Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB4   Type   Machinery gene
Locus tag   HPGAM_RS07225 Genome accession   NC_017371
Coordinates   1516315..1518891 (-) Length   858 a.a.
NCBI ID   WP_000893951.1    Uniprot ID   -
Organism   Helicobacter pylori Gambia94/24     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1511315..1523891
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPGAM_RS07205 (HPGAM_07485) comB10 1512192..1513400 (-) 1209 WP_000814184.1 DNA type IV secretion system protein ComB10 Machinery gene
  HPGAM_RS07210 (HPGAM_07490) - 1513397..1515052 (-) 1656 WP_000617222.1 TrbG/VirB9 family P-type conjugative transfer protein -
  HPGAM_RS07215 (HPGAM_07495) - 1515049..1516185 (-) 1137 WP_000067689.1 VirB8/TrbF family protein -
  HPGAM_RS08990 (HPGAM_07500) - 1516178..1516318 (-) 141 WP_000789929.1 hypothetical protein -
  HPGAM_RS07225 (HPGAM_07505) comB4 1516315..1518891 (-) 2577 WP_000893951.1 VirB4 family type IV secretion/conjugal transfer ATPase Machinery gene
  HPGAM_RS07230 (HPGAM_07510) - 1518891..1519127 (-) 237 WP_001168536.1 hypothetical protein -
  HPGAM_RS07235 (HPGAM_07515) comB3 1519139..1519402 (-) 264 WP_001177718.1 hypothetical protein Machinery gene
  HPGAM_RS07240 (HPGAM_07520) comB2 1519414..1519698 (-) 285 WP_000413637.1 TrbC/VirB2 family protein Machinery gene
  HPGAM_RS07245 (HPGAM_07525) - 1519686..1520174 (-) 489 WP_000571144.1 hypothetical protein -
  HPGAM_RS07250 (HPGAM_07530) - 1520167..1520397 (-) 231 WP_000189080.1 hypothetical protein -
  HPGAM_RS07255 (HPGAM_07535) - 1520400..1521188 (-) 789 WP_001140581.1 hypothetical protein -
  HPGAM_RS08580 (HPGAM_07540) - 1521166..1521714 (-) 549 WP_014536024.1 restriction endonuclease subunit S -
  HPGAM_RS07265 (HPGAM_07545) purU 1521756..1522637 (-) 882 WP_000889117.1 formyltetrahydrofolate deformylase -
  HPGAM_RS07270 (HPGAM_07550) sppA 1522640..1523518 (-) 879 WP_000269572.1 signal peptide peptidase SppA -
  HPGAM_RS07275 (HPGAM_07555) - 1523589..1523849 (+) 261 WP_000752265.1 hypothetical protein -

Sequence

Protein


Download         Length: 858 a.a.        Molecular weight: 98554.68 Da        Isoelectric Point: 8.6958

>NTDB_id=37973 HPGAM_RS07225 WP_000893951.1 1516315..1518891(-) (comB4) [Helicobacter pylori Gambia94/24]
MLESALKYCKEKAIDLLAGFVPKTYSMAQECNILGLYDDTFIITKQENLVGIISLQGLSYSNLMQKDLEGYFDTRQNVLN
TISKDIQLRIVAKRRKEFINQSPNIDNIYAKAIITQFESKEIYKTEYFLVFETITSNVKSFFEKKKLEMTTSINEELEES
SKEDKQENENSSNETHSNTSSKKDKKNKFKKKITFSTTSKRALLIQTIERVKNALKEFKPTLLNSKEVLNFYAEYINGKY
IAFNPKLKRLSDSYIASNVHFKKDYFVIEFQNQNTFCACVGIKAYESEEISSLPISTLLHTQIELDLIFHIRSLGQFESL
NFLKTKKKLTLSKIVKADIDNYIELVQANRLSMQECALNLVIRAKSKAKLDKSLKEILSLLNNAGLGSVTETIGLKPSYF
SFFPNNANINPRMRHQTSQVIASLILFEKNNTGFRANSWGDMPLSVFKNLDHSPYLFNFHNQEVKHKGVLAHNVARVVGH
TMIIGATGAGKTTLISYLMMSALKYSNIDILALDRLNGLYSFTKYFDGIYNQGENFHINPFSLEDSATNRAFLLHFYAQM
AKVDSYDDHKDKVEDRTALLNAIDTMYRNYNDEVKQAKFSNQELPLPFDLKEFVNAIVKTNTDILDSSFEDYLKSSLFSS
RMDSLDFKTRISTINTDSILHNDDDAGLLAYYVFHKMIDRALKINRGFLCFIDEFKSYAQNEMMNKKINEIITQARKANG
VIVLALQDINQLSEVRNAQSFIKNMGQLILYPQRNIDTKDLNDKFGIRLSDTEKHFLENTAVNECKVLLKNMNDGSSNII
DVSLSSLGNYLQIFSSNSSMVEHIDNLIKHYPKTWREVFVSNKHENFDDKKHLEKVLK

