Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LY388_RS07790 Genome accession   NZ_CP090387
Coordinates   480549..481424 (-) Length   291 a.a.
NCBI ID   WP_000418748.1    Uniprot ID   -
Organism   Vibrio cholerae strain GXFL1-4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 475549..486424
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LY388_RS07770 (LY388_07770) parC 476483..478768 (+) 2286 WP_032476645.1 DNA topoisomerase IV subunit A -
  LY388_RS07775 (LY388_07775) yacG 478817..479014 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  LY388_RS07780 (LY388_07780) zapD 479172..479912 (-) 741 WP_000207194.1 cell division protein ZapD -
  LY388_RS07785 (LY388_07785) coaE 479944..480552 (-) 609 WP_000011553.1 dephospho-CoA kinase -
  LY388_RS07790 (LY388_07790) pilD 480549..481424 (-) 876 WP_000418748.1 A24 family peptidase Machinery gene
  LY388_RS07795 (LY388_07795) pilC 481482..482708 (-) 1227 WP_148504744.1 type II secretion system F family protein Machinery gene
  LY388_RS07800 (LY388_07800) pilB 482761..484449 (-) 1689 WP_057563243.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LY388_RS07805 (LY388_07805) pilA 484451..484882 (-) 432 WP_057563244.1 pilin Machinery gene
  LY388_RS07810 (LY388_07810) nadC 485127..486017 (-) 891 WP_000665277.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32461.75 Da        Isoelectric Point: 7.1618

>NTDB_id=641917 LY388_RS07790 WP_000418748.1 480549..481424(-) (pilD) [Vibrio cholerae strain GXFL1-4]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMVFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=641917 LY388_RS07790 WP_000418748.1 480549..481424(-) (pilD) [Vibrio cholerae strain GXFL1-4]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACCCTGTTTGGCTTGATTGTCGGTAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACGCCGATTCGCGTCATT
GATAATATTCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGTTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCTACTCACTTTCCGTTCGGGGTGTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTGTTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCACTGGCACTGCTTGGTTTTTCTCCTGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGCTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTGCTGACAGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCACTCGGCGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTGCTGCTCTCATCGGTGGTCGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGTCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGATGGTTTGCCTTGCTGTGGGGCGATAAGGTGATTGATTGGTACTTCACCACTTGGGTAGGACAACCGCTATGA

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

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

99.656

100

0.997
  pilD Vibrio campbellii strain DS40M4

75

98.969

0.742
  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