Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   SJ2017_RS02080 Genome accession   NZ_CP020472
Coordinates   461488..462750 (-) Length   420 a.a.
NCBI ID   WP_065109604.1    Uniprot ID   -
Organism   Shewanella japonica strain KCTC 22435     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 456488..467750
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SJ2017_RS02055 (SJ2017_0400) mutT 458501..458938 (-) 438 WP_244899755.1 8-oxo-dGTP diphosphatase MutT -
  SJ2017_RS02060 (SJ2017_0401) yacG 458913..459122 (-) 210 WP_055022953.1 DNA gyrase inhibitor YacG -
  SJ2017_RS02065 (SJ2017_0402) zapD 459163..459900 (-) 738 WP_080914716.1 cell division protein ZapD -
  SJ2017_RS02070 (SJ2017_0403) coaE 459910..460515 (-) 606 WP_080914717.1 dephospho-CoA kinase -
  SJ2017_RS02075 (SJ2017_0404) pilD 460528..461457 (-) 930 WP_080914718.1 prepilin peptidase Machinery gene
  SJ2017_RS02080 (SJ2017_0405) pilC 461488..462750 (-) 1263 WP_065109604.1 type II secretion system F family protein Machinery gene
  SJ2017_RS02085 (SJ2017_0406) pilB 462811..464517 (-) 1707 WP_080914719.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SJ2017_RS02090 (SJ2017_0407) - 464844..466208 (+) 1365 WP_080914720.1 O-antigen ligase family protein -
  SJ2017_RS02095 (SJ2017_0408) pilA/pilAI 466303..466716 (-) 414 WP_174567601.1 pilin Machinery gene

Sequence

Protein


Download         Length: 420 a.a.        Molecular weight: 45776.93 Da        Isoelectric Point: 9.9195

>NTDB_id=223555 SJ2017_RS02080 WP_065109604.1 461488..462750(-) (pilC) [Shewanella japonica strain KCTC 22435]
MATAAARRKPRTKKDTKLQPKTFTFEWKGVNRDGQRTSGELRGTSIAEIRSVLKAQGVTPKGVRKKATPLFKSEKKITAM
DIAMITRQIATMLAAGVPLVTTIELLGKGHEKAKMRELLSGILTDVQSGIPLSDAIRPHRQYFDDLYVDLVAAGEHSGSL
DAVFDRIAVYKEKAEALKSKIKKAMFYPAAVVIVAIAVTVLLLLFVVPQFEEIFNGFGAELPAFTQMIIGISEWLQSSWY
YFAVALIIGIFAFKRAHRNSQGFRDQVDVALLKIPAIGDILHKAAMSRFARTLATTFAAGVPLIDGLESAAGASGNAVYK
KALLKVRQEVMSGMQMNVAMRTTGIFPDMLIQMVMIGEESGGLDDMLNKIANIYEMQVDDAVDGLSSLIEPIMMVVIGTI
VGGLIIGMYLPIFEMGNVVG

Nucleotide


Download         Length: 1263 bp        

>NTDB_id=223555 SJ2017_RS02080 WP_065109604.1 461488..462750(-) (pilC) [Shewanella japonica strain KCTC 22435]
ATGGCAACAGCAGCGGCAAGAAGAAAGCCGAGAACAAAAAAAGACACCAAGCTACAACCTAAAACCTTCACTTTTGAATG
GAAAGGTGTCAATAGAGATGGTCAAAGAACATCTGGCGAACTACGCGGCACTTCGATTGCTGAAATACGCAGTGTTTTAA
AAGCCCAAGGAGTGACTCCCAAGGGAGTGAGAAAAAAAGCGACTCCACTATTTAAGTCAGAAAAAAAGATCACTGCGATG
GATATTGCAATGATTACTCGACAAATAGCCACTATGCTAGCCGCAGGTGTACCGCTTGTTACAACCATTGAACTTTTAGG
CAAAGGTCATGAAAAGGCTAAAATGCGTGAGCTATTATCTGGAATTTTGACCGATGTTCAATCAGGTATTCCTCTATCTG
ATGCTATTCGTCCCCACAGACAATATTTTGATGATCTTTATGTTGACTTGGTCGCTGCTGGTGAACATTCAGGCTCATTA
GATGCGGTATTCGATCGCATTGCTGTATATAAAGAAAAAGCTGAGGCCTTAAAATCTAAAATTAAAAAAGCCATGTTTTA
CCCTGCAGCTGTCGTTATCGTAGCTATAGCAGTTACGGTTTTGCTATTATTATTTGTAGTTCCTCAGTTTGAAGAAATAT
TTAATGGTTTTGGTGCCGAGCTACCAGCATTTACTCAAATGATCATAGGCATTTCAGAGTGGCTACAAAGTTCCTGGTAC
TACTTTGCAGTTGCTTTAATAATTGGAATTTTTGCATTTAAAAGAGCACACAGAAATTCTCAGGGCTTTAGAGATCAAGT
TGATGTCGCACTGCTAAAAATACCCGCAATTGGTGATATTTTACATAAAGCAGCAATGTCTCGATTTGCGCGCACGCTGG
CAACAACCTTTGCCGCGGGTGTCCCATTAATTGATGGTTTAGAGTCTGCTGCTGGCGCATCCGGTAATGCCGTTTATAAA
AAAGCATTATTAAAAGTCCGCCAAGAAGTCATGTCTGGTATGCAAATGAATGTAGCAATGAGAACCACAGGTATCTTCCC
TGACATGCTTATACAAATGGTAATGATCGGCGAAGAGTCTGGTGGTTTAGATGACATGCTTAATAAAATTGCAAACATTT
ATGAAATGCAAGTTGATGATGCCGTGGATGGCTTATCAAGCCTGATTGAACCAATCATGATGGTTGTCATTGGCACAATT
GTTGGTGGTTTGATTATCGGTATGTATTTACCTATTTTTGAAATGGGTAACGTTGTCGGCTAA

Domains

Predicted by InterproScan.

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

(86-208)

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

(289-411)


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

54.135

95

0.514
  pilC Acinetobacter baylyi ADP1

49.51

97.143

0.481
  pilC Acinetobacter baumannii D1279779

50.503

94.762

0.479
  pilC Legionella pneumophila strain ERS1305867

48.267

96.19

0.464
  pilC Vibrio cholerae strain A1552

45.729

94.762

0.433
  pilC Vibrio campbellii strain DS40M4

43.564

96.19

0.419
  pilG Neisseria meningitidis 44/76-A

41.895

95.476

0.4
  pilG Neisseria gonorrhoeae MS11

41.895

95.476

0.4

Multiple sequence alignment