Nucleotide


Download         Length: 2577 bp        

>NTDB_id=37973 HPGAM_RS07225 WP_000893951.1 1516315..1518891(-) (comB4) [Helicobacter pylori Gambia94/24]
ATGTTAGAAAGCGCCCTTAAATATTGCAAGGAAAAAGCCATAGACCTTTTAGCAGGGTTTGTGCCAAAAACCTATTCTAT
GGCACAGGAGTGCAATATTTTAGGCTTGTATGATGATACTTTCATTATTACCAAACAAGAAAATCTAGTAGGCATTATAT
CCTTACAAGGACTAAGCTATTCTAATTTAATGCAAAAAGACTTAGAGGGCTATTTTGATACTAGACAAAATGTTCTCAAC
ACCATTAGTAAAGACATTCAATTAAGAATTGTGGCTAAAAGGCGTAAGGAATTTATCAATCAAAGTCCAAATATTGACAA
TATTTATGCCAAAGCTATTATCACACAATTTGAAAGCAAGGAAATCTATAAAACAGAGTATTTTTTAGTGTTTGAAACTA
TCACTTCTAATGTCAAGTCTTTCTTTGAAAAAAAGAAATTGGAAATGACTACTTCAATTAATGAAGAGTTAGAAGAAAGC
TCTAAAGAAGATAAACAAGAGAATGAAAATAGCTCCAATGAAACTCATTCAAACACAAGCTCTAAAAAAGACAAGAAAAA
CAAGTTCAAAAAAAAGATAACCTTTAGCACCACAAGTAAAAGAGCCTTACTCATTCAAACCATAGAAAGAGTAAAAAACG
CTCTTAAAGAATTTAAACCTACTTTACTAAATTCTAAAGAAGTATTAAATTTCTACGCAGAATACATCAATGGCAAATAC
ATCGCCTTTAATCCTAAATTAAAGCGATTAAGCGATAGCTATATTGCATCTAATGTGCATTTTAAGAAAGATTACTTTGT
CATTGAATTTCAAAATCAAAACACCTTTTGTGCGTGTGTGGGGATTAAGGCTTATGAGAGCGAAGAAATTTCTTCGCTCC
CTATATCTACTCTTTTACACACCCAAATTGAACTAGATTTAATCTTTCATATCCGCTCTTTAGGGCAATTTGAAAGCCTG
AATTTTTTAAAAACTAAGAAAAAGCTCACGCTTTCTAAAATAGTAAAAGCTGATATTGATAATTATATAGAATTAGTGCA
AGCCAATCGTTTGAGCATGCAAGAGTGTGCTTTAAACTTAGTTATAAGGGCTAAAAGTAAAGCTAAATTAGACAAGTCTT
TAAAAGAGATTTTATCCTTGCTTAATAATGCTGGACTAGGCAGTGTTACAGAAACTATAGGGCTAAAACCATCTTATTTT
TCATTCTTCCCAAATAACGCCAATATCAACCCTAGAATGAGACATCAAACTTCCCAAGTCATAGCATCTTTGATTTTGTT
TGAGAAAAATAATACAGGTTTTAGAGCAAATTCTTGGGGGGATATGCCCTTATCTGTGTTTAAGAACCTAGACCATAGCC
CTTATTTGTTTAATTTTCATAATCAAGAAGTCAAACATAAGGGCGTGTTAGCCCACAATGTCGCACGAGTAGTGGGACAT
ACCATGATTATAGGAGCAACAGGTGCTGGTAAAACCACACTCATTAGCTATTTGATGATGAGTGCCTTAAAATATTCTAA
CATTGATATTTTAGCTCTTGATAGACTAAATGGTTTGTATTCCTTTACCAAGTATTTTGATGGGATTTATAATCAAGGCG
AAAACTTTCATATTAACCCTTTTTCATTAGAAGATAGCGCAACTAATAGAGCCTTTTTATTGCATTTTTATGCCCAAATG
GCAAAAGTGGATAGTTATGATGACCATAAGGATAAAGTAGAAGATAGAACAGCCCTTTTAAATGCTATTGATACGATGTA
TAGAAATTATAACGATGAAGTCAAACAAGCCAAATTTAGCAACCAAGAATTACCCCTTCCTTTTGATTTAAAAGAGTTTG
TCAATGCCATTGTTAAAACCAATACAGACATTTTAGATAGTAGTTTTGAAGACTATTTAAAATCTTCCTTATTTTCTAGC
CGAATGGATAGTCTAGATTTTAAAACTCGTATTAGCACCATAAATACCGATAGCATTTTACATAATGATGATGACGCTGG
GCTTTTAGCCTACTATGTCTTTCATAAGATGATTGACAGAGCCTTAAAAATCAATCGTGGGTTTTTATGCTTTATTGATG
AGTTTAAGTCTTACGCTCAAAATGAAATGATGAATAAAAAAATCAATGAAATCATTACTCAAGCTAGAAAGGCTAATGGG
GTGATTGTTCTAGCCTTACAAGACATTAACCAACTAAGCGAAGTGAGAAACGCTCAAAGCTTTATAAAAAATATGGGGCA
ATTGATTTTGTATCCCCAAAGAAATATTGATACCAAAGATTTAAACGATAAATTTGGCATTAGACTAAGCGATACAGAAA
AACATTTTTTAGAAAACACCGCCGTTAATGAATGCAAAGTCTTACTCAAAAACATGAATGATGGCTCATCCAACATTATA
GATGTGAGCCTAAGTTCTTTGGGTAATTACCTACAAATCTTTAGCTCTAATTCTAGCATGGTAGAACACATTGATAATCT
CATTAAGCATTACCCTAAAACTTGGCGAGAAGTCTTTGTGAGTAACAAACACGAAAATTTTGATGACAAAAAACACTTAG
AAAAGGTGCTTAAATGA

Domains

Predicted by InterProScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(214-412)

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(437-505)


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

46.786

97.902

0.458

Multiple sequence alignment