Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HPY06_RS02330 Genome accession   NZ_CP053804
Coordinates   487589..488464 (-) Length   291 a.a.
NCBI ID   WP_000418751.1    Uniprot ID   -
Organism   Vibrio cholerae strain SL6Y     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 482589..493464
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPY06_RS02310 (HPY06_02315) parC 483523..485808 (+) 2286 WP_000102510.1 DNA topoisomerase IV subunit A -
  HPY06_RS02315 (HPY06_02320) yacG 485857..486054 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  HPY06_RS02320 (HPY06_02325) zapD 486212..486952 (-) 741 WP_000207193.1 cell division protein ZapD -
  HPY06_RS02325 (HPY06_02330) coaE 486984..487592 (-) 609 WP_000011553.1 dephospho-CoA kinase -
  HPY06_RS02330 (HPY06_02335) pilD 487589..488464 (-) 876 WP_000418751.1 A24 family peptidase Machinery gene
  HPY06_RS02335 (HPY06_02340) pilC 488522..489748 (-) 1227 WP_000648510.1 type II secretion system F family protein Machinery gene
  HPY06_RS02340 (HPY06_02345) pilB 489791..491479 (-) 1689 WP_175229856.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPY06_RS02345 (HPY06_02350) - 491486..491890 (-) 405 WP_057551631.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  HPY06_RS02350 (HPY06_02355) nadC 492135..493025 (-) 891 WP_175229858.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32447.72 Da        Isoelectric Point: 7.1618

>NTDB_id=447548 HPY06_RS02330 WP_000418751.1 487589..488464(-) (pilD) [Vibrio cholerae strain SL6Y]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFTYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=447548 HPY06_RS02330 WP_000418751.1 487589..488464(-) (pilD) [Vibrio cholerae strain SL6Y]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACCCTGTTTGGCTTGATTGTCGGTAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACACCGATTCGCGTGATT
GATAATATCCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGCTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCTACTCACTTTCCGTTCGGGGTGTTTGCAGTGGCGCTGC
TGTTTTTCACCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTGTTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCACTGGCACTGCTTGGTTTTTCTCCGGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTACTGACAGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCACTCGGCGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCGGTGGTCGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGGTGGTTTGCCTTGCTGTGGGGCGATAAGGTAATTGATTGGTACTTCACCACTTGGGTAGGACAACCGTTATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)


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

75.694

98.969

0.749
  pilD Acinetobacter nosocomialis M2

54.044

93.471

0.505
  pilD Acinetobacter baumannii D1279779

53.676

93.471

0.502
  pilD Neisseria gonorrhoeae MS11

45.139

98.969

0.447