Detailed information    

insolico Bioinformatically predicted

Overview

Name   comB10   Type   Machinery gene
Locus tag   HPSNT_RS00210 Genome accession   NC_017376
Coordinates   38945..40075 (+) Length   376 a.a.
NCBI ID   WP_001045863.1    Uniprot ID   -
Organism   Helicobacter pylori SNT49     
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 19737..101596 38945..40075 within 0


Gene organization within MGE regions


Location: 19737..101596
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPSNT_RS00120 (HPSNT_00095) lpxE 20603..21136 (-) 534 WP_229017352.1 lipid A 1-phosphatase LpxE -
  HPSNT_RS00125 (HPSNT_00100) eptA 21186..22751 (-) 1566 WP_000157526.1 phosphoethanolamine--lipid A transferase EptA -
  HPSNT_RS00130 (HPSNT_00110) - 23140..25209 (-) 2070 WP_000726398.1 SabA family sialic acid-binding adhesin -
  HPSNT_RS00135 (HPSNT_00115) - 25730..27010 (-) 1281 WP_000117424.1 citrate synthase -
  HPSNT_RS00140 (HPSNT_00120) icd 27210..28487 (+) 1278 WP_000331115.1 isocitrate dehydrogenase (NADP(+)) -
  HPSNT_RS00145 (HPSNT_00125) - 28559..29086 (+) 528 WP_014536646.1 DUF1523 family protein -
  HPSNT_RS00150 (HPSNT_00130) bioD 29063..29719 (-) 657 WP_000897559.1 dethiobiotin synthase -
  HPSNT_RS00155 - 29723..31362 (-) 1640 Protein_25 hypothetical protein -
  HPSNT_RS00160 (HPSNT_00145) - 31470..31883 (+) 414 WP_001023008.1 universal stress protein -
  HPSNT_RS00165 (HPSNT_00150) - 31906..32181 (+) 276 WP_000708538.1 ATP-dependent Clp protease adaptor ClpS -
  HPSNT_RS00170 (HPSNT_00155) - 32181..34406 (+) 2226 WP_001051471.1 AAA family ATPase -
  HPSNT_RS00175 (HPSNT_00160) panD 34396..34749 (+) 354 WP_000142229.1 aspartate 1-decarboxylase -
  HPSNT_RS00180 (HPSNT_00165) - 34752..35045 (+) 294 WP_000347915.1 YbaB/EbfC family nucleoid-associated protein -
  HPSNT_RS00185 (HPSNT_00170) - 35045..36049 (+) 1005 WP_000468459.1 PDZ domain-containing protein -
  HPSNT_RS00190 (HPSNT_00175) comB6 36057..37112 (+) 1056 WP_000786650.1 P-type conjugative transfer protein TrbL Machinery gene
  HPSNT_RS00195 (HPSNT_00180) comB7 37128..37241 (+) 114 WP_001217873.1 hypothetical protein Machinery gene
  HPSNT_RS00200 (HPSNT_00185) comB8 37238..37981 (+) 744 WP_001208407.1 type IV secretion system protein Machinery gene
  HPSNT_RS00205 (HPSNT_00190) comB9 37981..38952 (+) 972 WP_014536647.1 TrbG/VirB9 family P-type conjugative transfer protein Machinery gene
  HPSNT_RS00210 (HPSNT_00195) comB10 38945..40075 (+) 1131 WP_001045863.1 DNA type IV secretion system protein ComB10 Machinery gene
  HPSNT_RS00215 (HPSNT_00200) - 40145..41557 (+) 1413 WP_000694844.1 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase -
  HPSNT_RS00220 (HPSNT_00205) gmd 41587..42732 (+) 1146 WP_000659832.1 GDP-mannose 4,6-dehydratase -
  HPSNT_RS00225 (HPSNT_00210) - 42725..43657 (+) 933 WP_001002914.1 GDP-L-fucose synthase family protein -
  HPSNT_RS00235 (HPSNT_00215) hypE 44221..45219 (-) 999 WP_000378786.1 hydrogenase expression/formation protein HypE -
  HPSNT_RS00240 (HPSNT_00220) hypF 45231..47483 (-) 2253 WP_014536648.1 carbamoyltransferase HypF -
  HPSNT_RS00245 (HPSNT_00225) - 47480..48472 (-) 993 WP_000827204.1 agmatine deiminase family protein -
  HPSNT_RS00250 (HPSNT_00230) - 48524..49222 (-) 699 WP_000614606.1 DNA-methyltransferase -
  HPSNT_RS00255 (HPSNT_00235) - 49219..49653 (-) 435 Protein_44 DNA cytosine methyltransferase -
  HPSNT_RS00260 (HPSNT_00240) putP 49824..51314 (-) 1491 WP_000510267.1 sodium/proline symporter PutP -
  HPSNT_RS00265 (HPSNT_00245) - 51341..54898 (-) 3558 WP_001169374.1 bifunctional proline dehydrogenase/L-glutamate gamma-semialdehyde dehydrogenase -
  HPSNT_RS00270 (HPSNT_00250) - 55228..55437 (+) 210 WP_000849030.1 hypothetical protein -
