Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4L56_RS07340 Genome accession   NZ_CP032898
Coordinates   1504488..1506851 (-) Length   787 a.a.
NCBI ID   WP_139518926.1    Uniprot ID   -
Organism   Helicobacter pylori strain 479-C-EK2     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1499488..1511851
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4L56_RS07315 lpxE 1499984..1500517 (+) 534 WP_236635105.1 lipid A 1-phosphatase LpxE -
  D4L56_RS07320 nspC 1500540..1501757 (-) 1218 WP_139518924.1 carboxynorspermidine decarboxylase -
  D4L56_RS07325 cheV1 1501754..1502719 (-) 966 WP_000785468.1 chemotaxis protein CheV1 -
  D4L56_RS07330 - 1502827..1504167 (-) 1341 WP_180339199.1 COG3014 family protein -
  D4L56_RS07340 comB4 1504488..1506851 (-) 2364 WP_139518926.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4L56_RS07345 comB3 1506853..1507116 (-) 264 WP_000584973.1 hypothetical protein Machinery gene
  D4L56_RS07350 comB2 1507116..1507397 (-) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  D4L56_RS07355 - 1507544..1508371 (-) 828 WP_139518927.1 DUF5718 family protein -
  D4L56_RS07360 - 1508461..1509513 (-) 1053 WP_139518928.1 MnmA/TRMU family protein -
  D4L56_RS07365 dnaG 1509510..1511189 (-) 1680 WP_139518929.1 DNA primase -
  D4L56_RS07375 groES 1511463..1511819 (+) 357 WP_000671934.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90198.72 Da        Isoelectric Point: 8.7213

>NTDB_id=320046 D4L56_RS07340 WP_139518926.1 1504488..1506851(-) (comB4) [Helicobacter pylori strain 479-C-EK2]
MLEKLLGAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQADSQYLQAILNQFENKEVYENQYFLVLESTHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAVGALLYQETPLDIIFSIEPMSTHKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDTQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLTPSRDKEALEDMNAISSAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSSAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNTKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=320046 D4L56_RS07340 WP_139518926.1 1504488..1506851(-) (comB4) [Helicobacter pylori strain 479-C-EK2]
ATGTTAGAAAAGCTTTTAGGCGCTATCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAACTTAGTAGGCATTCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACTGAACGCCAAATGGCGTTGGAT
TCTTTAGAAAAGGTCGTGGCGCGCCTGGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAAGCTGACTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCACCC
ATTCTTTACAGGGCGTTTTAGAGCATAAGAAAAAATCCTTAATGCATGCCAATAGGGAAAATTTTAAGGACATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCAGAATACATTAATGGGTTTGATCTCCCCCTAAAGCCCCTAGTAGGGGGGTATTTGA
GTGATAGTTATATCGCTAGTTCCATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTACAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGGTGGGAGCACTTTTATACCAAGAGACGCC
ACTAGATATTATCTTTTCCATAGAACCTATGAGCACGCATAAAACGCTGAGTTTTTTAAAAGAGAGAGCCAAGTTTAGCA
TGTCCAATCTTGTTAAAAACGAGCTGCTAGAATACCAAGAATTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCCAGTCTAGAGGATTTAGACACTCAAACCAGCTTAATTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCACTTAAACC
ACCGCTTGCGTTTTTTAACTTCTAAAGCCCTAGCGTGTTTGATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCTAGAGTGAATGGGCATACTCTAATCATAGGGGCTACCGGAAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCCTTTGACAGGATGCAAGGGCTG
TATTCTTTCACCAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAATCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTACCCCTTCAAGGGATAAAGAAGCCTTAG
AAGATATGAATGCGATTTCTAGCGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGCCTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGATGCGTTCAATTCCAGTGCTTTTTTAAATGTAATCAACTTAGACGCTATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATTTTAGAAGAATCTAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACACTAAAATTAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCCTTGCAAGATATTTACCAATTAAGCGGGGTCAAAAACGCTCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAATTGAAACACCATTTCAATGTGCCTTTGAGCGAGACTGAAATTTCA
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAACGGGAGTTCCAACATGATTGATGT
GAGTTTGGAGGGCTTGGGGCGTTATTTGAAAATCTTTAATTCAGATTCTAGCCATGTCAATAAAGTGAAAGCGTTACAAA
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

97.84

100

0.978

Multiple sequence alignment