Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB10   Type   Machinery gene
Locus tag   G3M69_RS00935 Genome accession   NZ_CP048599
Coordinates   199121..200329 (-) Length   402 a.a.
NCBI ID   WP_163562752.1    Uniprot ID   -
Organism   Helicobacter pylori strain GCT 97     
Function   transformation-associated type IV transport system (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
ICE 164767..217625 199121..200329 within 0


Gene organization within MGE regions


Location: 164767..217625
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  G3M69_RS00805 (G3M69_00805) - 164767..165834 (+) 1068 WP_001120375.1 tyrosine-type recombinase/integrase -
  G3M69_RS00810 (G3M69_00810) - 166151..166954 (-) 804 WP_021581690.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  G3M69_RS00815 (G3M69_00815) - 166926..167177 (-) 252 WP_078246108.1 hypothetical protein -
  G3M69_RS08180 - 167309..167990 (-) 682 Protein_160 CAAX protease -
  G3M69_RS00830 (G3M69_00830) - 168211..169224 (+) 1014 WP_163562742.1 hypothetical protein -
  G3M69_RS00835 (G3M69_00835) - 169229..170506 (-) 1278 WP_163562743.1 hypothetical protein -
  G3M69_RS00840 (G3M69_00840) - 170503..171765 (-) 1263 WP_163562744.1 P-type conjugative transfer protein TrbL -
  G3M69_RS00845 (G3M69_00845) - 171762..173195 (-) 1434 WP_163562745.1 hypothetical protein -
  G3M69_RS00850 (G3M69_00850) - 173205..175250 (-) 2046 WP_163562746.1 hypothetical protein -
  G3M69_RS00855 (G3M69_00855) - 175250..176302 (-) 1053 WP_163562747.1 ArdC family protein -
  G3M69_RS07825 - 176303..176467 (-) 165 WP_000189763.1 hypothetical protein -
  G3M69_RS00860 (G3M69_00860) - 177105..177773 (+) 669 WP_001932455.1 ParA family protein -
  G3M69_RS00865 (G3M69_00865) - 177820..178197 (+) 378 WP_000365707.1 hypothetical protein -
  G3M69_RS00870 (G3M69_00870) - 178175..178840 (+) 666 WP_000855658.1 hypothetical protein -
  G3M69_RS00875 (G3M69_00875) - 178914..179717 (-) 804 WP_000377497.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  G3M69_RS00880 (G3M69_00880) - 179687..180157 (-) 471 WP_000965788.1 hypothetical protein -
  G3M69_RS00885 (G3M69_00885) - 180212..182272 (-) 2061 WP_163562748.1 type IA DNA topoisomerase -
  G3M69_RS00890 (G3M69_00890) - 182285..182668 (-) 384 WP_001899672.1 hypothetical protein -
  G3M69_RS00895 (G3M69_00895) - 182986..183195 (-) 210 WP_000462385.1 hypothetical protein -
  G3M69_RS00900 (G3M69_00900) - 183316..189335 (-) 6020 Protein_176 SNF2-related protein -
  G3M69_RS08185 - 189701..190510 (-) 810 WP_341534311.1 helicase -
  G3M69_RS00905 (G3M69_00905) - 191944..194187 (-) 2244 WP_163562749.1 type IV secretory system conjugative DNA transfer family protein -
  G3M69_RS00910 (G3M69_00910) - 194184..194702 (-) 519 WP_000760576.1 hypothetical protein -
  G3M69_RS00915 (G3M69_00915) - 194699..195643 (-) 945 WP_000362459.1 CpaF/VirB11 family protein -
  G3M69_RS00920 (G3M69_00920) - 195648..195923 (-) 276 WP_001278752.1 hypothetical protein -
  G3M69_RS00925 (G3M69_00925) - 195940..196902 (-) 963 WP_163562750.1 hypothetical protein -
  G3M69_RS00930 (G3M69_00930) - 196915..199137 (-) 2223 WP_163562751.1 collagen-like protein -
  G3M69_RS00935 (G3M69_00935) comB10 199121..200329 (-) 1209 WP_163562752.1 DNA type IV secretion system protein ComB10 Machinery gene
  G3M69_RS00940 (G3M69_00940) - 200326..201981 (-) 1656 WP_163562753.1 TrbG/VirB9 family P-type conjugative transfer protein -
  G3M69_RS00945 (G3M69_00945) - 201978..203114 (-) 1137 WP_163562754.1 VirB8/TrbF family protein -
  G3M69_RS07955 - 203107..203247 (-) 141 WP_000789926.1 hypothetical protein -
  G3M69_RS00950 (G3M69_00950) - 203244..205820 (-) 2577 WP_163562755.1 VirB4 family type IV secretion/conjugal transfer ATPase -
  G3M69_RS00955 (G3M69_00955) - 205820..206056 (-) 237 WP_108243306.1 hypothetical protein -
  G3M69_RS00960 (G3M69_00960) comB3 206068..206331 (-) 264 WP_001177716.1 hypothetical protein Machinery gene
  G3M69_RS00965 (G3M69_00965) - 206343..206626 (-) 284 Protein_191 TrbC/VirB2 family protein -
  G3M69_RS00970 (G3M69_00970) - 206614..207102 (-) 489 WP_163562756.1 hypothetical protein -
  G3M69_RS00975 (G3M69_00975) - 207095..207325 (-) 231 WP_000189078.1 hypothetical protein -
  G3M69_RS00980 (G3M69_00980) - 207328..208116 (-) 789 WP_205424853.1 integrase -
  G3M69_RS08125 (G3M69_00985) - 208170..208349 (-) 180 Protein_195 metal-dependent hydrolase -
  G3M69_RS08130 (G3M69_00990) - 208346..209479 (-) 1134 WP_163562757.1 sulfatase-like hydrolase/transferase -
  G3M69_RS00995 (G3M69_00995) - 209682..210539 (-) 858 WP_000657593.1 cytochrome c1 -
  G3M69_RS01000 (G3M69_01000) - 210536..211774 (-) 1239 WP_000807885.1 cytochrome bc complex cytochrome b subunit -
  G3M69_RS01005 (G3M69_01005) - 211785..212288 (-) 504 WP_000763659.1 ubiquinol-cytochrome c reductase iron-sulfur subunit -
  G3M69_RS01010 (G3M69_01010) mfd 212413..215418 (-) 3006 WP_163562758.1 transcription-repair coupling factor -
  G3M69_RS01015 (G3M69_01015) - 215422..215736 (-) 315 WP_000384498.1 polymer-forming cytoskeletal protein -
  G3M69_RS01020 (G3M69_01020) csd1 215751..216689 (-) 939 WP_000478115.1 peptidoglycan DD-metalloendopeptidase Csd1 -
  G3M69_RS01025 (G3M69_01025) csd2 216699..217625 (-) 927 WP_163562759.1 M23B family cell shape-determining DD-metalloendopeptidase Csd2 -

