Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   RB216_RS03890 Genome accession   NZ_CP133298
Coordinates   861766..862974 (-) Length   402 a.a.
NCBI ID   WP_308908339.1    Uniprot ID   -
Organism   Pseudomonas canadensis strain GZH03     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 856766..867974
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RB216_RS03850 - 856799..858097 (-) 1299 WP_028618790.1 NAD(P)/FAD-dependent oxidoreductase -
  RB216_RS03855 - 858158..858331 (-) 174 WP_016976295.1 DUF3094 family protein -
  RB216_RS03860 - 858386..859015 (-) 630 WP_010213242.1 DUF1780 domain-containing protein -
  RB216_RS03865 - 859119..859808 (+) 690 WP_028618791.1 energy-coupling factor ABC transporter permease -
  RB216_RS03870 - 859874..860089 (+) 216 WP_003171680.1 hypothetical protein -
  RB216_RS03875 yacG 860086..860286 (-) 201 WP_028618792.1 DNA gyrase inhibitor YacG -
  RB216_RS03880 coaE 860283..860906 (-) 624 WP_028618793.1 dephospho-CoA kinase -
  RB216_RS03885 pilD 860903..861769 (-) 867 WP_308908338.1 A24 family peptidase Machinery gene
  RB216_RS03890 pilC 861766..862974 (-) 1209 WP_308908339.1 type II secretion system F family protein Machinery gene
  RB216_RS03895 - 863177..863590 (+) 414 WP_068936050.1 pilin -
  RB216_RS03900 - 863626..865026 (+) 1401 WP_308908340.1 O-antigen ligase family protein -
  RB216_RS03910 - 865293..865598 (+) 306 WP_308908341.1 DUF6388 family protein -
  RB216_RS03915 nadC 865749..866597 (-) 849 WP_028618799.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 402 a.a.        Molecular weight: 43457.94 Da        Isoelectric Point: 10.1186

>NTDB_id=873361 RB216_RS03890 WP_308908339.1 861766..862974(-) (pilC) [Pseudomonas canadensis strain GZH03]
MDDALTQYAWEGINRKGRRVCGQTTGHNLAWVRAQLRQQGISPGHVRKKSSALRGLTPPIKSTDITLLTRQLATLLKAGI
PLLQAFDIIGEGFEHRAVRELVQGLKQAIAAGSSLSDALRKKPRCFDELFCNLVAAGEQAGALETLLERVAIHREKSEQL
RARIKKAMTYPIAVLAVACLVTGVLLIHVVPQFQNLFAGVDGTLPGFTLQVIALSEFMQKAWWIVALGVLAGGMGLRHFY
RAVPAFRRWLDAGLLKTPLAGKLLTKSAVARYARTLSTTFAAGVPLAQALDSVAGAVGSGPFKQAIEHMRHDVSTGMALN
QSMVASGLFPRMAIQMTAIGEESGTLDRMLEKVANHYEADVDNLVDNLTSLMEPLIMVILGSIVGALVIAMYLPVFQLGS
AF

Nucleotide


Download         Length: 1209 bp        

>NTDB_id=873361 RB216_RS03890 WP_308908339.1 861766..862974(-) (pilC) [Pseudomonas canadensis strain GZH03]
ATGGACGACGCTTTAACGCAGTACGCCTGGGAAGGCATCAATCGCAAAGGACGCAGGGTGTGCGGGCAAACCACGGGGCA
CAATCTTGCCTGGGTCAGGGCCCAGTTGCGCCAACAGGGCATCAGCCCAGGGCATGTGCGCAAGAAATCCTCCGCTCTAC
GGGGACTCACACCGCCGATCAAATCGACGGATATCACCCTGCTCACTCGCCAACTTGCGACGCTGCTGAAGGCCGGAATT
CCCCTGCTGCAAGCCTTCGACATCATCGGCGAAGGCTTCGAACACCGCGCTGTGCGTGAGCTGGTGCAAGGACTGAAACA
AGCGATTGCCGCAGGTTCCAGCCTGTCCGACGCCTTGCGCAAAAAGCCTCGCTGCTTCGATGAGCTGTTTTGCAACCTGG
TGGCCGCCGGCGAACAGGCCGGAGCACTGGAAACCCTGCTGGAGCGCGTGGCGATTCATCGGGAAAAGAGTGAGCAGTTA
AGGGCCAGGATCAAAAAAGCCATGACCTATCCGATCGCGGTGCTGGCGGTGGCCTGTCTTGTCACTGGCGTCTTGTTGAT
CCACGTCGTGCCGCAATTCCAGAATCTGTTTGCCGGCGTCGACGGCACGCTGCCCGGCTTTACCTTGCAGGTGATCGCCC
TGTCCGAGTTCATGCAGAAGGCCTGGTGGATCGTAGCGCTTGGCGTTCTCGCGGGAGGCATGGGATTGCGCCACTTCTAT
CGCGCCGTCCCTGCTTTTCGACGCTGGCTGGACGCCGGTTTGTTGAAAACCCCACTCGCAGGCAAACTGCTGACAAAATC
GGCCGTGGCCCGCTACGCACGCACACTGTCCACGACCTTCGCAGCGGGTGTTCCATTGGCTCAGGCATTGGATTCAGTGG
CCGGCGCCGTTGGTTCAGGGCCGTTCAAACAGGCAATCGAGCATATGCGACACGACGTATCCACCGGCATGGCATTGAAT
CAATCCATGGTCGCCAGCGGTCTGTTTCCTCGTATGGCAATCCAGATGACTGCCATCGGCGAGGAGTCAGGCACACTGGA
CCGCATGCTGGAAAAGGTCGCCAACCATTACGAGGCCGACGTGGACAACCTGGTCGACAACCTCACCAGCCTGATGGAGC
CGCTGATCATGGTGATCCTGGGGAGCATTGTCGGTGCGCTGGTAATCGCCATGTACTTGCCGGTCTTCCAGCTGGGGAGC
GCGTTTTGA

Domains

Predicted by InterproScan.

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

(69-191)

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

(273-394)


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

57.506

97.761

0.562
  pilC Acinetobacter baumannii D1279779

51.139

98.259

0.502
  pilC Acinetobacter baylyi ADP1

50.633

98.259

0.498
  pilC Legionella pneumophila strain ERS1305867

48.75

99.502

0.485
  pilG Neisseria gonorrhoeae MS11

41.709

99.005

0.413
  pilC Vibrio cholerae strain A1552

41.353

99.254

0.41
  pilG Neisseria meningitidis 44/76-A

40.5

99.502

0.403
  pilC Vibrio campbellii strain DS40M4

38.539

98.756

0.381