Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACFGDV_RS04575 Genome accession   NZ_CP176528
Coordinates   946885..947751 (-) Length   288 a.a.
NCBI ID   WP_136413186.1    Uniprot ID   -
Organism   Noviherbaspirillum sp. ST 5-3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 941885..952751
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACFGDV_RS04550 - 942931..943458 (+) 528 WP_136413191.1 hypothetical protein -
  ACFGDV_RS04555 - 943596..945149 (+) 1554 WP_136413190.1 sigma-54-dependent transcriptional regulator -
  ACFGDV_RS04560 yacG 945162..945350 (-) 189 WP_136413189.1 DNA gyrase inhibitor YacG -
  ACFGDV_RS04565 zapD 945359..946114 (-) 756 WP_136413188.1 cell division protein ZapD -
  ACFGDV_RS04570 coaE 946251..946883 (-) 633 WP_136413187.1 dephospho-CoA kinase -
  ACFGDV_RS04575 pilD 946885..947751 (-) 867 WP_136413186.1 prepilin peptidase Machinery gene
  ACFGDV_RS04580 pilG 947751..948977 (-) 1227 WP_136413185.1 type II secretion system F family protein Machinery gene
  ACFGDV_RS04585 pilB 948991..950721 (-) 1731 WP_136413184.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACFGDV_RS04590 - 950874..952145 (-) 1272 WP_136413183.1 HlyC/CorC family transporter -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31267.35 Da        Isoelectric Point: 8.0391

>NTDB_id=1080711 ACFGDV_RS04575 WP_136413186.1 946885..947751(-) (pilD) [Noviherbaspirillum sp. ST 5-3]
MLDLIVSAPPASLIPTVFATVLGLLIGSFLNVVIHRLPKMMQRESDNYVAHERGEPLPHTDRYNLMVPRSACPHCGHAIS
ALENIPVLSYLFLRGKCIECKTPISPRYPIVELLTGMLSGLLIWRFGSGLAGLATLAFAYLLIAMTFIDADTQLLPDDLT
LLLLWCGLLLNLNGTFVPLRDAVIGAAAGYASLWSVYWLFKLTTGKEGMGYGDFKLLAALGAWLGWKMLPVIILLSSIVG
AVVGISLILFAKHGRNNPIPFGPYLAAAGMIALLYGRQMVEAYMGVPI

Nucleotide


Download         Length: 867 bp        

>NTDB_id=1080711 ACFGDV_RS04575 WP_136413186.1 946885..947751(-) (pilD) [Noviherbaspirillum sp. ST 5-3]
ATGCTCGATCTGATTGTGTCGGCACCGCCCGCAAGCCTTATCCCGACGGTTTTCGCTACTGTCCTTGGTCTGCTGATCGG
CAGCTTCCTGAATGTCGTTATTCATCGACTGCCGAAAATGATGCAGCGGGAATCGGACAACTACGTGGCACATGAGCGTG
GCGAGCCTTTGCCGCATACCGACCGCTACAACCTCATGGTCCCCCGCTCGGCCTGCCCTCACTGCGGACATGCTATAAGC
GCGCTCGAGAACATCCCCGTCCTGAGCTATCTTTTCCTGCGGGGGAAATGCATCGAATGCAAGACACCGATTTCGCCTCG
CTATCCGATCGTCGAACTGCTGACCGGCATGCTTTCCGGCCTACTGATCTGGCGCTTCGGCAGCGGTCTGGCCGGATTGG
CAACGCTGGCATTCGCGTATCTGCTGATTGCGATGACATTCATCGACGCGGATACCCAGTTGCTTCCCGATGACTTGACC
CTGTTGCTGCTCTGGTGCGGGCTGTTGCTCAATCTGAATGGCACCTTCGTTCCGCTCCGCGACGCCGTGATCGGTGCGGC
AGCCGGCTATGCAAGTCTTTGGAGCGTCTACTGGCTGTTCAAGCTCACCACTGGCAAGGAAGGCATGGGTTACGGCGATT
TCAAACTGCTCGCGGCATTGGGCGCCTGGCTTGGCTGGAAGATGCTGCCCGTGATCATATTGTTGTCGTCCATTGTCGGC
GCGGTGGTCGGCATCTCGCTTATCCTGTTCGCCAAGCACGGCCGCAACAACCCCATTCCTTTCGGCCCATACCTGGCTGC
GGCCGGAATGATCGCTTTGCTCTACGGAAGACAAATGGTCGAAGCGTATATGGGAGTTCCCATCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-126)


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

57.196

94.097

0.538
  pilD Vibrio campbellii strain DS40M4

54.779

94.444

0.517
  pilD Neisseria gonorrhoeae MS11

52.015

94.792

0.493
  pilD Acinetobacter baumannii D1279779

49.064

92.708

0.455
  pilD Acinetobacter nosocomialis M2

47.94

92.708

0.444

Multiple sequence alignment