Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HPSH112_RS00105 Genome accession   NC_017741
Coordinates   13977..16340 (+) Length   787 a.a.
NCBI ID   WP_000890504.1    Uniprot ID   -
Organism   Helicobacter pylori Shi112     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 8977..21340
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPSH112_RS00075 (HPSH112_00050) groES 9005..9361 (-) 357 WP_000671959.1 co-chaperone GroES -
  HPSH112_RS00080 (HPSH112_00055) dnaG 9636..11315 (+) 1680 WP_000601511.1 DNA primase -
  HPSH112_RS00085 (HPSH112_00060) - 11312..12364 (+) 1053 WP_000802571.1 MnmA/TRMU family protein -
  HPSH112_RS00090 (HPSH112_00065) - 12456..13283 (+) 828 WP_001154896.1 DUF5718 family protein -
  HPSH112_RS00095 (HPSH112_00070) comB2 13431..13712 (+) 282 WP_001272686.1 TrbC/VirB2 family protein Machinery gene
  HPSH112_RS00100 (HPSH112_00075) comB3 13712..13975 (+) 264 WP_000584955.1 hypothetical protein Machinery gene
  HPSH112_RS00105 (HPSH112_00080) comB4 13977..16340 (+) 2364 WP_000890504.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HPSH112_RS00110 (HPSH112_00085) - 16571..18001 (+) 1431 WP_195154951.1 COG3014 family protein -
  HPSH112_RS00115 (HPSH112_00090) cheV1 18097..19062 (+) 966 WP_000132343.1 chemotaxis protein CheV1 -
  HPSH112_RS00120 (HPSH112_00095) nspC 19059..20276 (+) 1218 WP_000760883.1 carboxynorspermidine decarboxylase -
  HPSH112_RS00125 (HPSH112_00100) lpxE 20286..20819 (-) 534 WP_228921250.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90299.87 Da        Isoelectric Point: 8.8745

>NTDB_id=50528 HPSH112_RS00105 WP_000890504.1 13977..16340(+) (comB4) [Helicobacter pylori Shi112]
MLEKLLSAIKQKVSNYFLGVLPKSYSMSEENNILGLYDEHFLLTKNENLVGILRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQSDSKYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPLVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDAQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMRLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAISGAIKSLYETLYPKDFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSNAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNRSSNMIDVSLESLGRYLKIFNSDSSHVNKVKALQKDYPTEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=50528 HPSH112_RS00105 WP_000890504.1 13977..16340(+) (comB4) [Helicobacter pylori Shi112]
ATGTTAGAAAAGCTTTTGAGCGCCATCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAGCGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTGCTCACTAAAAACGAAAACTTAGTGGGTATCCTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGTACAGAGCAATTGCAAGATCTCTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCGCGCCTTGTGGTTAAAAGGCGCAAAATTGATCACCAACAAAACATTCAATCTGATTCTAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGTGCGC
ATTCTTTACAAGGCGTTTTAGAGCATAAGAAAAAATCTCTTATGCATGCCAATAGGGAAAATTTTAAGGACATCCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAACTATGCCCCCAAACTCTTAAGCTC
CAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCTTTAAAGCCCCTAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTGTACCAAGAAACGCC
CTTAGACATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGAGTTTTTTAAAAGAGAGGGCCAAATTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAACTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACGCTCAAACAAGCTTAGTTTTAGGGCTTTTATTTAAAGA
AAACCTAGTGGGCGTTATAGAAACTTTTGGCTTGAAGGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCATTTAAACC
ACCGCTTGCGTTTTTTAACCTCTAAAGCCCTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCTAGAGTGAATGGGCATACTCTAATCATAGGGGCCACTGGGAGCGGTAAAAGCA
CGCTGATTAGTTTTTTAATGATGAGCGCTTTGAAATACCAAAACATGCGCCTTTTAGCTTTTGACAGGATGCAAGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTCTGGCGCGATTAAGAGCCTTTATGAGACCTTATACCCTAAAGATTTTAGTTTGCTAGATTTT
AAAGAGACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
TTTGAATGACGCATTCAACTCCAACGCTTTTTTAAATGTGATAAACCTAGACACCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAAATTTTAGAAGAGTCCAGGAAAAACGACAGCGGTTTTTTGGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAGAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAAGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGATATTTACCAATTAAGCGGGGTTAAAAACGCTCATAGTTTTTTGAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAATAGGAGTTCTAACATGATTGATGT
GAGTTTGGAAAGTTTGGGGCGTTATTTGAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
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

98.221

100

0.982

Multiple sequence alignment