Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   K6J79_RS05640 Genome accession   NZ_AP024555
Coordinates   1188186..1189061 (-) Length   291 a.a.
NCBI ID   WP_000418747.1    Uniprot ID   H9L4S3
Organism   Vibrio cholerae strain IDH-03506     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1183186..1194061
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6J79_RS05620 parC 1184135..1186420 (+) 2286 WP_000102502.1 DNA topoisomerase IV subunit A -
  K6J79_RS05625 yacG 1186469..1186648 (-) 180 WP_221275890.1 DNA gyrase inhibitor YacG -
  K6J79_RS05630 zapD 1186809..1187549 (-) 741 WP_000207198.1 cell division protein ZapD -
  K6J79_RS05635 coaE 1187581..1188189 (-) 609 WP_000011557.1 dephospho-CoA kinase -
  K6J79_RS05640 pilD 1188186..1189061 (-) 876 WP_000418747.1 A24 family peptidase Machinery gene
  K6J79_RS05645 pilC 1189119..1190345 (-) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  K6J79_RS05650 pilB 1190388..1192077 (-) 1690 Protein_1042 type IV-A pilus assembly ATPase PilB -
  K6J79_RS05655 pilA 1192077..1192538 (-) 462 WP_000649326.1 pilin Machinery gene
  K6J79_RS05660 nadC 1192783..1193673 (-) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


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

>NTDB_id=85937 K6J79_RS05640 WP_000418747.1 1188186..1189061(-) (pilD) [Vibrio cholerae strain IDH-03506]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=85937 K6J79_RS05640 WP_000418747.1 1188186..1189061(-) (pilD) [Vibrio cholerae strain IDH-03506]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACGCTGTTTGGCTTGATTGTCGGTAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGTCAAACGCCGATTCGCGTCATT
GATAATATCCCGCTACTGAGTTGGCTAGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGCTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCCACTCACTTTCCGTTCGGAGTTTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTGTTGATTGCGGCAACCTTCATCGACTTCGATACCCTGTTGTTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCACTGGCACTGCTTGGTTTTTCTCCTGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTGCTGACAGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCTCTCGGCGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCGGTGGTTGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
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
  AlphaFold DB H9L4S3

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

100

100

1
  pilD Vibrio campbellii strain DS40M4

75.347

98.969

0.746
  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