Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JOA57_RS05330 Genome accession   NZ_CP069084
Coordinates   1277478..1278734 (-) Length   418 a.a.
NCBI ID   WP_011038215.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain GSXT20191014     
Function   assembly of type IV pilus (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)
Genomic island 1244295..1277771 1277478..1278734 flank -293


Gene organization within MGE regions


Location: 1244295..1278734
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JOA57_RS05180 (JOA57_05175) - 1244295..1246175 (+) 1881 WP_237349757.1 integrase arm-type DNA-binding domain-containing protein -
  JOA57_RS05185 (JOA57_05180) - 1246360..1246779 (+) 420 WP_019237332.1 hypothetical protein -
  JOA57_RS05190 (JOA57_05185) - 1246812..1247813 (+) 1002 WP_011038253.1 XVIPCD domain-containing protein -
  JOA57_RS05195 (JOA57_05190) - 1247884..1248534 (-) 651 WP_011038252.1 LysR substrate-binding domain-containing protein -
  JOA57_RS05200 (JOA57_05195) - 1248637..1248930 (+) 294 WP_011038251.1 helix-turn-helix transcriptional regulator -
  JOA57_RS05205 (JOA57_05200) - 1248958..1249842 (-) 885 WP_011038250.1 LysR family transcriptional regulator -
  JOA57_RS05215 (JOA57_05210) - 1251825..1253372 (-) 1548 WP_237349758.1 hypothetical protein -
  JOA57_RS05220 (JOA57_05215) - 1253445..1254425 (-) 981 WP_100097274.1 IS5 family transposase -
  JOA57_RS05230 (JOA57_05225) - 1255906..1256163 (-) 258 Protein_1016 hypothetical protein -
  JOA57_RS05235 (JOA57_05230) - 1256160..1256819 (-) 660 WP_057671625.1 hypothetical protein -
  JOA57_RS05240 (JOA57_05235) - 1256816..1257346 (-) 531 WP_011038239.1 hypothetical protein -
  JOA57_RS05245 (JOA57_05240) - 1257744..1258283 (-) 540 WP_225443876.1 DUF4189 domain-containing protein -
  JOA57_RS05250 (JOA57_05245) - 1258361..1259500 (-) 1140 WP_017117946.1 type IV secretion system protein -
  JOA57_RS05255 (JOA57_05250) - 1259532..1260179 (-) 648 WP_016848927.1 hypothetical protein -
  JOA57_RS05260 (JOA57_05255) - 1261201..1262739 (-) 1539 WP_011038243.1 MASE1 domain-containing protein -
  JOA57_RS05265 (JOA57_05260) - 1263861..1264841 (+) 981 WP_100097274.1 IS5 family transposase -
  JOA57_RS05275 (JOA57_05270) - 1266474..1266869 (+) 396 WP_011038225.1 hypothetical protein -
  JOA57_RS05280 (JOA57_05275) - 1266960..1267352 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  JOA57_RS05285 (JOA57_05280) glgX 1267891..1270020 (-) 2130 WP_011038223.1 glycogen debranching protein GlgX -
  JOA57_RS05290 (JOA57_05285) rimK 1270513..1271388 (+) 876 WP_011038222.1 30S ribosomal protein S6--L-glutamate ligase -
  JOA57_RS05295 (JOA57_05290) - 1272038..1272715 (+) 678 WP_003490678.1 response regulator transcription factor -
  JOA57_RS05300 (JOA57_05295) - 1272708..1274042 (+) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  JOA57_RS05305 (JOA57_05300) - 1274185..1274676 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  JOA57_RS05310 (JOA57_05305) - 1274673..1274963 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  JOA57_RS05315 (JOA57_05310) - 1275038..1275439 (-) 402 WP_019237348.1 SymE family type I addiction module toxin -
  JOA57_RS05320 (JOA57_05315) coaE 1275971..1276594 (-) 624 WP_011038217.1 dephospho-CoA kinase -
  JOA57_RS05325 (JOA57_05320) - 1276608..1277471 (-) 864 WP_011038216.1 A24 family peptidase -
  JOA57_RS05330 (JOA57_05325) pilC 1277478..1278734 (-) 1257 WP_011038215.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 418 a.a.        Molecular weight: 45907.37 Da        Isoelectric Point: 10.3359

