Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ABFU12_RS05085 Genome accession   NZ_CP155953
Coordinates   1219316..1220518 (-) Length   400 a.a.
NCBI ID   WP_162275519.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain bglFP 6811     
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 1208400..1226372 1219316..1220518 within 0


Gene organization within MGE regions


Location: 1208400..1226372
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU12_RS05035 (ABFU12_05030) - 1209359..1209514 (+) 156 WP_274318276.1 hypothetical protein -
  ABFU12_RS05040 (ABFU12_05035) - 1209690..1210085 (+) 396 WP_011038225.1 hypothetical protein -
  ABFU12_RS05045 (ABFU12_05040) - 1210176..1210568 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  ABFU12_RS05050 (ABFU12_05045) glgX 1211110..1213239 (-) 2130 WP_016945001.1 glycogen debranching protein GlgX -
  ABFU12_RS05055 (ABFU12_05050) rimK 1213732..1214607 (+) 876 WP_076054142.1 30S ribosomal protein S6--L-glutamate ligase -
  ABFU12_RS05060 (ABFU12_05055) - 1215257..1215934 (+) 678 WP_003490678.1 response regulator transcription factor -
  ABFU12_RS05065 (ABFU12_05060) - 1215927..1217261 (+) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  ABFU12_RS05070 (ABFU12_05065) - 1217360..1217615 (-) 256 Protein_984 SymE family type I addiction module toxin -
  ABFU12_RS05075 (ABFU12_05070) coaE 1217809..1218432 (-) 624 WP_225042504.1 dephospho-CoA kinase -
  ABFU12_RS05080 (ABFU12_05075) - 1218446..1219309 (-) 864 WP_323523614.1 A24 family peptidase -
  ABFU12_RS05085 (ABFU12_05080) pilC 1219316..1220518 (-) 1203 WP_162275519.1 type II secretion system F family protein Machinery gene
  ABFU12_RS05090 (ABFU12_05085) - 1220701..1222692 (-) 1992 WP_407471045.1 hypothetical protein -
  ABFU12_RS05095 (ABFU12_05090) - 1222763..1223179 (-) 417 WP_323530011.1 pilin -
  ABFU12_RS05100 (ABFU12_05095) - 1223519..1223899 (+) 381 WP_323543050.1 SMR family transporter -
  ABFU12_RS05105 (ABFU12_05100) - 1223904..1224698 (+) 795 WP_076057322.1 glycosyltransferase family A protein -
  ABFU12_RS05110 (ABFU12_05105) - 1224695..1225741 (+) 1047 WP_081390738.1 glycosyltransferase family 2 protein -
  ABFU12_RS05115 (ABFU12_05110) - 1225734..1226372 (+) 639 WP_407471046.1 methionine biosynthesis protein MetW -

Sequence

Protein


Download         Length: 400 a.a.        Molecular weight: 43736.06 Da        Isoelectric Point: 10.0366

>NTDB_id=1000180 ABFU12_RS05085 WP_162275519.1 1219316..1220518(-) (pilC) [Xanthomonas campestris pv. raphani strain bglFP 6811]
MATFVWEGTDKRGVKMKGDELARNANMLRAELRRRGITPTVVKTKPKPLFGAAGKPIKPKDIAFFSRQMATMMKSGVPIV
GSLEIIGEGAKNPRMKKMVGEIRTDIEGGLSLNEAISKHPVQFDELYRNLVKAGESAGVLDTVLETVATYKENIEALKGK
IKKALFYPAMVMAVALIVSSILLIWVVPQFETVFSSFGAELPAFTQMIVNCSRFMVSWWLPMLLVAIGSVVGLVMGYKRS
PKMQHLFDRLILKVPVIGKIMHDSAIARFARTTAVTFKAGVPLVEALSIVAGATGNKVYEEAVLRMRDDVSVGYPVNLSM
KQVNLFPHMVIQMTAIGEEAGALDTMLFKVADYFEQDVNNAVDALSSLLEPMIMIFIGVVVGGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1203 bp        

