Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HPY04_RS02380 Genome accession   NZ_CP053744
Coordinates   497909..498784 (-) Length   291 a.a.
NCBI ID   WP_175248719.1    Uniprot ID   -
Organism   Vibrio cholerae strain SA3G     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 492909..503784
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPY04_RS02360 (HPY04_02360) parC 493843..496128 (+) 2286 WP_000102513.1 DNA topoisomerase IV subunit A -
  HPY04_RS02365 (HPY04_02365) yacG 496177..496374 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  HPY04_RS02370 (HPY04_02370) zapD 496532..497272 (-) 741 WP_000207194.1 cell division protein ZapD -
  HPY04_RS02375 (HPY04_02375) coaE 497304..497912 (-) 609 WP_032479520.1 dephospho-CoA kinase -
  HPY04_RS02380 (HPY04_02380) pilD 497909..498784 (-) 876 WP_175248719.1 A24 family peptidase Machinery gene
  HPY04_RS02385 (HPY04_02385) pilC 498842..500068 (-) 1227 WP_175248720.1 type II secretion system F family protein Machinery gene
  HPY04_RS02390 (HPY04_02390) pilB 500111..501799 (-) 1689 WP_175248721.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPY04_RS02395 (HPY04_02395) pilA 501801..502232 (-) 432 WP_057563244.1 pilin Machinery gene
  HPY04_RS02400 (HPY04_02400) nadC 502477..503367 (-) 891 WP_000665277.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32465.74 Da        Isoelectric Point: 7.1618

>NTDB_id=446773 HPY04_RS02380 WP_175248719.1 497909..498784(-) (pilD) [Vibrio cholerae strain SA3G]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSSVSLSDAVIGAMVGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWIGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=446773 HPY04_RS02380 WP_175248719.1 497909..498784(-) (pilD) [Vibrio cholerae strain SA3G]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACGCTGTTTGGCTTGATTGTTGGCAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCAAAATCATGGAGCGTGAATGGCGTGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTGCCGCGTTCCACTTGCCCACACTGCCAAACGCCGATTCGCGTGATT
GATAATATCCCGCTACTGAGTTGGCTGGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGCTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTAATTGCCACTCACTTTCCGTTCGGAGTGTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTATTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCACTGGCACTGCTTGGTTTTTCTTCTGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGT
GGGTTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTGCTGACAGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCACTCGGCGCTTGGCTGGGTTGGCAGCAGTTGCCTGTCATCGTACTGCTCTCATCGGTGGTTGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATCGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGATGGTTTGCCTTGCTGTGGGGCGATAAGGTGATTGATTGGTACTTCACCACTTGGATAGGACAACCGTTATGA

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

98.969

100

0.99
  pilD Vibrio campbellii strain DS40M4

74.653

98.969

0.739
  pilD Acinetobacter nosocomialis M2

53.676

93.471

0.502
  pilD Acinetobacter baumannii D1279779

53.309

93.471

0.498
  pilD Neisseria gonorrhoeae MS11

44.251

98.625

0.436