Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4I62_RS00845 Genome accession   NZ_CP032907
Coordinates   174008..176371 (+) Length   787 a.a.
NCBI ID   WP_139533017.1    Uniprot ID   -
Organism   Helicobacter pylori strain 24-A-EK1     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 169008..181371
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4I62_RS00810 groES 169027..169383 (-) 357 WP_000671920.1 co-chaperone GroES -
  D4I62_RS00820 dnaG 169672..171351 (+) 1680 WP_139533014.1 DNA primase -
  D4I62_RS00825 - 171348..172400 (+) 1053 WP_139533015.1 MnmA/TRMU family protein -
  D4I62_RS00830 - 172489..173316 (+) 828 WP_139533016.1 DUF5718 family protein -
  D4I62_RS00835 comB2 173462..173743 (+) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  D4I62_RS00840 comB3 173743..174006 (+) 264 WP_000584957.1 hypothetical protein Machinery gene
  D4I62_RS00845 comB4 174008..176371 (+) 2364 WP_139533017.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4I62_RS00855 - 176671..178011 (+) 1341 WP_033756636.1 COG3014 family protein -
  D4I62_RS00860 cheV1 178110..179075 (+) 966 WP_125301224.1 chemotaxis protein CheV1 -
  D4I62_RS00865 nspC 179072..180289 (+) 1218 WP_139533018.1 carboxynorspermidine decarboxylase -
  D4I62_RS00870 lpxE 180308..180844 (-) 537 WP_236640029.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90243.67 Da        Isoelectric Point: 8.2750

>NTDB_id=320225 D4I62_RS00845 WP_139533017.1 174008..176371(+) (comB4) [Helicobacter pylori strain 24-A-EK1]
MLEKLLSAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQADSQYLQAILNQFENKEVYENQYFLVLESTHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKETARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAISGAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGNSNMIDVSLESLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=320225 D4I62_RS00845 WP_139533017.1 174008..176371(+) (comB4) [Helicobacter pylori strain 24-A-EK1]
ATGTTAGAAAAGCTTTTGAGCGCTATCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGTTATTCAAT
GAGTGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAACTTAGTGGGCATCCTCC
GTTTAGAAGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAGGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAAGCTGACTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCACGC
ATTCTTTACAAGGTGTTTTGGAGCATAAGAAAAAATCCTTAATGCATGCCAATAGGGAAAATTTTAAGGACATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCCTTAAAACCCCTAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCCATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGTTTTAACCAAAAAACCTACAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAGACGCC
ACTAGATATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGAGTTTTTTAAAAGAGAGGGCCAAGTTTAGCA
TGTCTAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAATTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCCAGTTTAGAGGATTTAGACGCTCAAACCAGCTTAATTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGTATCCATTTGAACC
ACCGCTTGCGCTTTTTAACCTCTAAAGCCTTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAATAACGCTAAAGAAACCGCCAGAGTGAATGGGCATACTCTAATCATAGGGGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGTGCTTTGAAATACCAAAACATGCGCCTTTTAGCCTTTGACAGGATGCAAGGGCTG
TATTCTTTCACCAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATTAATCCCTTTTGTTTAGAGCCTAA
TTTACAGAATCTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTGG
AAGATATGAATGCGATTTCTGGTGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGATTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACTTCATCTAACCAATTGGGTTTGAGCTTGGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCATTCAATTCCAACGCTTTTTTAAATGTGATAAACCTAGACACCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATTTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGGAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGACATTTACCAATTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCATTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATTTGGGTAATGGGAATTCTAACATGATTGATGT
GAGTTTGGAAAGCTTGGGGCGTTATTTGAAAATCTTTAATTCGGATTCTAGTCATGTGAATAAAGTGAAAGCGTTGCAAA
AAGACTACCCTACAGAGTGGCGTGAGAAACTTTTGAAGAGTTAG

Domains

Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(425-466)

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

98.221

100

0.982

Multiple sequence alignment