Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VAA049_RS02405 Genome accession   NZ_CP010811
Coordinates   491393..492268 (-) Length   291 a.a.
NCBI ID   WP_046121365.1    Uniprot ID   -
Organism   Vibrio cholerae strain 1154-74     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 486393..497268
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VAA049_RS02385 (VAA049_465) parC 487343..489628 (+) 2286 WP_046121363.1 DNA topoisomerase IV subunit A -
  VAA049_RS02390 (VAA049_466) yacG 489677..489874 (-) 198 WP_046121364.1 DNA gyrase inhibitor YacG -
  VAA049_RS02395 (VAA049_467) zapD 490016..490756 (-) 741 WP_000207194.1 cell division protein ZapD -
  VAA049_RS02400 (VAA049_468) coaE 490788..491396 (-) 609 WP_000011553.1 dephospho-CoA kinase -
  VAA049_RS02405 (VAA049_469) pilD 491393..492268 (-) 876 WP_046121365.1 A24 family peptidase Machinery gene
  VAA049_RS02410 (VAA049_470) pilC 492326..493552 (-) 1227 WP_000648510.1 type II secretion system F family protein Machinery gene
  VAA049_RS02415 (VAA049_471) pilB 493595..495283 (-) 1689 WP_000957203.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VAA049_RS02420 (VAA049_472) - 495292..495756 (-) 465 WP_000649341.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  VAA049_RS02425 (VAA049_473) nadC 496001..496891 (-) 891 WP_000665278.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32433.69 Da        Isoelectric Point: 7.1618

>NTDB_id=139935 VAA049_RS02405 WP_046121365.1 491393..492268(-) (pilD) [Vibrio cholerae strain 1154-74]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYIAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=139935 VAA049_RS02405 WP_046121365.1 491393..492268(-) (pilD) [Vibrio cholerae strain 1154-74]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACCCTGTTTGGCTTGATTGTCGGTAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACGCCGATTCGCGTCATT
GATAATATTCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGTTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCCACTCACTTTCCGTTCGGAGTTTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTATTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCGCTGGCACTGCTTGGCTTTTCTCCGGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTGCTGACTGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCTCTCGGCGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCGGTGGTTGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATATCGCCATCGC
GGGATGGTTTGCCTTGCTGTGGGGCGATAAGGTAATTGATTGGTACTTCACCACTTGGGTAGGACAACCGTTATGA

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

54.044

93.471

0.505
  pilD Acinetobacter baumannii D1279779

53.676

93.471

0.502
  pilD Neisseria gonorrhoeae MS11

44.444

98.969

0.44

Multiple sequence alignment