Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   V060002_RS02670 Genome accession   NZ_AP018677
Coordinates   533226..534101 (-) Length   291 a.a.
NCBI ID   WP_000418747.1    Uniprot ID   H9L4S3
Organism   Vibrio cholerae strain V060002     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 528226..539101
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V060002_RS02650 (V060002_00513) parC 529176..531461 (+) 2286 WP_000102510.1 DNA topoisomerase IV subunit A -
  V060002_RS02655 (V060002_00514) yacG 531510..531707 (-) 198 WP_000162868.1 DNA gyrase inhibitor YacG -
  V060002_RS02660 (V060002_00515) zapD 531849..532589 (-) 741 WP_000207198.1 cell division protein ZapD -
  V060002_RS02665 (V060002_00516) coaE 532621..533229 (-) 609 WP_000011557.1 dephospho-CoA kinase -
  V060002_RS02670 (V060002_00517) pilD 533226..534101 (-) 876 WP_000418747.1 prepilin peptidase Machinery gene
  V060002_RS02675 (V060002_00518) pilC 534159..535385 (-) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  V060002_RS02680 (V060002_00519) pilB 535428..537116 (-) 1689 WP_000957200.1 type IV-A pilus assembly ATPase PilB Machinery gene
  V060002_RS02685 (V060002_00520) pilA 537116..537577 (-) 462 WP_000649326.1 pilin Machinery gene
  V060002_RS02690 (V060002_00521) nadC 537822..538712 (-) 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=70273 V060002_RS02670 WP_000418747.1 533226..534101(-) (pilD) [Vibrio cholerae strain V060002]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=70273 V060002_RS02670 WP_000418747.1 533226..534101(-) (pilD) [Vibrio cholerae strain V060002]
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