Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HPSJM_RS00105 Genome accession   NC_014560
Coordinates   14359..16722 (+) Length   787 a.a.
NCBI ID   WP_000890259.1    Uniprot ID   -
Organism   Helicobacter pylori SJM180     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 9359..21722
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPSJM_RS00075 (HPSJM_00065) groES 9382..9738 (-) 357 WP_000671934.1 co-chaperone GroES -
  HPSJM_RS00080 (HPSJM_00070) dnaG 10021..11700 (+) 1680 WP_000601637.1 DNA primase -
  HPSJM_RS00085 (HPSJM_00075) - 11697..12749 (+) 1053 WP_000721210.1 MnmA/TRMU family protein -
  HPSJM_RS00090 (HPSJM_00080) - 12839..13666 (+) 828 WP_001154970.1 DUF5718 family protein -
  HPSJM_RS00095 (HPSJM_00085) comB2 13813..14094 (+) 282 WP_001272690.1 TrbC/VirB2 family protein Machinery gene
  HPSJM_RS00100 (HPSJM_00090) comB3 14094..14357 (+) 264 WP_000584956.1 hypothetical protein Machinery gene
  HPSJM_RS00105 (HPSJM_00095) comB4 14359..16722 (+) 2364 WP_000890259.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HPSJM_RS00110 (HPSJM_00100) - 17027..18367 (+) 1341 WP_013356313.1 COG3014 family protein -
  HPSJM_RS00115 (HPSJM_00105) cheV1 18469..19434 (+) 966 WP_000785455.1 chemotaxis protein CheV1 -
  HPSJM_RS00120 (HPSJM_00110) nspC 19431..20648 (+) 1218 WP_000760824.1 carboxynorspermidine decarboxylase -
  HPSJM_RS00125 (HPSJM_00115) lpxE 20658..21230 (-) 573 WP_000713907.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90288.72 Da        Isoelectric Point: 8.2795

>NTDB_id=38574 HPSJM_RS00105 WP_000890259.1 14359..16722(+) (comB4) [Helicobacter pylori SJM180]
MLEKFLGAIKQKVSNYFLGALPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDYQQNIQSDSKHLQAILNQFENKEVYENRYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKVHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAVGALLYQETPLDIIFSIEPMSVHKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLVIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTEFFKGHYHDGQSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAISSAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLSLSLEPYLNNPLFNALNDAFNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNTKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=38574 HPSJM_RS00105 WP_000890259.1 14359..16722(+) (comB4) [Helicobacter pylori SJM180]
ATGTTAGAAAAGTTTTTAGGCGCTATCAAACAAAAAGTTTCAAATTATTTTTTAGGGGCTTTGCCTAAAAGCTATTCTAT
GAGTGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAACTTAGTGGGAATCCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTGGAAAAAGTCGTGGCGCGCCTGGTGGTTAAAAGGCGTAAAATTGATTATCAACAAAACATTCAATCTGATTCTAA
ACACTTGCAAGCGATCTTGAATCAGTTTGAAAACAAAGAAGTGTATGAAAATCGGTATTTTTTGGTTTTAGAAAGCGCGC
ATTCCTTGCAGGGCGTTTTGGAGCATAAGAAAAAATCTCTCATGCATGCCAATAGGGAAAATTTTAAGGATATTCTCTCT
TATAAAGTGCATTTTTTGCAAGAAACTTTAAAAAGTTTAGAAATCCAGCTCAAAAATTATGCCCCCAAACTCTTAAGCTC
TAAAGAGGTTTTGAATTTTTACGCAGAATACATTAACGGGTTTGATCTCCCCCTAAAGCCCCTAGTAGGGGGGTATTTGA
GCGATAGCTATATCGCTAGTTCCATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTCAATCAAAAAACCTACAAC
CGCTTGATTGGTATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGGTGGGAGCGCTTTTATACCAAGAAACGCC
TTTAGATATCATCTTTTCTATAGAGCCTATGAGTGTGCATAAAACGCTGAGTTTTTTAAAAGAGAGAGCCAAATTTAGCA
TGTCTAATCTCGTTAAAAACGAGCTTTTAGAATACCAAGAATTAGTCAAAACTAAACGATTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACAAGCTTAGTTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAAGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCCTAGCGTGTTTGATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAATAACGCTAAAGAAATCGCCAGAGTGAATGGGCATACTTTAGTTATAGGGGCAACCGGAAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCCTTTGACAGGATGCAAGGGCTG
TATTCTTTCACCGAATTTTTTAAAGGGCATTACCATGATGGCCAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTACAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTCGCCCCTTCAAGGGATAAAGAAGCCCTAG
AAGACATGAATGCGATTTCTAGCGCGATTAAGAGCCTTTATGAGACTTTATACCCTAAAGATTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACTTCATCTAACCAACTAAGCTTGAGCTTGGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCATTCAATTCCAACGCTTTTTTAAATGTGATAAACCTAGACACCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTACTTGTTTTATAAAATTTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACACCAAAATCAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGACATTTACCAATTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTCATTTTGTACCCGCAAAAAAACGCTAGGGAGTTGAAACACCACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGACAGGTTTTAGTCAAAAATCTGGGTAACGGGAGTTCCAACATGATTGATGT
GAGTTTGGAGGGCTTGGGGCGTTATTTGAAAATCTTTAATTCAGATTCTAGCCATGTCAATAAAGTGAAAGCGTTACAAA
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

97.332

100

0.973

Multiple sequence alignment