Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   XCCCN05v2_RS05375 Genome accession   NZ_CP101170
Coordinates   1283329..1284588 (-) Length   419 a.a.
NCBI ID   WP_223646360.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain CN05     
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 1246495..1283616 1283329..1284588 flank -287


Gene organization within MGE regions


Location: 1246495..1284588
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XCCCN05v2_RS05195 - 1246495..1248375 (+) 1881 WP_237349757.1 integrase arm-type DNA-binding domain-containing protein -
  XCCCN05v2_RS05200 - 1248560..1248979 (+) 420 WP_019237332.1 hypothetical protein -
  XCCCN05v2_RS05205 - 1249012..1250013 (+) 1002 WP_011038253.1 XVIPCD domain-containing protein -
  XCCCN05v2_RS05210 - 1250084..1250734 (-) 651 WP_011038252.1 LysR substrate-binding domain-containing protein -
  XCCCN05v2_RS05215 - 1250837..1251130 (+) 294 WP_011038251.1 helix-turn-helix transcriptional regulator -
  XCCCN05v2_RS05220 - 1251158..1252042 (-) 885 WP_011038250.1 LysR family transcriptional regulator -
  XCCCN05v2_RS05230 - 1254025..1254876 (-) 852 WP_237351536.1 hypothetical protein -
  XCCCN05v2_RS05240 - 1256152..1256406 (-) 255 Protein_1019 transposase -
  XCCCN05v2_RS05250 - 1258148..1259731 (-) 1584 WP_254813394.1 DEAD/DEAH box helicase -
  XCCCN05v2_RS05255 - 1259743..1260899 (+) 1157 WP_087942126.1 IS3-like element ISXc8 family transposase -
  XCCCN05v2_RS05260 - 1261140..1261271 (+) 132 Protein_1023 IS5/IS1182 family transposase -
  XCCCN05v2_RS05265 - 1262240..1263778 (+) 1539 WP_011038243.1 MASE1 domain-containing protein -
  XCCCN05v2_RS05270 - 1264800..1265447 (+) 648 WP_016848927.1 hypothetical protein -
  XCCCN05v2_RS05275 - 1265479..1266618 (+) 1140 WP_017117946.1 type IV secretion system protein -
  XCCCN05v2_RS05280 - 1266696..1267235 (+) 540 WP_225443876.1 DUF4189 domain-containing protein -
  XCCCN05v2_RS05285 - 1267633..1268163 (+) 531 WP_011038239.1 hypothetical protein -
  XCCCN05v2_RS05290 - 1268160..1268819 (+) 660 WP_057671625.1 hypothetical protein -
  XCCCN05v2_RS05295 - 1268816..1269073 (+) 258 Protein_1030 hypothetical protein -
  XCCCN05v2_RS05300 - 1269137..1270269 (+) 1133 WP_087942920.1 IS3-like element ISXca1 family transposase -
  XCCCN05v2_RS05305 - 1270299..1270645 (-) 347 Protein_1032 transposase -
  XCCCN05v2_RS05310 - 1270718..1271089 (-) 372 Protein_1033 TraI domain-containing protein -
  XCCCN05v2_RS05320 - 1272325..1272720 (+) 396 WP_011038225.1 hypothetical protein -
  XCCCN05v2_RS05325 - 1272811..1273203 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  XCCCN05v2_RS05330 glgX 1273742..1275871 (-) 2130 WP_011038223.1 glycogen debranching protein GlgX -
  XCCCN05v2_RS05335 rimK 1276364..1277239 (+) 876 WP_011038222.1 30S ribosomal protein S6--L-glutamate ligase -
  XCCCN05v2_RS05340 - 1277889..1278566 (+) 678 WP_003490678.1 response regulator transcription factor -
  XCCCN05v2_RS05345 - 1278559..1279893 (+) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  XCCCN05v2_RS05350 - 1280036..1280527 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  XCCCN05v2_RS05355 - 1280524..1280814 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  XCCCN05v2_RS05360 - 1280889..1281290 (-) 402 WP_019237348.1 SymE family type I addiction module toxin -
  XCCCN05v2_RS05365 coaE 1281822..1282445 (-) 624 WP_228422810.1 dephospho-CoA kinase -
  XCCCN05v2_RS05370 - 1282459..1283322 (-) 864 WP_223646361.1 A24 family peptidase -
  XCCCN05v2_RS05375 pilC 1283329..1284588 (-) 1260 WP_223646360.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45856.24 Da        Isoelectric Point: 10.2697

