Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPY00_RS08690 Genome accession   NZ_CP046747
Coordinates   1850219..1851094 (-) Length   291 a.a.
NCBI ID   WP_019829617.1    Uniprot ID   -
Organism   Vibrio cholerae strain 3541-04     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1845219..1856094
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY00_RS08670 parC 1846153..1848438 (+) 2286 WP_019829619.1 DNA topoisomerase IV subunit A -
  GPY00_RS08675 yacG 1848487..1848684 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  GPY00_RS08680 zapD 1848842..1849582 (-) 741 WP_019829618.1 cell division protein ZapD -
  GPY00_RS08685 coaE 1849614..1850222 (-) 609 WP_000011550.1 dephospho-CoA kinase -
  GPY00_RS08690 pilD 1850219..1851094 (-) 876 WP_019829617.1 A24 family peptidase Machinery gene
  GPY00_RS08695 pilC 1851152..1852378 (-) 1227 WP_019829616.1 type II secretion system F family protein Machinery gene
  GPY00_RS08700 pilB 1852431..1854119 (-) 1689 WP_019829615.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY00_RS08705 - 1854126..1854536 (-) 411 WP_019829614.1 pilin -
  GPY00_RS08710 nadC 1854782..1855672 (-) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32465.75 Da        Isoelectric Point: 7.1618

>NTDB_id=407065 GPY00_RS08690 WP_019829617.1 1850219..1851094(-) (pilD) [Vibrio cholerae strain 3541-04]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISVRYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIAMALLGFSPVSLSDAVIGAMAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=407065 GPY00_RS08690 WP_019829617.1 1850219..1851094(-) (pilD) [Vibrio cholerae strain 3541-04]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACGCTGTTTGGCTTGATTGTCGGCAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCTAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACGCCGATTCGCGTGATT
GATAATATCCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGTTCGCTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCCACTCACTTTCCGTTCGGAGTGTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTGTTGATTGCGGCAACCTTCATCGACTTCGATACCCTGTTGTTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCAATGGCACTGCTTGGTTTTTCTCCGGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGGTTTACTGGCTATTTAAACTGCTGACCGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCTCTCGGCGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCGGTGGTTGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGATGGTTTGCCTTGCTGTGGGGCGATAAGGTAATTGATTGGTACTTCACCACTTGGGTAGGACAACCGTTATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)


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

98.969

100

0.99
  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

44.792

98.969

0.443

Multiple sequence alignment