Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   STH12_RS20215 Genome accession   NZ_CP020373
Coordinates   4600808..4601722 (-) Length   304 a.a.
NCBI ID   WP_126169204.1    Uniprot ID   -
Organism   Shewanella khirikhana strain TH2012     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4595808..4606722
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 -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33807.11 Da        Isoelectric Point: 6.4743

>NTDB_id=221866 STH12_RS20215 WP_126169204.1 4600808..4601722(-) (pilD) [Shewanella khirikhana strain TH2012]
MTELISLMSQYLWLFILLAFIFAATIGSFLNVVIHRLPVMMKREWQQECNAYLEEYQPELFKKLGKANLEKPIDGYPARY
NLIVPGSSCPKCGNGIKPWHNLPVLGWLMLGGKCASCKTPISSRYPIVEAFTGVAVAALAWHFGPTWEFAASALLTFGLI
AMSGIDLDEMLLPDSLTLPLLWLGLLLNYQDLFTSLEDALIGAVAGYLSLWSVYWLFKITTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGALVGIAMMVWKSHKRENPIPFGPYIAAAGWIALVWGNDIVTWYLGSL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=221866 STH12_RS20215 WP_126169204.1 4600808..4601722(-) (pilD) [Shewanella khirikhana strain TH2012]
ATGACCGAATTAATCTCCTTAATGAGCCAGTACCTCTGGCTCTTTATTTTGCTCGCATTCATTTTTGCAGCCACCATCGG
CAGTTTTTTGAATGTCGTCATTCATCGCCTTCCCGTCATGATGAAAAGAGAGTGGCAGCAGGAATGTAATGCCTATCTGG
AAGAGTACCAGCCTGAGCTTTTTAAAAAACTTGGAAAAGCAAATCTGGAAAAGCCCATTGATGGTTATCCCGCACGTTAC
AACCTGATTGTCCCAGGCTCCTCGTGCCCAAAATGTGGCAACGGCATCAAGCCTTGGCACAATCTGCCGGTTCTGGGGTG
GCTCATGCTTGGTGGCAAATGTGCCTCATGTAAAACTCCTATATCCAGTCGCTACCCCATTGTTGAAGCATTTACAGGTG
TCGCTGTTGCCGCTCTCGCGTGGCATTTTGGCCCTACATGGGAATTTGCGGCATCAGCCTTGTTAACCTTCGGTCTGATT
GCTATGTCAGGTATCGATCTGGATGAGATGCTGCTGCCCGACAGCCTTACGCTGCCTCTGCTGTGGCTTGGATTGCTGCT
GAATTACCAAGACCTTTTCACCAGTCTAGAGGATGCACTGATTGGTGCCGTTGCGGGCTACCTGTCGCTTTGGTCGGTTT
ATTGGCTATTTAAGATTACCACCGGCAAGGAAGGCATGGGTTATGGTGACTTCAAGTTGATGGCACTCTTTGGGGCCTGG
CTTGGCTGGCAAATGCTGCCGCTTATCATCCTGCTCTCGAGCCTCGTCGGCGCCCTTGTAGGCATCGCGATGATGGTTTG
GAAAAGCCATAAACGGGAGAATCCAATTCCATTCGGCCCCTATATAGCTGCCGCAGGCTGGATAGCACTTGTGTGGGGGA
ATGACATCGTTACCTGGTACCTGGGAAGCCTGTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(154-262)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-143)


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
  pilD Vibrio cholerae strain A1552

48.845

99.671

0.487
  pilD Vibrio campbellii strain DS40M4

49.169

99.013

0.487
  pilD Acinetobacter baumannii D1279779

46.689

99.342

0.464
  pilD Acinetobacter nosocomialis M2

46.026

99.342

0.457
  pilD Neisseria gonorrhoeae MS11

43.403

94.737

0.411

Multiple sequence alignment