  HPSNT_RS08335 - 56307..58738 (+) 2432 Protein_48 hypothetical protein -
  HPSNT_RS00295 (HPSNT_00295) - 58783..59298 (+) 516 Protein_49 hypothetical protein -
  HPSNT_RS00300 (HPSNT_00300) - 59314..59574 (+) 261 WP_000092089.1 hypothetical protein -
  HPSNT_RS00305 (HPSNT_00305) - 59584..60987 (+) 1404 WP_041200387.1 HNH endonuclease -
  HPSNT_RS00310 (HPSNT_00310) - 60957..61217 (+) 261 Protein_52 SMI1/KNR4 family protein -
  HPSNT_RS00320 - 61504..62580 (+) 1077 Protein_53 tyrosine-type recombinase/integrase -
  HPSNT_RS00325 (HPSNT_00330) - 62643..63848 (-) 1206 WP_001146461.1 type IV secretion system protein -
  HPSNT_RS00330 (HPSNT_00335) - 63848..65233 (-) 1386 WP_000387734.1 hypothetical protein -
  HPSNT_RS00335 - 65243..67439 (-) 2197 Protein_56 competence protein -
  HPSNT_RS00340 (HPSNT_00350) - 67475..68869 (-) 1395 WP_000895785.1 hypothetical protein -
  HPSNT_RS00345 (HPSNT_00355) - 68870..69907 (-) 1038 WP_001075321.1 hypothetical protein -
  HPSNT_RS00350 (HPSNT_00360) - 70062..78488 (+) 8427 WP_001170020.1 SNF2-related protein -
  HPSNT_RS00355 (HPSNT_00365) - 78755..79411 (+) 657 WP_000587422.1 ParA family protein -
  HPSNT_RS00360 (HPSNT_00370) - 79493..79777 (+) 285 WP_000394643.1 hypothetical protein -
  HPSNT_RS00365 (HPSNT_00375) - 79809..80996 (+) 1188 WP_000753638.1 hypothetical protein -
  HPSNT_RS00370 (HPSNT_00380) - 81021..82931 (-) 1911 WP_001162743.1 relaxase/mobilization nuclease domain-containing protein -
  HPSNT_RS00375 (HPSNT_00385) - 83227..83541 (+) 315 WP_000065302.1 hypothetical protein -
  HPSNT_RS00380 (HPSNT_00390) - 83534..83815 (+) 282 WP_000921928.1 type II toxin-antitoxin system YafQ family toxin -
  HPSNT_RS00385 (HPSNT_00395) - 84137..85864 (-) 1728 WP_001227391.1 type IV secretory system conjugative DNA transfer family protein -
  HPSNT_RS00390 (HPSNT_00400) - 85865..86422 (-) 558 WP_001167765.1 hypothetical protein -
  HPSNT_RS00395 (HPSNT_00405) - 86423..86713 (-) 291 WP_000159825.1 hypothetical protein -
  HPSNT_RS00400 (HPSNT_00410) - 86710..87165 (-) 456 WP_000795456.1 hypothetical protein -
  HPSNT_RS00405 (HPSNT_00415) - 87162..88103 (-) 942 WP_000625151.1 CpaF/VirB11 family protein -
  HPSNT_RS00410 (HPSNT_00420) - 88093..88398 (-) 306 WP_014536654.1 hypothetical protein -
  HPSNT_RS00415 (HPSNT_00425) - 88395..88658 (-) 264 WP_000564646.1 hypothetical protein -
  HPSNT_RS00420 (HPSNT_00430) - 88651..88944 (-) 294 WP_000773938.1 hypothetical protein -
  HPSNT_RS00425 (HPSNT_00435) - 89014..90249 (-) 1236 WP_000734981.1 DNA type IV secretion system protein ComB10 -
  HPSNT_RS00430 (HPSNT_00440) - 90246..91787 (-) 1542 WP_000714787.1 TrbG/VirB9 family P-type conjugative transfer protein -
  HPSNT_RS00435 (HPSNT_00445) - 91787..92773 (-) 987 WP_000416475.1 type IV secretion system protein -
  HPSNT_RS08510 (HPSNT_00450) - 92775..92903 (-) 129 WP_001185491.1 hypothetical protein -
  HPSNT_RS00440 - 92903..94839 (-) 1937 Protein_78 type IA DNA topoisomerase -
  HPSNT_RS00445 (HPSNT_00465) - 94832..97330 (-) 2499 WP_000478392.1 VirB4 family type IV secretion system protein -
  HPSNT_RS00450 (HPSNT_00470) - 97343..97603 (-) 261 WP_000602756.1 hypothetical protein -
  HPSNT_RS00455 (HPSNT_00475) - 97604..97906 (-) 303 WP_000649840.1 TrbC/VirB2 family protein -
  HPSNT_RS00460 (HPSNT_00480) - 97896..99812 (-) 1917 WP_000332143.1 toprim domain-containing protein -
  HPSNT_RS00465 (HPSNT_00485) - 99823..100587 (-) 765 WP_000667730.1 hypothetical protein -
  HPSNT_RS00470 - 100643..100812 (+) 170 Protein_84 SMI1/KNR4 family protein -
  HPSNT_RS00475 (HPSNT_00490) - 100814..101161 (+) 348 WP_000491342.1 hypothetical protein -

