Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VAB027_RS15395 Genome accession   NZ_CP010812
Coordinates   3324817..3325692 (+) Length   291 a.a.
NCBI ID   WP_046127053.1    Uniprot ID   -
Organism   Vibrio cholerae strain 10432-62     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3319817..3330692
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VAB027_RS15375 (VAB027_3048) nadC 3320174..3321064 (+) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VAB027_RS15380 (VAB027_3049) - 3321309..3321779 (+) 471 WP_046127050.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  VAB027_RS15385 (VAB027_3050) pilB 3321802..3323490 (+) 1689 WP_046127051.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VAB027_RS15390 (VAB027_3051) pilC 3323533..3324759 (+) 1227 WP_046127052.1 type II secretion system F family protein Machinery gene
  VAB027_RS15395 (VAB027_3052) pilD 3324817..3325692 (+) 876 WP_046127053.1 A24 family peptidase Machinery gene
  VAB027_RS15400 (VAB027_3053) coaE 3325689..3326297 (+) 609 WP_046127054.1 dephospho-CoA kinase -
  VAB027_RS15405 (VAB027_3054) zapD 3326329..3327069 (+) 741 WP_000207194.1 cell division protein ZapD -
  VAB027_RS15410 (VAB027_3055) yacG 3327227..3327424 (+) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  VAB027_RS15415 (VAB027_3056) parC 3327473..3329758 (-) 2286 WP_046127055.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32414.65 Da        Isoelectric Point: 6.8349

>NTDB_id=140002 VAB027_RS15395 WP_046127053.1 3324817..3325692(+) (pilD) [Vibrio cholerae strain 10432-62]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLHQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=140002 VAB027_RS15395 WP_046127053.1 3324817..3325692(+) (pilD) [Vibrio cholerae strain 10432-62]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACCCTGTTTGGCTTGATTGTCGGTAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACACCGATTCGCGTGATT
GATAATATCCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGCTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTAATTGCCACTCACTTTCCGTTCGGGGTGTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTGTTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCACTGGCACTGCTTGGTTTTTCTCCGGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCTATTTACTGGCTATTTAAACTGCTGACAGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCTCTCGGTGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCGGTGGTCGGGGTG
ATTTTCGGTTTAATCCAACTGCACCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGATGGTTTGCCTTGCTGTGGGGCGATAAGGTAATTGATTGGTACTTCACCACTTGGGTAGGACAACCTTTATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


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

99.656

100

0.997
  pilD Vibrio campbellii strain DS40M4

75

98.969

0.742
  pilD Acinetobacter nosocomialis M2

53.676

93.471

0.502
  pilD Acinetobacter baumannii D1279779

53.309

93.471

0.498
  pilD Neisseria gonorrhoeae MS11

44.792

98.969

0.443

Multiple sequence alignment