Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4K04_RS01210 Genome accession   NZ_CP032904
Coordinates   240460..242823 (+) Length   787 a.a.
NCBI ID   WP_139521436.1    Uniprot ID   -
Organism   Helicobacter pylori strain 169-A-EK5     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 235460..247823
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4K04_RS01175 groES 235492..235848 (-) 357 WP_097714113.1 co-chaperone GroES -
  D4K04_RS01185 dnaG 236123..237802 (+) 1680 WP_139521428.1 DNA primase -
  D4K04_RS01190 - 237799..238851 (+) 1053 WP_139521430.1 MnmA/TRMU family protein -
  D4K04_RS01195 - 238941..239768 (+) 828 WP_139521432.1 DUF5718 family protein -
  D4K04_RS01200 comB2 239914..240195 (+) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  D4K04_RS01205 comB3 240195..240458 (+) 264 WP_139521434.1 competence protein ComB Machinery gene
  D4K04_RS01210 comB4 240460..242823 (+) 2364 WP_139521436.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4K04_RS01220 - 243127..244467 (+) 1341 WP_198542850.1 COG3014 family protein -
  D4K04_RS01225 cheV1 244567..245532 (+) 966 WP_039082031.1 chemotaxis protein CheV1 -
  D4K04_RS01230 nspC 245529..246746 (+) 1218 WP_139521439.1 carboxynorspermidine decarboxylase -
  D4K04_RS01235 lpxE 246743..247288 (-) 546 WP_236636134.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90342.94 Da        Isoelectric Point: 8.8668

>NTDB_id=320164 D4K04_RS01210 WP_139521436.1 240460..242823(+) (comB4) [Helicobacter pylori strain 169-A-EK5]
MLEKLLGAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDYKQNIQADSKYLQAILNQFENKEVYENQYFLVLESTHSLQGVLEHKKKSFMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAVGALLYQETPLDIIFSIEPMSAHKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAIFSAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLSLSLEPYLNNPLFNALNDAFNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGNSNMIDVSLESLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=320164 D4K04_RS01210 WP_139521436.1 240460..242823(+) (comB4) [Helicobacter pylori strain 169-A-EK5]
ATGTTAGAAAAGCTTTTAGGCGCTATCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAACATTTTTTACTCACTAAAAACGAAAACTTAGTGGGCATCCTCC
GTTTAGAGGGGGTGAGCTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTGGTGGTTAAAAGGCGTAAAATTGATTATAAACAAAACATTCAAGCTGACTCTAA
ATACTTGCAAGCGATCTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCACTC
ATTCTTTACAGGGCGTTTTAGAGCATAAGAAAAAATCTTTCATGCACGCTAATAGGGAAAATTTTAAGGATATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCCTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTACGCAGAATACATTAACGGGTTTGATCTCCCCTTAAAGCCCCTAGTAGGGGGGTATTTGA
GCGATAGCTATATCGCTAGTTCCATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTACAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAAAGGATCACTTCTATAGCGGTGGGAGCGCTTTTATACCAAGAAACGCC
ACTAGATATTATCTTTTCTATAGAGCCTATGAGCGCACATAAAACGCTGAGTTTTTTAAAAGAGAGAGCCAAGTTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAACTAGTCAAAACCAAACGATTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCCAGTCTAGAGGATTTAGACGCTCAAACCAGCTTAATTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACTTCTAAAGCCTTGGCGTGTTTGATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAATAACGCTAAAGAAATCGCCAGAGTGAATGGGCATACTCTAATCATAGGGGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCTTTTGACAGGATGCAAGGGTTG
TATTCTTTCACCAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATCTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTGG
AAGATATGAATGCGATTTTTAGCGCGATTAAGAGCCTTTATGAGACTTTATACCCTAAAGCTTTTAGTTTGCTAGACTTT
AAAGAAACGCTCAAAAGAACTTCATCTAACCAACTAAGCTTGAGCTTGGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAACTCCAACGCTTTTTTAAATGTGATAAACCTGGACACCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGCTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTACTGAACGCTAAAATCAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGACATTTACCAATTAAGCGGGGTTAAAAACGCTCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCATTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAATGGGAATTCTAACATGATTGATGT
GAGTTTGGAAAGTTTAGGGCGTTATTTGAAAATCTTTAATTCGGATTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTACAGAGTGGCGTGAGAAACTTTTGAAGAGCTAG

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

97.586

100

0.976

Multiple sequence alignment