Sequence

Protein


Download         Length: 402 a.a.        Molecular weight: 44909.43 Da        Isoelectric Point: 9.9914

>NTDB_id=421663 G3M69_RS00935 WP_163562752.1 199121..200329(-) (comB10) [Helicobacter pylori strain GCT 97]
MKQSLLKKIGLGVGGFVVLMALGLLANKGSNNNNKEEIFQVSESKFPLSDYFFEEVKEEPKEKAKETPEVTTQEPTTQTS
PNPSVSANPNIKDYSHLNNNLNQQNNTITHLQQVLQSPSKIKPKPKHTKEQLEFLNTRLKPLEPTKSATKPETEYGVDSF
TNLKYKDIGTNEHKLLRTITADRMIPAFLITPISSQIAGKVTAQVESDIFASMGRAVLIPKGSKVIGYYNNNNQIGQYRL
NIAWTRIITPQGINIMLTNARGADVKGYNGLVGKYISRNFQRYGIPLLTNTLSNGLLIGITSALANRQNRKGDGNPFFGD
YLLMQLTRNTGMGINQVINQMLSQYGAQNPIIIIREGSRVFISPNLDIFIPKPKDGEVLAEFFKEKKPPIKTKEEINNEE
EI

Nucleotide


Download         Length: 1209 bp        

>NTDB_id=421663 G3M69_RS00935 WP_163562752.1 199121..200329(-) (comB10) [Helicobacter pylori strain GCT 97]
ATGAAACAATCCTTGCTTAAAAAGATAGGCTTAGGTGTTGGGGGCTTTGTTGTTTTAATGGCATTAGGATTGCTTGCTAA
TAAAGGCTCAAACAATAACAATAAAGAAGAAATCTTTCAAGTAAGTGAGAGTAAATTCCCTTTAAGTGATTATTTCTTTG
AAGAAGTCAAAGAAGAGCCAAAAGAAAAAGCCAAAGAAACACCAGAAGTAACTACCCAAGAGCCTACAACACAAACTAGC
CCCAATCCTAGTGTTTCAGCTAATCCTAACATTAAAGATTATAGTCATCTTAACAACAATCTTAATCAGCAAAATAATAC
TATCACGCATTTACAACAAGTTTTACAAAGCCCCTCTAAAATAAAGCCTAAACCAAAGCACACTAAAGAGCAATTAGAAT
TTTTAAACACACGCCTTAAACCTTTAGAACCAACTAAATCAGCCACTAAGCCTGAGACGGAATACGGCGTGGATAGTTTT
ACTAATTTAAAATATAAAGACATCGGCACTAATGAGCATAAGCTTTTAAGAACCATAACCGCTGATAGAATGATACCAGC
CTTTTTAATCACGCCTATTAGCTCTCAAATTGCTGGAAAAGTAACCGCCCAAGTAGAGAGCGATATATTTGCTTCTATGG
GTAGAGCGGTGCTAATCCCTAAAGGCTCTAAGGTTATAGGCTATTACAATAATAACAATCAAATTGGACAATACCGCCTT
AACATTGCTTGGACTAGAATTATCACACCTCAAGGCATAAACATCATGCTCACTAACGCAAGGGGGGCTGATGTGAAGGG
TTATAATGGCTTAGTAGGCAAATACATTAGCCGAAACTTTCAACGCTATGGTATCCCCTTACTCACTAACACGCTCTCTA
ATGGTCTTTTAATAGGAATTACTTCAGCCTTAGCTAATAGGCAAAATAGAAAGGGTGATGGCAACCCTTTTTTTGGGGAT
TACTTGCTTATGCAACTCACTAGAAATACAGGCATGGGCATCAATCAAGTTATCAATCAAATGCTAAGTCAATATGGAGC
GCAAAACCCCATTATCATCATTAGAGAGGGGAGCAGAGTGTTTATTAGCCCTAATTTAGACATCTTTATCCCTAAACCAA
AAGATGGGGAGGTTTTAGCGGAGTTCTTTAAAGAGAAAAAACCCCCAATCAAAACAAAAGAGGAAATTAACAATGAAGAA
GAAATCTAA

Domains

Predicted by InterproScan.

Bacterial conjugation TrbI-like protein (TrbI)

(178-368)


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
  comB10 Helicobacter pylori P1

52.174

97.264

0.507

Multiple sequence alignment