>NTDB_id=532260 JOA57_RS05330 WP_011038215.1 1277478..1278734(-) (pilC) [Xanthomonas campestris pv. campestris strain GSXT20191014]
MSIARSSMKKQPIDRNVNEMVPFVWEGTDKRGIKMKGEQPARNANMLRAELRRQGITPLVVKTKPKPLFGAAGKKISSKD
IAFFSRQMATMMKSGVPIVGSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLHEAISRHPVQFDDLYRNLVRAGEGAGVLE
TVLDTVANYKENIEALKGKIKKALFYPAMVMAVAIIVSGILLVFVVPQFEDVFKGFGAELPAFTQMIVAASRFMVSYWWL
MLLGSIAAIAGFIFAYKRSPRMRHGMDRLVLKVPVIGQIMHNSSIARFARTTAVTFKAGVPLVEALSIVAGATGNKVYEE
AVLRMRDDVSVGYPVNMAMKQVNLFPHMVVQMTSIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGSVV

Nucleotide


Download         Length: 1257 bp        

>NTDB_id=532260 JOA57_RS05330 WP_011038215.1 1277478..1278734(-) (pilC) [Xanthomonas campestris pv. campestris strain GSXT20191014]
ATGTCAATCGCTCGTAGCAGCATGAAGAAGCAGCCGATAGACCGGAACGTAAACGAGATGGTCCCATTTGTCTGGGAGGG
TACGGACAAGCGCGGCATCAAGATGAAGGGGGAACAACCTGCTCGCAACGCGAACATGCTCCGCGCTGAGCTTCGGCGGC
AGGGCATCACACCTTTAGTTGTAAAGACGAAGCCTAAGCCGCTTTTCGGCGCCGCTGGCAAGAAAATTTCTTCAAAAGAT
ATCGCATTTTTCAGTCGCCAGATGGCAACAATGATGAAGTCGGGCGTACCTATTGTTGGATCGCTTGAAATCATCGGAGA
GGGGCACAAAAATCCCCGCATGAAAAAAATGGTTGGTCAAATTAGGACCGACATTGAAGGAGGGTCTTCACTCCATGAAG
CAATTTCTAGGCATCCAGTCCAATTCGACGACCTCTATCGAAATTTGGTACGAGCAGGCGAAGGTGCCGGCGTTCTAGAA
ACCGTTTTAGACACAGTTGCAAATTACAAAGAAAACATTGAAGCACTGAAGGGAAAAATAAAGAAAGCTTTATTTTATCC
TGCAATGGTAATGGCCGTTGCAATTATTGTGAGCGGAATATTACTTGTATTTGTTGTCCCGCAATTTGAAGACGTATTCA
AAGGATTCGGAGCAGAACTACCAGCTTTCACTCAGATGATCGTCGCGGCGTCGCGTTTCATGGTGTCTTATTGGTGGCTT
ATGCTACTTGGTAGCATCGCAGCAATTGCAGGATTCATTTTTGCTTACAAGCGCTCGCCTCGCATGCGACATGGAATGGA
TAGATTGGTCTTGAAGGTCCCAGTCATTGGCCAGATCATGCATAATAGCTCTATCGCCCGATTTGCGCGAACCACTGCCG
TTACGTTCAAAGCTGGCGTTCCTTTAGTTGAAGCCTTGAGCATTGTGGCTGGCGCCACCGGTAATAAAGTTTATGAGGAA
GCTGTGCTTCGTATGCGCGATGATGTCTCGGTAGGCTACCCTGTCAACATGGCGATGAAGCAGGTCAATCTTTTCCCACA
CATGGTGGTTCAGATGACCTCGATCGGCGAAGAAGCTGGCGCCCTGGATGCCATGTTGTTCAAAGTGGCTGAATATTTCG
AGCAAGAAGTTAATAACGCCGTGGATGCATTGAGCAGCTTACTGGAACCATTGATCATGGTTTTTATTGGCACAATTGTG
GGCGGCATGGTCATTGGCATGTATCTTCCCATCTTCAAACTTGGCTCAGTGGTCTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(84-207)

Type II secretion system (T2SS), protein F (T2SSF)

(288-410)


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
  pilC Pseudomonas stutzeri DSM 10701

53.788

94.737

0.51
  pilC Acinetobacter baylyi ADP1

53.401

94.976

0.507
  pilC Acinetobacter baumannii D1279779

51.741

96.172

0.498
  pilC Legionella pneumophila strain ERS1305867

50.493

97.129

0.49
  pilG Neisseria gonorrhoeae MS11

44.836

94.976

0.426
  pilG Neisseria meningitidis 44/76-A

44.332

94.976

0.421
  pilC Vibrio cholerae strain A1552

42.172

94.737

0.4
  pilC Vibrio campbellii strain DS40M4

39.141

94.737

0.371