Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HPKB_RS00105 Genome accession   NC_017354
Coordinates   14361..16724 (+) Length   787 a.a.
NCBI ID   WP_000890535.1    Uniprot ID   -
Organism   Helicobacter pylori 52     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 9361..21724
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPKB_RS00075 (HPKB_0014) groES 9392..9748 (-) 357 WP_000671953.1 co-chaperone GroES -
  HPKB_RS00080 (HPKB_0015) dnaG 10023..11703 (+) 1681 Protein_9 DNA primase -
  HPKB_RS00085 (HPKB_0016) - 11700..12752 (+) 1053 WP_000721154.1 MnmA/TRMU family protein -
  HPKB_RS00090 (HPKB_0017) - 12842..13669 (+) 828 WP_001154915.1 DUF5718 family protein -
  HPKB_RS00095 (HPKB_0018) comB2 13814..14095 (+) 282 WP_001272686.1 TrbC/VirB2 family protein Machinery gene
  HPKB_RS00100 (HPKB_0019) comB3 14095..14358 (+) 264 WP_000584979.1 hypothetical protein Machinery gene
  HPKB_RS00105 (HPKB_0020) comB4 14361..16724 (+) 2364 WP_000890535.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HPKB_RS00110 (HPKB_0021) - 17046..18386 (+) 1341 WP_042348982.1 COG3014 family protein -
  HPKB_RS00115 (HPKB_0022) cheV1 18487..19452 (+) 966 WP_000785475.1 chemotaxis protein CheV1 -
  HPKB_RS00120 (HPKB_0023) nspC 19449..20666 (+) 1218 WP_000760878.1 carboxynorspermidine decarboxylase -
  HPKB_RS00125 (HPKB_0024) lpxE 20676..21209 (-) 534 WP_228839865.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90107.70 Da        Isoelectric Point: 8.8746

>NTDB_id=46703 HPKB_RS00105 WP_000890535.1 14361..16724(+) (comB4) [Helicobacter pylori 52]
MLEKLLSAVKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQSDSKYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLNSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQEGFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARANGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAILSAIKSLYETLYPKAFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDAITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=46703 HPKB_RS00105 WP_000890535.1 14361..16724(+) (comB4) [Helicobacter pylori 52]
ATGTTAGAAAAGCTTTTGAGTGCTGTCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTCTTGCTCACTAAAAACGAAAACTTGGTGGGAATTCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTCTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAATCTGACTCTAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCGC
ATTCTTTACAAGGCGTTTTAGAGCATAAGAAAAAATCTCTCATGCATGCCAATAGGGAAAATTTTAAGGACATCCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAACTATGCCCCCAAACTCTTAAATTC
CAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGACCTCCCTTTAAAGCCCCTAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAGGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAAACGCC
CTTAGATATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGAGTTTTTTAAAAGAGAGAGCCAAATTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAACTGGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACAAGCTTAGTTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAGGGGGGGTATTTTTCCTTTTTTCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCCTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAACTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCCAGAGCGAATGGGCATACTCTAATCATAGGGGCTACTGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCATTTGATAGGATGCAAGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTTGAGCGCGATTAAGAGCCTTTATGAAACCTTATACCCTAAAGCTTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTAAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCATTCAACTCCAACGCTTTTTTAAATGTGATAAACCTAGATGCCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCCTTACAAGATATTTACCAATTAAGCGGGGTTAAAAACGCTCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCATTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGACAGGTTTTAGTCAAAAATCTGGGTAACGGGAGTTCTAACATGATTGATGT
GAGTTTGGAGGGTTTGGGGCGTTATTTGAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
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

97.713

100

0.977

Multiple sequence alignment