Sequence

Protein


Download         Length: 376 a.a.        Molecular weight: 42019.54 Da        Isoelectric Point: 9.7760

>NTDB_id=47023 HPSNT_RS00210 WP_001045863.1 38945..40075(+) (comB10) [Helicobacter pylori SNT49]
MNKWLKGALVFAGGFATIITISLIYHQKPKAPLNNQQNLLNDDEVKYPLQDYTFTQNPQPTPTESSKDATIKALQEQLKA
ALKALNSKEMNHSKEETFKNPPIDPNTTPPKKDFSLKQLDLLAARITPFKQNPKNYEENLIFPMDNPNGIDGFTNLKEKD
IATNENKLLRTITADKMIPAFLITPISSQIAGKVIAQVESDIFASMGKAVLIPKGSKVIGYYSNNNKMGEYRLDIVWSRI
ITPHGINIMLTNAKGADIKGYNGLVGELIERNFQRYGVPLLLSTLTNGLLIGITSALNNRGNKEEVTNFFGDYLLLQLMR
QSGMGINQVVNQILRDKSKIAPIVVIREGSRVFISPNTDIFFPIPRENEVIAEFLK

Nucleotide


Download         Length: 1131 bp        

>NTDB_id=47023 HPSNT_RS00210 WP_001045863.1 38945..40075(+) (comB10) [Helicobacter pylori SNT49]
ATGAATAAGTGGCTTAAGGGGGCACTTGTTTTTGCAGGGGGTTTTGCAACGATTATAACCATTTCTTTAATCTATCATCA
AAAGCCAAAAGCCCCCTTAAATAACCAACAAAACCTTTTGAATGACGATGAGGTGAAATACCCCTTACAAGACTACACCT
TCACTCAAAACCCACAGCCAACTCCCACAGAAAGCTCCAAAGACGCTACCATCAAAGCCTTACAAGAACAGCTAAAAGCC
GCTTTAAAAGCCCTAAACTCCAAAGAAATGAACCACTCTAAAGAAGAAACTTTTAAAAATCCTCCCATAGATCCAAACAC
AACCCCCCCTAAAAAAGACTTTTCTCTCAAGCAATTAGATTTACTGGCCGCTCGCATCACCCCTTTCAAACAAAACCCTA
AAAATTACGAAGAAAACCTGATTTTCCCCATGGATAACCCTAATGGCATTGATGGTTTCACTAACCTTAAAGAAAAAGAC
ATCGCTACTAATGAAAACAAGCTTTTACGCACCATTACAGCTGATAAAATGATACCCGCCTTTCTCATCACGCCTATTTC
TAGCCAGATCGCTGGTAAAGTCATCGCGCAAGTGGAGAGCGATATTTTTGCAAGCATGGGCAAGGCCGTCTTGATCCCCA
AAGGTTCTAAAGTCATAGGCTATTACAGCAACAACAACAAAATGGGCGAATACCGCTTGGATATTGTGTGGAGCCGCATC
ATCACTCCCCATGGCATCAATATCATGCTCACTAACGCTAAAGGGGCGGACATTAAAGGCTATAACGGCTTGGTGGGGGA
ATTGATTGAAAGGAATTTCCAGCGCTATGGCGTGCCGTTACTGCTTTCTACGCTCACCAACGGCTTATTGATTGGGATCA
CTTCGGCTTTAAACAACAGGGGCAATAAAGAAGAGGTGACCAACTTCTTTGGGGATTATCTTTTATTGCAATTGATGAGG
CAAAGCGGCATGGGGATCAATCAAGTGGTCAATCAAATTTTAAGAGACAAGAGCAAAATCGCTCCTATTGTGGTGATTAG
AGAGGGGAGCAGAGTCTTCATTTCGCCCAATACTGACATCTTCTTTCCTATACCCAGAGAGAATGAAGTCATCGCTGAGT
TTTTGAAGTGA

Domains

Predicted by InterproScan.

Bacterial conjugation TrbI-like protein (TrbI)

(171-362)


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

95.479

100

0.955

Multiple sequence alignment