Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   PSPTO_RS04885 Genome accession   NC_004578
Coordinates   1004067..1005284 (-) Length   405 a.a.
NCBI ID   WP_011103349.1    Uniprot ID   Q888U1
Organism   Pseudomonas syringae pv. tomato str. DC3000     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 999067..1010284
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSPTO_RS04855 (PSPTO0919) - 1000418..1000951 (-) 534 WP_005770014.1 MOSC domain-containing protein -
  PSPTO_RS04860 (PSPTO0920) - 1000948..1001577 (-) 630 WP_003381213.1 DUF1780 domain-containing protein -
  PSPTO_RS04865 - 1001774..1002100 (+) 327 WP_005770015.1 hypothetical protein -
  PSPTO_RS04870 (PSPTO0922) yacG 1002367..1002576 (-) 210 WP_003381207.1 DNA gyrase inhibitor YacG -
  PSPTO_RS04875 (PSPTO0923) coaE 1002573..1003196 (-) 624 WP_005770017.1 dephospho-CoA kinase -
  PSPTO_RS04880 (PSPTO0924) pilD 1003193..1004065 (-) 873 WP_005770019.1 prepilin peptidase Machinery gene
  PSPTO_RS04885 (PSPTO0925) pilC 1004067..1005284 (-) 1218 WP_011103349.1 type II secretion system F family protein Machinery gene
  PSPTO_RS04890 (PSPTO0926) pilB 1005287..1006981 (-) 1695 WP_011103350.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSPTO_RS04895 (PSPTO0927) - 1007206..1007634 (+) 429 WP_011103351.1 pilin -
  PSPTO_RS04900 (PSPTO0928) - 1007830..1008198 (-) 369 WP_011103352.1 winged helix-turn-helix transcriptional regulator -
  PSPTO_RS04905 (PSPTO0929) gstA 1008356..1008976 (+) 621 WP_011103353.1 glutathione transferase GstA -
  PSPTO_RS04910 (PSPTO0930) - 1009322..1009909 (+) 588 WP_010208432.1 DUF433 domain-containing protein -

Sequence

Protein


Download         Length: 405 a.a.        Molecular weight: 44216.26 Da        Isoelectric Point: 10.1950

>NTDB_id=22719 PSPTO_RS04885 WP_011103349.1 1004067..1005284(-) (pilC) [Pseudomonas syringae pv. tomato str. DC3000]
MASKAVKVIVYTWEGVDKKGTKTSGELSGHNLALVKAQLRKQGINPTKVRKKSVSIFGKGKKIKPLDIAFFSRQMATMMK
AGVPLLQSFDIISEGAENPNMRTLVDSLKQEVSAGNSFATALRRKPEYFDELFCNLVDAGEQAGALESLLDRVASYKEKT
EKLKAKIKKAMTYPAAVLIVAVIVSGILLIKVVPQFQSIFASFGADLPAFTLMVIGLSDIVQKWWLIIVIAFFATIFMLK
RAYKKSQNFRDALDRFLLKLPIIGPLIFKSSVARYARTLATTFAAGVPLVEALDSVAGATGNVVFKNAVNRVKQDVSTGM
QLNFSMRSTGVFPSLAIQMTSIGEESGALDAMLDKVATYYEEEVDNMVDNLTSLMEPMIMAILGVIVGGLVIAMYLPIFK
LGNVV

Nucleotide


Download         Length: 1218 bp        

>NTDB_id=22719 PSPTO_RS04885 WP_011103349.1 1004067..1005284(-) (pilC) [Pseudomonas syringae pv. tomato str. DC3000]
ATGGCCAGCAAGGCAGTCAAAGTCATCGTTTACACGTGGGAAGGTGTAGACAAGAAGGGTACTAAAACCAGTGGCGAACT
GAGCGGCCATAACCTCGCCCTCGTAAAAGCCCAACTGCGCAAGCAAGGCATCAACCCGACCAAGGTGCGCAAGAAGTCTG
TATCAATCTTCGGCAAAGGCAAGAAGATCAAGCCGCTGGACATTGCTTTCTTCTCTCGACAGATGGCGACGATGATGAAG
GCCGGTGTCCCGCTGCTACAGTCATTCGATATCATCAGCGAGGGCGCAGAAAACCCAAACATGCGGACGCTCGTGGACTC
TCTCAAGCAAGAGGTTTCAGCTGGCAATAGCTTCGCAACAGCCCTGCGAAGAAAGCCTGAATATTTCGACGAACTCTTCT
GTAACTTGGTAGATGCAGGCGAACAGGCCGGAGCACTTGAAAGTTTGCTTGACCGAGTAGCAAGTTATAAAGAAAAAACC
GAAAAACTCAAGGCAAAGATCAAGAAAGCCATGACTTATCCTGCTGCGGTATTAATTGTTGCTGTTATCGTATCAGGAAT
ACTTCTCATAAAGGTTGTACCACAGTTTCAGTCTATATTTGCCAGTTTTGGCGCGGATTTACCTGCATTTACTCTGATGG
TTATCGGTCTTTCAGACATTGTGCAAAAATGGTGGTTGATAATCGTCATCGCCTTTTTTGCTACTATTTTTATGCTTAAG
CGAGCATACAAAAAATCGCAAAATTTTCGCGACGCCCTTGACCGTTTTCTGCTGAAATTACCCATTATTGGCCCTCTGAT
TTTCAAATCATCGGTCGCACGCTACGCACGCACTCTCGCAACAACTTTTGCGGCGGGCGTACCGTTGGTAGAAGCCTTGG
ACTCGGTAGCAGGGGCTACCGGTAATGTAGTATTTAAGAATGCGGTTAACAGGGTTAAGCAGGACGTCTCTACCGGAATG
CAGCTGAACTTTTCAATGCGTTCAACTGGAGTATTTCCGAGCTTGGCTATACAGATGACATCGATCGGGGAAGAGTCGGG
GGCACTTGATGCGATGCTTGATAAAGTAGCGACCTATTACGAAGAAGAAGTCGATAATATGGTCGACAATCTGACCAGCC
TGATGGAGCCCATGATCATGGCGATACTGGGTGTCATCGTCGGCGGCCTTGTTATTGCCATGTACCTCCCCATCTTCAAA
CTCGGAAACGTCGTCTGA

Domains

Predicted by InterproScan.

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

(276-397)

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

(71-194)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q888U1

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

72.346

100

0.723
  pilC Acinetobacter baylyi ADP1

60.539

100

0.61
  pilC Acinetobacter baumannii D1279779

60.644

99.753

0.605
  pilC Legionella pneumophila strain ERS1305867

52.381

98.519

0.516
  pilC Vibrio cholerae strain A1552

42.716

100

0.427
  pilC Vibrio campbellii strain DS40M4

42.677

97.778

0.417
  pilG Neisseria gonorrhoeae MS11

42.172

97.778

0.412
  pilG Neisseria meningitidis 44/76-A

42.172

97.778

0.412
  pilC Thermus thermophilus HB27

39.152

99.012

0.388

Multiple sequence alignment