Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   FY484_RS12065 Genome accession   NZ_LT906614
Coordinates   2600698..2601573 (+) Length   291 a.a.
NCBI ID   WP_000418747.1    Uniprot ID   H9L4S3
Organism   Vibrio cholerae O1 biovar El Tor str. N16961     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2595698..2606573
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FY484_RS12045 nadC 2596087..2596977 (+) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  FY484_RS12050 pilA 2597222..2597683 (+) 462 WP_000649326.1 pilin Machinery gene
  FY484_RS12055 pilB 2597683..2599371 (+) 1689 WP_000957200.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FY484_RS12060 pilC 2599414..2600640 (+) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  FY484_RS12065 pilD 2600698..2601573 (+) 876 WP_000418747.1 prepilin peptidase Machinery gene
  FY484_RS12070 coaE 2601570..2602178 (+) 609 WP_000011557.1 dephospho-CoA kinase -
  FY484_RS12075 zapD 2602210..2602950 (+) 741 WP_000207198.1 cell division protein ZapD -
  FY484_RS12080 yacG 2603092..2603289 (+) 198 WP_000162868.1 DNA gyrase inhibitor YacG -
  FY484_RS12085 parC 2603338..2605623 (-) 2286 WP_000102510.1 DNA topoisomerase IV subunit A -

Sequence

Protein


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

>NTDB_id=1148164 FY484_RS12065 WP_000418747.1 2600698..2601573(+) (pilD) [Vibrio cholerae O1 biovar El Tor str. N16961]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=1148164 FY484_RS12065 WP_000418747.1 2600698..2601573(+) (pilD) [Vibrio cholerae O1 biovar El Tor str. N16961]
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