Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   WDM00_RS02525 Genome accession   NZ_CP147726
Coordinates   521523..522398 (-) Length   291 a.a.
NCBI ID   WP_000418747.1    Uniprot ID   H9L4S3
Organism   Vibrio cholerae strain CNCTC 6536     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 516523..527398
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WDM00_RS02505 (WDM00_02505) parC 517457..519742 (+) 2286 WP_000102510.1 DNA topoisomerase IV subunit A -
  WDM00_RS02510 (WDM00_02510) yacG 519791..519988 (-) 198 WP_367007825.1 DNA gyrase inhibitor YacG -
  WDM00_RS02515 (WDM00_02515) zapD 520146..520886 (-) 741 WP_000207194.1 cell division protein ZapD -
  WDM00_RS02520 (WDM00_02520) coaE 520918..521526 (-) 609 WP_337227815.1 dephospho-CoA kinase -
  WDM00_RS02525 (WDM00_02525) pilD 521523..522398 (-) 876 WP_000418747.1 A24 family peptidase Machinery gene
  WDM00_RS02530 (WDM00_02530) pilC 522456..523682 (-) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  WDM00_RS02535 (WDM00_02535) pilB 523725..525413 (-) 1689 WP_367007827.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WDM00_RS02540 (WDM00_02540) pilA 525420..525842 (-) 423 WP_148553901.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  WDM00_RS02545 (WDM00_02545) nadC 526087..526977 (-) 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=948224 WDM00_RS02525 WP_000418747.1 521523..522398(-) (pilD) [Vibrio cholerae strain CNCTC 6536]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=948224 WDM00_RS02525 WP_000418747.1 521523..522398(-) (pilD) [Vibrio cholerae strain CNCTC 6536]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACGCTGTTTGGCTTGATTGTCGGCAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACACCGATTCGCGTCATT
GATAATATCCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGCTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCTACTCACTTTCCGTTCGGGGTGTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTGTTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCGCTGGCACTGCTTGGCTTTTCTCCGGTTTCACTGAGTGATGCGGTGATCGGAGCCATGGC
GGGCTATCTCTCGCTGTGGTCGATTTATTGGCTGTTTAAACTACTGACTGGTAAAGAAGGCATGGGGTATGGTGATTTCA
AATTGCTCGCCGCACTCGGTGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCCGTAGTCGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGATGGTTTGCCTTGCTGTGGGGCGATAAGGTAATTGATTGGTACTTCACCACTTGGGTAGGACAACCGCTATGA

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