Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RI644_RS05005 Genome accession   NZ_CP134058
Coordinates   28051..28926 (+) Length   291 a.a.
NCBI ID   WP_000418747.1    Uniprot ID   H9L4S3
Organism   Vibrio cholerae strain VIC11-A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 23051..33926
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RI644_RS04985 (RI644_04985) nadC 23440..24330 (+) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  RI644_RS04990 (RI644_04990) pilA 24575..25036 (+) 462 WP_000649326.1 pilin Machinery gene
  RI644_RS04995 (RI644_04995) pilB 25036..26724 (+) 1689 WP_000957200.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RI644_RS05000 (RI644_05000) pilC 26767..27993 (+) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  RI644_RS05005 (RI644_05005) pilD 28051..28926 (+) 876 WP_000418747.1 A24 family peptidase Machinery gene
  RI644_RS05010 (RI644_05010) coaE 28923..29531 (+) 609 WP_000011557.1 dephospho-CoA kinase -
  RI644_RS05015 (RI644_05015) zapD 29563..30303 (+) 741 WP_080876404.1 cell division protein ZapD -
  RI644_RS05020 (RI644_05020) yacG 30445..30642 (+) 198 WP_000162868.1 DNA gyrase inhibitor YacG -
  RI644_RS05025 (RI644_05025) parC 30691..32976 (-) 2286 WP_000102502.1 DNA topoisomerase IV subunit A -

Sequence

Protein


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

>NTDB_id=878462 RI644_RS05005 WP_000418747.1 28051..28926(+) (pilD) [Vibrio cholerae strain VIC11-A]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=878462 RI644_RS05005 WP_000418747.1 28051..28926(+) (pilD) [Vibrio cholerae strain VIC11-A]
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