Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   STH12_RS20220 Genome accession   NZ_CP020373
Coordinates   4601749..4603008 (-) Length   419 a.a.
NCBI ID   WP_126169205.1    Uniprot ID   -
Organism   Shewanella khirikhana strain TH2012     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4596749..4608008
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  STH12_RS20195 (STH12_04061) mutT 4598750..4599145 (-) 396 WP_126169200.1 8-oxo-dGTP diphosphatase MutT -
  STH12_RS20200 (STH12_04062) yacG 4599187..4599402 (-) 216 WP_126169201.1 DNA gyrase inhibitor YacG -
  STH12_RS20205 (STH12_04063) zapD 4599464..4600198 (-) 735 WP_126169202.1 cell division protein ZapD -
  STH12_RS20210 (STH12_04064) coaE 4600191..4600808 (-) 618 WP_126169203.1 dephospho-CoA kinase -
  STH12_RS20215 (STH12_04065) pilD 4600808..4601722 (-) 915 WP_126169204.1 prepilin peptidase Machinery gene
  STH12_RS20220 (STH12_04066) pilC 4601749..4603008 (-) 1260 WP_126169205.1 type II secretion system F family protein Machinery gene
  STH12_RS20225 (STH12_04067) pilB 4603043..4604749 (-) 1707 WP_126169206.1 type IV-A pilus assembly ATPase PilB Machinery gene
  STH12_RS20230 (STH12_04068) - 4604806..4605303 (-) 498 WP_126169207.1 pilin -
  STH12_RS20235 (STH12_04069) nadC 4606617..4607474 (-) 858 WP_126169208.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45991.30 Da        Isoelectric Point: 10.0960

>NTDB_id=221867 STH12_RS20220 WP_126169205.1 4601749..4603008(-) (pilC) [Shewanella khirikhana strain TH2012]
MATVAATKSKKAASKQQPKVYNFEWKGLNRDGKKSSGELRGTSVAEIKTILKNQGINPKLVRKKSEGLFGKGNKKINAMD
IAMITRQIATMLMAGVPLVTTIDILGKGHEKPKMRELLGTILNDIQAGIPLSDALRPHRIYFDDLYVDLVAAGEHSGSLD
VVFDRIATYREKAEALKSKIKKAMFYPAAVVVVAIAVTTLLLLFVVPQFEDIFKSFGAELPAFTQMIINISRFLQSSWYF
FLTAIVASVWLYIRAHRNSQVVRDRQDEFVLKIPVIGDILHKAAMARFARTLATTFAAGVPLIDGLESAAGASGNAVYRK
ALLKIRTEVMAGMQMNVAMRTVNLFPDMLIQMVMIGEESGSLDNMLNKIANIYEMQVDDAVDGLSSLIEPIMMVVIGTLV
GGLIVGMYLPIFQMGNVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=221867 STH12_RS20220 WP_126169205.1 4601749..4603008(-) (pilC) [Shewanella khirikhana strain TH2012]
ATGGCAACCGTGGCCGCGACCAAGTCAAAAAAAGCCGCCTCAAAACAGCAGCCCAAAGTGTATAACTTTGAATGGAAAGG
CTTAAACCGTGACGGTAAAAAGTCCAGTGGCGAGCTGAGAGGGACATCGGTTGCCGAAATTAAAACTATTCTGAAGAATC
AGGGCATTAATCCAAAATTAGTTCGAAAAAAATCTGAGGGTCTCTTCGGAAAAGGCAATAAAAAAATCAATGCGATGGAT
ATCGCTATGATCACCCGTCAAATAGCAACCATGTTAATGGCAGGCGTCCCTTTAGTGACGACCATCGATATTTTAGGAAA
AGGGCATGAAAAGCCTAAAATGAGAGAACTTTTAGGTACTATCTTAAATGATATCCAAGCTGGTATTCCTCTCTCCGATG
CTCTAAGACCTCACCGTATCTATTTTGATGATCTCTATGTTGACTTGGTAGCAGCAGGTGAGCATTCTGGTTCTCTGGAT
GTGGTATTCGACCGCATTGCCACATATAGAGAAAAAGCAGAGGCACTAAAATCAAAAATTAAGAAAGCTATGTTCTACCC
CGCCGCAGTTGTGGTAGTAGCCATTGCGGTAACAACCCTACTGCTACTTTTCGTAGTACCGCAATTTGAAGATATTTTTA
AGAGTTTTGGTGCAGAACTTCCAGCATTCACCCAAATGATCATTAATATCTCGAGGTTCCTGCAATCATCTTGGTATTTC
TTCCTCACCGCGATTGTTGCGTCAGTCTGGCTCTACATAAGGGCACACAGAAACTCTCAAGTTGTAAGGGATCGGCAAGA
CGAGTTTGTGTTAAAGATACCTGTAATCGGAGATATTTTACATAAAGCTGCCATGGCTCGTTTTGCCCGCACTTTGGCCA
CCACCTTTGCTGCTGGCGTGCCCCTCATTGATGGCTTGGAATCTGCGGCTGGTGCTTCTGGTAACGCAGTTTACCGTAAA
GCGCTCTTAAAAATTCGCACCGAGGTAATGGCCGGTATGCAAATGAACGTCGCTATGCGCACGGTAAACCTTTTCCCAGA
CATGCTGATTCAGATGGTAATGATTGGTGAAGAGTCAGGCTCTCTCGATAATATGCTCAATAAAATTGCCAACATTTATG
AAATGCAAGTAGATGATGCCGTCGATGGTTTGTCCAGTCTAATCGAACCCATTATGATGGTTGTAATTGGCACCTTGGTT
GGTGGATTGATCGTAGGCATGTACCTGCCAATCTTCCAGATGGGTAACGTGGTAGGATAA

Domains

Predicted by InterproScan.

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

(288-410)

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

(85-207)


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

56.566

94.511

0.535
  pilC Acinetobacter baumannii D1279779

50.488

97.852

0.494
  pilC Acinetobacter baylyi ADP1

50.86

97.136

0.494
  pilC Legionella pneumophila strain ERS1305867

50.495

96.42

0.487
  pilC Vibrio cholerae strain A1552

46.115

95.227

0.439
  pilC Vibrio campbellii strain DS40M4

44.01

97.613

0.43
  pilG Neisseria meningitidis 44/76-A

41.584

96.42

0.401
  pilG Neisseria gonorrhoeae MS11

41.584

96.42

0.401

Multiple sequence alignment