1 DUF5718 family protein -
  HPOKI828_RS07655 (HPOKI828_07985) - 1588284..1589336 (-) 1053 WP_025223398.1 MnmA/TRMU family protein -
  HPOKI828_RS07660 (HPOKI828_07990) dnaG 1589333..1591012 (-) 1680 WP_025223399.1 DNA primase -
  HPOKI828_RS07665 (HPOKI828_07995) groES 1591299..1591655 (+) 357 WP_025223400.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90328.95 Da        Isoelectric Point: 8.8745

>NTDB_id=114263 HPOKI828_RS07635 WP_025223396.1 1584311..1586674(-) (comB4) [Helicobacter pylori oki828]
MLEKLLSAVKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQSDSKYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERTKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDTQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAILDAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSRAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLESLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=114263 HPOKI828_RS07635 WP_025223396.1 1584311..1586674(-) (comB4) [Helicobacter pylori oki828]
ATGTTAGAAAAGCTTTTGAGCGCTGTCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCCAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTCTTGCTCACTAAAAACGAAAACTTAGTGGGCATCCTCC
GTTTAGAAGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTCTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAATCTGACTCTAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCGC
ACTCTTTACAAGGCGTTTTAGAGCATAAGAAAAAATCTCTTATGCATGCCAATAGGGAAAATTTTAAGGACATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAACTACGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCTTTAAAACCCCTAGTAGGGGGGTATTTGA
GCGATAGCTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAAACGCC
CTTAGACATTATCTTTTCTATAGAGCCTATGAGTGTCAATAAAACGCTGAGTTTTTTAAAAGAAAGGACCAAGTTTAGCA
TGTCCAATCTTGTTAAAAACGAGTTGCTAGAATACCAAGAACTGGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
TTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACACTCAAACAAGCTTAGTTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAGGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCCTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAACTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAATAACGCTAAAGAAATCGCCAGAGTGAATGGGCATACTCTAATCATAGGGGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCATTTGACAGGATGCAAGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTTGGACGCGATTAAGAGCCTTTATGAAACCTTATACCCTAAAGCTTTTAGCTTGCTAGATTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAACTCAAGAGCTTTTTTGAATGTGATAAACCTAGACACCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAAATCTTAGAAGAGTCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAGGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGACATTTACCAATTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAACGGGAGTTCTAACATGATTGATGT
GAGTTTGGAAAGCTTAGGGCGTTATTTGAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTACAGAGTGGCGTGAGAAACTTTTGAAGAGCTAG

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

97.84

100

0.978

Multiple sequence alignment