Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   BIU85_RS05530 Genome accession   NZ_CP017319
Coordinates   1274651..1275907 (-) Length   418 a.a.
NCBI ID   WP_075285409.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris str. CN18     
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 1261126..1285703 1274651..1275907 within 0


Gene organization within MGE regions


Location: 1261126..1285703
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BIU85_RS05450 - 1261126..1261542 (+) 417 WP_227971334.1 hypothetical protein -
  BIU85_RS23830 - 1261832..1262062 (-) 231 WP_157769280.1 hypothetical protein -
  BIU85_RS05455 - 1262126..1262281 (+) 156 WP_075285405.1 hypothetical protein -
  BIU85_RS05460 - 1262458..1262853 (+) 396 WP_016945003.1 hypothetical protein -
  BIU85_RS05465 - 1262944..1263336 (+) 393 WP_012437593.1 H-NS family nucleoid-associated regulatory protein -
  BIU85_RS05475 glgX 1263861..1265990 (-) 2130 WP_016945001.1 glycogen debranching protein GlgX -
  BIU85_RS05480 rimK 1266483..1267358 (+) 876 WP_016945000.1 30S ribosomal protein S6--L-glutamate ligase -
  BIU85_RS05485 - 1268008..1268685 (+) 678 WP_003490678.1 response regulator transcription factor -
  BIU85_RS05490 - 1268678..1270012 (+) 1335 WP_162808569.1 HAMP domain-containing sensor histidine kinase -
  BIU85_RS05495 - 1270155..1270646 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  BIU85_RS05500 - 1270643..1270933 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  BIU85_RS05505 - 1271008..1271409 (-) 402 WP_040940795.1 SymE family type I addiction module toxin -
  BIU85_RS05510 - 1271552..1272660 (+) 1109 WP_087942068.1 IS3 family transposase -
  BIU85_RS05520 coaE 1273145..1273768 (-) 624 WP_075285407.1 dephospho-CoA kinase -
  BIU85_RS05525 - 1273782..1274645 (-) 864 WP_075285408.1 A24 family peptidase -
  BIU85_RS05530 pilC 1274651..1275907 (-) 1257 WP_075285409.1 type II secretion system F family protein Machinery gene
  BIU85_RS05535 - 1276244..1276693 (+) 450 WP_075285410.1 pilin -
  BIU85_RS05540 - 1276809..1277183 (+) 375 WP_269467167.1 pilin -
  BIU85_RS05545 pilB 1277242..1278948 (+) 1707 WP_198407549.1 type IV-A pilus assembly ATPase PilB Machinery gene
  BIU85_RS05550 pilR 1279366..1280760 (-) 1395 WP_162808570.1 sigma-54 dependent transcriptional regulator Regulator
  BIU85_RS05555 - 1280970..1282580 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  BIU85_RS05560 sucC 1282814..1283983 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  BIU85_RS05565 sucD 1284008..1284883 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  BIU85_RS05570 - 1284987..1285397 (+) 411 WP_029628876.1 DNA-binding protein -
  BIU85_RS05575 - 1285401..1285703 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 418 a.a.        Molecular weight: 45523.96 Da        Isoelectric Point: 10.3308

>NTDB_id=197691 BIU85_RS05530 WP_075285409.1 1274651..1275907(-) (pilC) [Xanthomonas campestris pv. campestris str. CN18]
MAAVRGVVKTKPTLQLEQASPFVWQGTDKRGVKMKGEQTAKNANLLRAELRRQGITPTVVKVKPKPLFGAAGKKVSAKDI
SFFSRQMATMMKSGVPIVGALEIIGSGQKNPRMRNMVGQIRADIEGGSSLHEAVSRHPVQFDELYRNLVKAGEGAGVLET
VLDTIATYKENIEALKGKIKKALFYPAMVVAVALIVSAILLIFVVPQFEDVFKGFGAELPAFTQIIVNMSRFMVSWWWLI
LFVVVVAVIGFIFAYKRSPSMQHGMDRVILKVPIIGQIMHNSSIARFARTTAVTFKAGVPLVEALSIVAGATGNSVYETA
VLRMRDDVSVGYPVNMAMKQVNLFPHMVVQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLIEPLIMVFIGTIVG
GMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1257 bp        

