Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HMPREF4655_RS01090 Genome accession   NC_017360
Coordinates   218894..221257 (+) Length   787 a.a.
NCBI ID   WP_000890533.1    Uniprot ID   -
Organism   Helicobacter pylori 35A     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 213894..226257
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HMPREF4655_RS01060 (HMPREF4655_20215) groES 213926..214282 (-) 357 WP_000671946.1 co-chaperone GroES -
  HMPREF4655_RS01065 (HMPREF4655_20216) dnaG 214557..216236 (+) 1680 WP_000601606.1 DNA primase -
  HMPREF4655_RS01070 (HMPREF4655_20217) - 216233..217285 (+) 1053 WP_000721164.1 MnmA/TRMU family protein -
  HMPREF4655_RS01075 (HMPREF4655_20218) - 217376..218203 (+) 828 WP_001154894.1 DUF5718 family protein -
  HMPREF4655_RS01080 (HMPREF4655_20219) comB2 218348..218629 (+) 282 WP_001272686.1 TrbC/VirB2 family protein Machinery gene
  HMPREF4655_RS01085 (HMPREF4655_20220) comB3 218629..218892 (+) 264 WP_000584955.1 hypothetical protein Machinery gene
  HMPREF4655_RS01090 (HMPREF4655_20221) comB4 218894..221257 (+) 2364 WP_000890533.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HMPREF4655_RS01095 (HMPREF4655_20222) - 221488..222918 (+) 1431 WP_014534522.1 COG3014 family protein -
  HMPREF4655_RS01100 (HMPREF4655_20223) cheV1 223019..223984 (+) 966 WP_000785497.1 chemotaxis protein CheV1 -
  HMPREF4655_RS01105 (HMPREF4655_20224) nspC 223981..225198 (+) 1218 WP_000760827.1 carboxynorspermidine decarboxylase -
  HMPREF4655_RS01110 (HMPREF4655_20225) lpxE 225208..225741 (-) 534 WP_228839881.1 lipid A 1-phosphatase LpxE -

Sequence

Protein


Download         Length: 787 a.a.        Molecular weight: 90210.77 Da        Isoelectric Point: 8.8735

>NTDB_id=46787 HMPREF4655_RS01090 WP_000890533.1 218894..221257(+) (comB4) [Helicobacter pylori 35A]
MLEKLLSAVKQKVSNYFLGVLPKSYSMNEENNILGLYDEHFLLTKNENLVGIFRLEGVSYTHLSTEQLQDLFTERQMALD
SLEKVVARLVVKRRKIDHQQNIQSDSKYLQAILNQFENKEVYENQYFLVLESAHSLQGVLEHKKKSLMHANRENFKDILS
YKAHFLQETLKSLEIQLKNYAPKLLSSKEVLNFYAEYINGFDLPLKPPVGGYLSDSYIASSITFEKDYFIQESFNQKTYN
RLIGIKAYESERITSIAIGALLYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFA
LNILIKAPSLEDLDTQTSLVLGLLFKENLVGVIETFGLKGGYFSFFPERIHLNHRLRFLTSKALACLMVFERQNLGFKAN
SWGNSPLSVFKNLDYSPFLFNFHNQEVSHNNAKEIARVNGHTLIIGATGSGKSTLISFLMMSALKYQNMHLLAFDRMQGL
YSFTKFFKGHYHDGKSFSINPFCLEPNLQNLEFLQSFFLSMFDLAPSRDKEALEDMNAILGAIKSLYETLYPKSFSLLDF
KETLKRTSSNQLGLSLEPYLNNPLFNALNDAFNSSAFLNVINLDTITQNPKDLGLLAYYLFYKILEESRKNDSGFLVFLD
EFKSYVENDLLNAKINALITQARKANGVVVLALQDIYQLSGVKNAHSFLSNMGTLILYPQKNARELKHHFNVPLSETEIS
FLENTPLYARQVLVKNLGNGSSNMIDVSLEGLGRYLKIFNSDSSHVNKVKALQKDYPKEWREKLLKS