>NTDB_id=709093 XCCCN05v2_RS05375 WP_223646360.1 1283329..1284588(-) (pilC) [Xanthomonas campestris pv. campestris strain CN05]
MSVTRSTLKKQPIDRSTSQMQAFVWEGTDKRGVKMKGEQVARNANMLRAELRRQGITPNVVKTKPKPLFGAAGKKVTPKD
IAFFSRQMATMMKSGVPIVGSLEIIGEGHKNPRMKQMVGQVRSDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLDTIATYKENMEALKGKIKKALFYPAAVLAVALIVTAILLIFVVPQFEQVFSGFGAELPAFTKMIVAASRFMVSYWWL
ILFITLALGFGFLFAYKRSPSMQHGMDRLVLRLPVIGQIMHNSAIARFSRTTAVTFKAGVPLVEALGIVAGATGNAVYGE
AILRMRDDVSVGYPINMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLLEPMIMVFIGTIV
GGMVIGMYLPIFKLGAVIG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=709093 XCCCN05v2_RS05375 WP_223646360.1 1283329..1284588(-) (pilC) [Xanthomonas campestris pv. campestris strain CN05]
ATGTCAGTCACACGTAGCACCTTAAAGAAGCAACCAATCGATCGCTCCACAAGTCAAATGCAGGCTTTTGTTTGGGAGGG
GACAGACAAACGCGGCGTGAAGATGAAAGGTGAGCAAGTCGCGCGTAACGCCAACATGTTACGTGCGGAATTGCGCAGGC
AGGGGATAACGCCCAATGTTGTGAAGACCAAGCCTAAACCCTTGTTCGGGGCAGCAGGCAAAAAAGTCACGCCTAAAGAT
ATAGCATTTTTCAGCCGCCAAATGGCGACGATGATGAAATCTGGAGTACCCATTGTAGGCTCGCTAGAGATCATTGGCGA
GGGACACAAAAACCCTCGCATGAAACAAATGGTTGGGCAAGTACGGAGCGATATTGAAGGCGGGTCGTCTTTATATGAAT
CCATCAGTAAGCATCCTGTCCAATTCGATGAACTTTATCGCAACCTGGTACGCGCAGGGGAAGGTGCTGGCGTATTGGAA
ACAGTGCTCGATACGATCGCAACCTATAAAGAAAATATGGAGGCACTTAAAGGAAAGATAAAGAAAGCATTATTTTATCC
GGCTGCAGTATTAGCTGTGGCATTGATTGTAACGGCGATCCTACTAATATTTGTTGTACCTCAATTCGAACAGGTTTTTA
GCGGATTTGGCGCCGAACTCCCGGCATTCACCAAGATGATCGTTGCTGCATCACGCTTCATGGTCTCCTATTGGTGGCTA
ATCTTATTCATCACACTAGCCCTAGGTTTTGGCTTCCTTTTTGCCTACAAACGTTCGCCAAGTATGCAACACGGTATGGA
TCGCCTAGTGCTTAGATTGCCGGTAATTGGGCAGATAATGCACAATAGCGCAATTGCTCGTTTCTCGAGGACTACAGCCG
TCACTTTCAAGGCCGGCGTACCATTAGTAGAGGCTTTAGGAATTGTCGCTGGAGCGACCGGTAATGCAGTGTATGGAGAG
GCAATACTTCGTATGCGAGATGATGTCTCTGTTGGCTACCCTATCAATATGGCAATGAAACAAGTCAATCTGTTCCCGCA
TATGGTGATTCAGATGACTGCAATCGGAGAGGAAGCGGGAGCATTGGATGCAATGTTATTTAAGGTAGCTGAATATTTTG
AGCAAGAAGTTAACAATGCGGTCGATGCACTGAGCAGCTTGTTAGAGCCAATGATCATGGTGTTCATTGGTACTATCGTA
GGCGGCATGGTCATCGGCATGTACCTGCCGATCTTCAAGCTCGGCGCAGTCATTGGATAG

Domains

Predicted by InterproScan.

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

(288-410)

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

(84-207)


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 Legionella pneumophila strain ERS1305867

51.724

96.897

0.501
  pilC Pseudomonas stutzeri DSM 10701

52.525

94.511

0.496
  pilC Acinetobacter baylyi ADP1

50.617

96.659

0.489
  pilC Acinetobacter baumannii D1279779

49.136

96.659

0.475
  pilG Neisseria gonorrhoeae MS11

44.059

96.42

0.425
  pilG Neisseria meningitidis 44/76-A

43.564

96.42

0.42
  pilC Vibrio cholerae strain A1552

39.702

96.181

0.382
  pilC Vibrio campbellii strain DS40M4

39.651

95.704

0.379