Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   D4J00_RS07085 Genome accession   NZ_CP032478
Coordinates   1443800..1446163 (-) Length   787 a.a.
NCBI ID   WP_139519886.1    Uniprot ID   -
Organism   Helicobacter pylori strain 25-A-EK9     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1438800..1451163
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D4J00_RS07060 lpxE 1439337..1439870 (+) 534 WP_236634821.1 lipid A 1-phosphatase LpxE -
  D4J00_RS07065 nspC 1439880..1441097 (-) 1218 WP_139519883.1 carboxynorspermidine decarboxylase -
  D4J00_RS07070 cheV1 1441094..1442059 (-) 966 WP_003013557.1 chemotaxis protein CheV1 -
  D4J00_RS07075 - 1442158..1443498 (-) 1341 WP_201736749.1 COG3014 family protein -
  D4J00_RS07085 comB4 1443800..1446163 (-) 2364 WP_139519886.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  D4J00_RS07090 comB3 1446165..1446428 (-) 264 WP_000584956.1 hypothetical protein Machinery gene
  D4J00_RS07095 comB2 1446428..1446709 (-) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  D4J00_RS07100 - 1446855..1447682 (-) 828 WP_139519888.1 DUF5718 family protein -
  D4J00_RS07105 - 1447771..1448823 (-) 1053 WP_139519889.1 MnmA/TRMU family protein -
  D4J00_RS07110 dnaG 1448820..1450499 (-) 1680 WP_139519891.1 DNA primase -
  D4J00_RS07120 groES 1450787..1451143 (+) 357 WP_000671920.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90293.69 Da        Isoelectric Point: 8.2704

>NTDB_id=316281 D4J00_RS07085 WP_139519886.1 1443800..1446163(-) (comB4) [Helicobacter pylori strain 25-A-EK9]
MLEKLLNAVKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGVLRLEGVSYTHLSTDQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQADSQYLQAILNQFENKEVYENQYFLVLESTHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAVGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLILGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAISSAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLSLSLEPYLNNPLFNALNDAFNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNTKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHNFNVPLSETEIS
FLENTPLYARQVLVKNLGNGNSNMIDVSLESLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=316281 D4J00_RS07085 WP_139519886.1 1443800..1446163(-) (comB4) [Helicobacter pylori strain 25-A-EK9]
ATGTTAGAAAAGCTTTTGAACGCTGTCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCCAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCACTTTTTACTCACTAAGAATGAAAACTTAGTGGGCGTTCTCC
GTTTAGAAGGGGTGAGTTACACCCATTTAAGCACAGATCAATTGCAAGATCTTTTCACCGAGCGCCAGATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCACGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAGCAAAACATTCAAGCTGACTCTCA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAACAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCACTC
ACTCTTTACAAGGTGTTTTGGAGCATAAGAAAAAATCTCTCATGCATGCCAATAGGGAAAATTTTAAGGATATTCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGTTTAGAAATCCAGCTCAAAAACTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTATGCAGAATACATTAACGGGTTTGATCTCCCTTTAAAGCCCCTAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCCATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTACAAC
CGCTTGATTGGTATTAAAGCTTATGAAAGCGAAAGGATCACTTCTATAGCGGTGGGAGCGCTTTTATACCAAGAGACGCC
TTTAGATATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGAGTTTTTTAAAAGAGAGGGCCAAGTTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAACTGGTCAAAACCAAACGATTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACCAGCTTAATTTTAGGGCTTTTATTTAAAGA
AAATTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTGAACC
ACCGCTTGCGTTTTTTAACTTCTAAAGCTTTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGCTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCCAGAGTGAACGGGCATACTTTAATCATAGGGGCTACTGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCCTTTGACAGGATGCAAGGGCTG
TATTCTTTCACCAAATTTTTTAAAGGGCATTACCATGACGGCCAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCCTAG
AAGACATGAATGCGATTTCTAGCGCGATTAAGAGCCTTTATGAGACTTTATACCCTAAAGATTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGAGCTTGAGCTTGGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGATGCGTTCAACTCCAACGCTTTTTTAAATGTGATAAACCTAGATACCATCACCCAAAACCCCAAAGACTTAG
GGCTGTTAGCCTATTACTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTACTGAACACCAAAATCAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGACATTTACCAATTAAGCGGGGTCAAAAACGCTCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTAAAACACAACTTCAATGTGCCTTTGAGCGAGACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAACGGGAATTCTAACATGATTGATGT
GAGTTTAGAAAGTTTGGGGCGTTATTTGAAAATCTTTAATTCGGATTCTAGTCATGTCAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTACAGAGTGGCGTGAAAAACTTTTGAAGAGCTAG

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