>NTDB_id=1000180 ABFU12_RS05085 WP_162275519.1 1219316..1220518(-) (pilC) [Xanthomonas campestris pv. raphani strain bglFP 6811]
ATGGCAACCTTTGTCTGGGAGGGGACAGACAAGCGCGGCGTCAAGATGAAGGGGGATGAGCTCGCCCGCAATGCCAACAT
GCTGCGTGCCGAACTCCGGAGGCGCGGCATTACGCCGACCGTGGTCAAGACCAAGCCCAAGCCGTTGTTCGGCGCGGCCG
GCAAGCCAATCAAGCCCAAGGACATCGCGTTCTTCAGTCGGCAGATGGCGACCATGATGAAATCGGGCGTGCCGATTGTG
GGGTCGCTCGAGATCATCGGCGAGGGCGCCAAGAACCCGCGCATGAAGAAGATGGTCGGTGAAATCCGCACCGACATCGA
GGGCGGCCTGTCGCTCAACGAGGCCATCAGCAAACATCCGGTGCAGTTCGACGAGCTGTACCGCAACCTGGTCAAAGCTG
GCGAAAGTGCCGGCGTTCTCGATACTGTGCTGGAAACTGTAGCGACGTATAAAGAGAACATCGAAGCCCTCAAGGGCAAG
ATCAAGAAGGCGCTGTTCTATCCGGCGATGGTGATGGCCGTTGCGCTCATCGTAAGTTCCATCCTGCTCATCTGGGTGGT
ACCGCAATTCGAAACCGTATTTTCCAGCTTCGGCGCGGAGTTGCCAGCATTTACCCAGATGATCGTGAATTGTTCACGCT
TCATGGTGTCGTGGTGGCTGCCGATGTTGCTGGTCGCGATCGGGTCGGTGGTTGGGCTGGTGATGGGCTACAAGCGCTCG
CCGAAAATGCAGCATCTGTTCGACAGGCTGATCCTCAAAGTTCCGGTCATCGGCAAGATCATGCATGACAGTGCCATTGC
CCGCTTCGCGCGTACCACGGCAGTGACCTTCAAGGCCGGCGTCCCTCTGGTGGAGGCGCTGAGCATCGTGGCCGGCGCCA
CCGGCAACAAGGTCTACGAAGAAGCGGTGCTGCGCATGCGCGACGACGTGTCGGTCGGCTACCCGGTCAACCTGTCGATG
AAGCAGGTCAACCTGTTTCCGCACATGGTGATCCAGATGACCGCCATCGGCGAAGAGGCTGGCGCATTGGATACCATGCT
CTTCAAGGTTGCCGATTACTTCGAGCAGGACGTGAATAATGCGGTGGATGCCTTGAGCAGCCTGCTGGAGCCGATGATCA
TGATCTTTATTGGTGTCGTTGTCGGCGGTATGGTGATCGGCATGTACCTGCCCATCTTCAAGTTGGGCGCAGTCGTTGGA
TAA

Domains

Predicted by InterproScan.

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

(269-391)

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

(65-188)


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

52.764

99.5

0.525
  pilC Legionella pneumophila strain ERS1305867

52.141

99.25

0.517
  pilC Acinetobacter baylyi ADP1

49.25

100

0.493
  pilC Acinetobacter baumannii D1279779

48.5

100

0.485
  pilG Neisseria gonorrhoeae MS11

42.68

100

0.43
  pilG Neisseria meningitidis 44/76-A

42.68

100

0.43
  pilC Vibrio campbellii strain DS40M4

40.05

100

0.403
  pilC Vibrio cholerae strain A1552

39.5

100

0.395
  pilC Thermus thermophilus HB27

38.653

100

0.387

Multiple sequence alignment