>NTDB_id=197691 BIU85_RS05530 WP_075285409.1 1274651..1275907(-) (pilC) [Xanthomonas campestris pv. campestris str. CN18]
ATGGCAGCAGTACGTGGTGTGGTCAAGACGAAGCCGACCTTGCAATTAGAGCAGGCTAGTCCGTTTGTCTGGCAGGGAAC
GGACAAGCGCGGCGTGAAGATGAAGGGGGAGCAGACGGCAAAAAACGCCAATCTGCTACGTGCGGAACTCCGCAGGCAGG
GGATAACGCCTACTGTTGTAAAGGTAAAGCCGAAGCCGTTATTTGGCGCGGCTGGCAAGAAGGTTTCCGCTAAGGACATC
TCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCCGGAGTTCCGATCGTTGGGGCGCTTGAGATCATCGGCAGCGG
CCAGAAAAATCCGCGCATGCGGAACATGGTTGGGCAAATCCGCGCAGACATCGAAGGCGGTTCTTCACTGCATGAAGCAG
TCAGCAGGCACCCCGTGCAGTTTGACGAGCTCTACAGGAACCTCGTTAAAGCCGGCGAAGGTGCGGGCGTTTTGGAGACG
GTGCTGGACACCATTGCGACATACAAGGAGAACATCGAGGCGCTGAAGGGCAAGATCAAAAAAGCCTTGTTCTATCCGGC
AATGGTTGTCGCAGTAGCACTAATCGTCAGCGCGATTCTGCTCATCTTTGTGGTACCTCAATTTGAGGACGTGTTCAAGG
GCTTTGGCGCGGAACTGCCCGCCTTCACTCAGATCATTGTGAACATGTCGCGGTTCATGGTGTCGTGGTGGTGGCTGATT
CTTTTTGTTGTGGTCGTCGCCGTCATTGGCTTCATCTTCGCCTACAAACGCTCCCCCTCAATGCAACACGGCATGGACCG
GGTCATCCTCAAAGTGCCGATCATCGGCCAAATCATGCACAACAGTTCCATTGCACGTTTTGCACGGACGACTGCAGTGA
CATTCAAGGCAGGCGTACCATTGGTCGAAGCATTGAGCATCGTGGCTGGCGCAACCGGCAACTCGGTATACGAGACTGCC
GTACTACGGATGCGGGACGATGTGTCAGTGGGCTACCCTGTGAACATGGCAATGAAACAGGTCAATCTGTTCCCGCACAT
GGTGGTGCAGATGACTGCCATCGGCGAAGAAGCGGGCGCACTGGATGCCATGCTGTTCAAGGTAGCGGAGTACTTCGAGC
AAGAGGTCAACAATGCGGTCGACGCGCTGAGCAGCCTGATCGAACCCCTGATCATGGTGTTCATTGGAACCATCGTCGGC
GGCATGGTCATCGGCATGTACCTGCCCATCTTCAAGCTCGCCTCGGTGGTTGGATAA

Domains

Predicted by InterproScan.

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

(83-206)

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

(287-409)


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

52.513

95.215

0.5
  pilC Legionella pneumophila strain ERS1305867

51.478

97.129

0.5
  pilC Acinetobacter baylyi ADP1

50.882

94.976

0.483
  pilC Acinetobacter baumannii D1279779

50.378

94.976

0.478
  pilG Neisseria gonorrhoeae MS11

43.467

95.215

0.414
  pilG Neisseria meningitidis 44/76-A

42.965

95.215

0.409
  pilC Vibrio cholerae strain A1552

41.363

98.325

0.407
  pilC Vibrio campbellii strain DS40M4

40.399

95.933

0.388

Multiple sequence alignment