Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   SSED_RS02245 Genome accession   NC_009831
Coordinates   515443..516708 (-) Length   421 a.a.
NCBI ID   WP_012140774.1    Uniprot ID   -
Organism   Shewanella sediminis HAW-EB3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 510443..521708
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SSED_RS24755 - 512033..512170 (+) 138 WP_190273185.1 hypothetical protein -
  SSED_RS02220 (Ssed_0419) mutT 512380..512769 (-) 390 WP_012140769.1 8-oxo-dGTP diphosphatase MutT -
  SSED_RS02225 (Ssed_0420) yacG 512773..512985 (-) 213 WP_012140770.1 DNA gyrase inhibitor YacG -
  SSED_RS02230 (Ssed_0421) zapD 513065..513799 (-) 735 WP_012140771.1 cell division protein ZapD -
  SSED_RS02235 (Ssed_0422) coaE 513808..514413 (-) 606 WP_012140772.1 dephospho-CoA kinase -
  SSED_RS02240 (Ssed_0423) pilD 514459..515370 (-) 912 WP_012140773.1 A24 family peptidase Machinery gene
  SSED_RS02245 (Ssed_0424) pilC 515443..516708 (-) 1266 WP_012140774.1 type II secretion system F family protein Machinery gene
  SSED_RS02250 (Ssed_0425) pilB 516774..518483 (-) 1710 WP_012140775.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SSED_RS02255 (Ssed_0426) - 518556..518966 (-) 411 WP_012140776.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  SSED_RS02260 (Ssed_0427) nadC 519719..520624 (-) 906 WP_012140777.1 carboxylating nicotinate-nucleotide diphosphorylase -
  SSED_RS02265 (Ssed_0428) ampD 520949..521566 (+) 618 WP_012140778.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 421 a.a.        Molecular weight: 45951.14 Da        Isoelectric Point: 10.0964

>NTDB_id=29196 SSED_RS02245 WP_012140774.1 515443..516708(-) (pilC) [Shewanella sediminis HAW-EB3]
MATATAGKAKKSKKKSAKAQPKVFTFEWKGVNRDGKKTSGELRGTSAIEIKSQLKLQGVKPKAVRKKANSLFKSEKKITA
MDIAMMTRQVATMLSAGVPIVTTLELLGRGHEKPKMRELLATIVGDVQSGIPLSDSLKPHRQYFDDLYVDLVAAGEHSGS
LDAVFDRIATYREKAEALKSKIKKAMFYPAAVVVVAIAVTALLLLFVVPQFEEIFQGFGAELPAFTQMIVDISRWLQASW
YIFVIAIIIAVFSFKRAHLHSQSFRNRVDEFVLKIPAIGDILDKGAMARFARTLSTTFAAGVPLIDGLESSAGASGNYVY
RSALLKVRQEVMAGMQMNVAMRTTGLFPDMLIQMVMIGEESGGLDEMLNKVANIYEMQVDDAVDGLSSLIEPIMMVVIGT
LVGGLIVGMYLPIFQMGNVVG

Nucleotide


Download         Length: 1266 bp        

>NTDB_id=29196 SSED_RS02245 WP_012140774.1 515443..516708(-) (pilC) [Shewanella sediminis HAW-EB3]
ATGGCAACGGCGACAGCAGGCAAAGCAAAAAAATCAAAGAAAAAGAGTGCTAAAGCCCAACCTAAGGTTTTCACCTTCGA
GTGGAAGGGAGTTAATCGCGATGGAAAAAAAACCTCTGGCGAGTTAAGAGGAACCTCCGCAATAGAGATAAAGAGTCAGC
TAAAACTCCAAGGCGTTAAACCAAAAGCTGTCCGTAAAAAAGCAAACTCACTCTTCAAGAGTGAAAAGAAAATTACAGCC
ATGGACATTGCTATGATGACCAGGCAGGTTGCCACCATGCTCTCAGCAGGTGTTCCGATTGTCACAACGCTAGAATTACT
GGGTCGTGGCCATGAAAAGCCTAAAATGCGAGAGTTACTAGCGACGATTGTAGGTGATGTCCAATCAGGTATCCCCCTTT
CTGATTCACTCAAACCCCATAGACAATATTTCGATGATCTATATGTCGATTTGGTTGCAGCGGGTGAACATTCTGGCTCA
CTCGATGCCGTATTTGATCGCATTGCCACCTACCGAGAGAAAGCCGAGGCGTTAAAGTCAAAAATCAAGAAAGCCATGTT
TTACCCCGCTGCAGTTGTAGTGGTTGCGATAGCGGTGACCGCCCTACTTTTACTTTTTGTTGTGCCTCAGTTTGAAGAGA
TCTTTCAAGGCTTTGGCGCGGAATTACCTGCCTTTACGCAGATGATTGTTGATATTTCTCGATGGTTGCAAGCCTCTTGG
TATATTTTTGTTATAGCGATAATTATTGCAGTATTCAGCTTCAAACGCGCTCATCTACACTCACAGAGCTTTAGGAACAG
GGTCGATGAATTTGTATTAAAAATCCCTGCTATAGGCGATATACTCGATAAAGGTGCTATGGCTCGCTTTGCTAGAACTC
TCTCAACAACTTTCGCAGCGGGAGTTCCGCTAATTGACGGCTTAGAATCCTCTGCGGGAGCTTCAGGTAACTATGTTTAT
CGAAGCGCTCTACTTAAAGTGCGCCAAGAAGTGATGGCAGGTATGCAGATGAATGTTGCTATGCGCACAACAGGTCTGTT
TCCTGACATGCTGATCCAGATGGTAATGATCGGTGAAGAGTCTGGCGGACTCGATGAGATGCTCAATAAAGTCGCTAACA
TCTATGAGATGCAGGTCGATGATGCCGTCGATGGCCTTTCCAGCTTAATTGAGCCTATCATGATGGTTGTCATCGGCACA
CTCGTTGGCGGCCTGATTGTCGGCATGTATCTACCAATCTTCCAAATGGGTAATGTGGTAGGCTAG

Domains

Predicted by InterproScan.

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

(87-209)

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

(290-412)


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

56.962

93.824

0.534
  pilC Acinetobacter baumannii D1279779

50

96.912

0.485
  pilC Legionella pneumophila strain ERS1305867

50.248

95.962

0.482
  pilC Acinetobacter baylyi ADP1

50.378

94.299

0.475
  pilC Vibrio cholerae strain A1552

47.739

94.537

0.451
  pilC Vibrio campbellii strain DS40M4

44.913

95.724

0.43
  pilG Neisseria meningitidis 44/76-A

42.394

95.249

0.404
  pilG Neisseria gonorrhoeae MS11

42.394

95.249

0.404

Multiple sequence alignment