Nucleotide


Download         Length: 2364 bp        

>NTDB_id=46787 HMPREF4655_RS01090 WP_000890533.1 218894..221257(+) (comB4) [Helicobacter pylori 35A]
ATGTTAGAAAAGCTTTTGAGCGCTGTCAAACAAAAAGTTTCAAACTATTTTTTAGGGGTTTTGCCTAAAAGCTATTCTAT
GAACGAAGAAAACAACATTTTAGGCTTGTATGATGAGCATTTTTTACTCACTAAAAACGAAAACTTAGTGGGAATTTTCC
GTTTAGAGGGGGTGAGTTACACCCATTTAAGCACAGAGCAATTGCAAGATCTTTTCACCGAGCGCCAAATGGCGTTGGAT
TCTTTAGAAAAAGTCGTGGCACGCCTTGTGGTTAAAAGGCGTAAAATTGATCACCAACAAAACATTCAATCTGACTCTAA
ATACTTGCAAGCGATTTTGAATCAATTTGAAAATAAAGAAGTGTATGAAAATCAGTATTTTTTAGTTTTAGAAAGCGCGC
ACTCTTTACAAGGCGTTTTAGAGCATAAGAAAAAATCCTTAATGCATGCCAATAGGGAAAATTTTAAGGACATCCTCTCT
TATAAAGCGCATTTTTTGCAAGAAACTTTAAAAAGCTTAGAAATCCAGCTCAAAAACTACGCCCCCAAACTCTTAAGCTC
CAAAGAGGTTTTGAATTTTTATGCGGAATACATTAACGGGTTTGATCTCCCTTTAAAGCCCCCAGTAGGGGGGTATTTGA
GCGATAGTTATATCGCTAGTTCTATCACTTTTGAAAAAGATTATTTCATTCAAGAAAGCTTTAATCAAAAAACCTATAAC
CGCTTGATTGGCATTAAAGCTTATGAGAGCGAGCGCATCACTTCTATAGCGATCGGAGCGCTTTTATACCAAGAAACGCC
CTTAGACATTATCTTTTCTATAGAGCCTATGAGCGTCAATAAAACGCTGAGTTTTTTAAAAGAGAGGGCCAAATTTAGCA
TGTCCAATCTCGTTAAAAACGAGCTGCTAGAATACCAAGAACTAGTCAAAACCAAACGCCTATCCATGCAAAAATTCGCC
CTAAACATTCTTATCAAAGCCCCTAGTTTAGAGGATTTAGACACTCAAACAAGCTTAGTTTTAGGGCTTTTATTTAAAGA
AAACTTAGTGGGCGTTATAGAAACTTTTGGCTTGAAGGGGGGGTATTTTTCCTTTTTCCCTGAACGCATCCACTTAAACC
ACCGCCTGCGTTTTTTAACCTCTAAAGCCTTAGCGTGTTTAATGGTGTTTGAAAGGCAAAATTTAGGTTTTAAGGCTAAT
TCATGGGGGAATAGCCCTTTGAGCGTGTTTAAAAATTTGGATTATTCCCCTTTTTTATTCAATTTCCACAACCAAGAAGT
GAGCCACAACAACGCTAAAGAAATCGCCAGAGTGAATGGGCATACTCTAATCATAGGAGCTACCGGGAGCGGTAAAAGCA
CGCTGATTAGCTTTTTAATGATGAGTGCTTTGAAATACCAAAACATGCACCTTTTAGCATTTGATAGGATGCAAGGGCTG
TATTCTTTCACAAAATTTTTTAAAGGGCATTACCATGACGGCAAATCTTTTAGCATCAACCCCTTTTGTTTAGAGCCTAA
TTTGCAGAATTTAGAATTTTTGCAATCCTTCTTTTTGAGCATGTTTGATCTTGCCCCTTCAAGGGATAAAGAAGCCTTAG
AAGACATGAATGCGATTTTGGGTGCGATTAAGAGCCTTTATGAAACTTTATACCCTAAATCTTTTAGTTTGCTAGACTTT
AAAGAAACGCTTAAAAGAACCTCATCTAACCAATTGGGCTTGAGTTTAGAGCCGTATTTGAATAACCCCCTTTTTAACGC
CTTGAATGACGCGTTCAACTCTAGCGCTTTTTTAAATGTGATAAACCTAGACACCATCACCCAAAACCCTAAAGACTTAG
GGCTTTTAGCCTATTATTTGTTTTATAAAATCTTAGAAGAATCCAGGAAAAACGACAGCGGTTTTTTAGTTTTTTTAGAC
GAGTTTAAATCCTATGTGGAAAACGATTTATTGAACGCTAAAATTAACGCTTTAATCACGCAAGCCAGAAAGGCTAATGG
CGTGGTGGTGTTGGCTTTGCAAGACATTTACCAATTAAGCGGGGTTAAAAACGCCCATAGTTTTTTAAGCAACATGGGGA
CTCTTATTTTGTATCCGCAAAAAAACGCTAGGGAGTTGAAACACCACTTCAATGTGCCTTTGAGCGAAACTGAAATTTCT
TTTTTAGAAAACACCCCTTTGTATGCCAGGCAGGTTTTAGTCAAAAATCTGGGTAATGGGAGTTCTAACATGATTGATGT
GAGTTTGGAGGGTTTGGGGCGTTATTTGAAAATCTTTAATTCAGACTCTAGCCATGTGAATAAAGTGAAAGCGTTACAAA
AAGACTACCCTAAAGAGTGGCGTGAGAAACTTTTGAAGAGCTAG

Domains

Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(426-468)

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

97.078

100

0.971

Multiple sequence alignment