Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HG561_RS00095 Genome accession   NZ_CP051506
Coordinates   12079..14442 (+) Length   787 a.a.
NCBI ID   WP_202168477.1    Uniprot ID   -
Organism   Helicobacter pylori strain SHIM-007     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 7079..19442
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HG561_RS00065 (HG561_00065) groES 7110..7466 (-) 357 WP_000671956.1 co-chaperone GroES -
  HG561_RS00070 (HG561_00070) dnaG 7741..9420 (+) 1680 WP_202168474.1 DNA primase -
  HG561_RS00075 (HG561_00075) - 9417..10469 (+) 1053 WP_202168475.1 MnmA/TRMU family protein -
  HG561_RS00080 (HG561_00080) - 10561..11388 (+) 828 WP_202168476.1 DUF5718 family protein -
  HG561_RS00085 (HG561_00085) comB2 11533..11814 (+) 282 WP_001272686.1 TrbC/VirB2 family protein Machinery gene
  HG561_RS00090 (HG561_00090) comB3 11814..12077 (+) 264 WP_000584955.1 hypothetical protein Machinery gene
  HG561_RS00095 (HG561_00095) comB4 12079..14442 (+) 2364 WP_202168477.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HG561_RS00105 (HG561_00105) - 14673..16103 (+) 1431 WP_195154951.1 COG3014 family protein -
  HG561_RS00110 (HG561_00110) cheV1 16199..17164 (+) 966 WP_202168478.1 chemotaxis protein CheV1 -
  HG561_RS00115 (HG561_00115) nspC 17161..18378 (+) 1218 WP_202168479.1 carboxynorspermidine decarboxylase -
  HG561_RS00120 (HG561_00120) lpxE 18388..18921 (-) 534 WP_237393129.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90196.74 Da        Isoelectric Point: 8.7109

>NTDB_id=439302 HG561_RS00095 WP_202168477.1 12079..14442(+) (comB4) [Helicobacter pylori strain SHIM-007]
MLEKLLSAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQSDSKYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAYFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFLQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAISGAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=439302 HG561_RS00095 WP_202168477.1 12079..14442(+) (comB4) [Helicobacter pylori strain SHIM-007]
ATGTTAGAAAAGCTTTTGAGCGCCATCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTCTTGCTCACTAAAAACGAAAACTTGGTGGGAATCCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAATCTGATTCTAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCGC
ACTCTTTACAAGGCGTTTTAGAGCATAAGAAAAAATCTCTTATGCATGCCAATAGGGAAAATTTTAAGGATATTCTCTCT
TATAAGGCGTATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAATTATGCTCCCAAACTCTTAAGCTC
CAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCTTTAAAGCCCCTAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCCTTCAAGAGAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAAACGCC
CTTAGACATTATCTTTTCTATAGAGCCTATGAGCGTCAACAAAACGCTGAGCTTTTTAAAAGAGAGGGCCAAATTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAGCTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACAAGCTTAGTTTTAGGGCTTTTATTTAAAGA
AAACCTAGTGGGCGTTATAGAAACTTTTGGCTTGAAGGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCCTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAATAACGCTAAAGAAATCGCTAGAGTGAATGGGCATACTCTAATCATAGGGGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCTTTTGACAGGATGCAAGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAACCCCTTTTGCTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTCTGGTGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGATTTTAGTTTGCTAGATTTT
AAAGAGACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCGTTCAACTCCAACGCTTTTTTAAATGTGATAAACCTAGACACCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGACATTTACCAATTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTACCCGCAAAAAAACGCTAGGGAGTTGAAACACCACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCTAGGCAGGTTTTAGTCAAAAATCTGGGTAACGGGAGTTCTAACATGATTGATGT
GAGCTTGGAGGGTTTGGGGCGTTATTTGAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
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

97.967

100

0.98