Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VFU_RS04265 Genome accession   NC_016602
Coordinates   887542..888411 (-) Length   289 a.a.
NCBI ID   WP_014204458.1    Uniprot ID   A0A0Q2XW48
Organism   Vibrio furnissii NCTC 11218     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 882542..893411
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VFU_RS04245 (vfu_A00865) parC 883529..885802 (+) 2274 WP_014204456.1 DNA topoisomerase IV subunit A -
  VFU_RS04250 (vfu_A00866) yacG 885903..886100 (-) 198 WP_004729092.1 DNA gyrase inhibitor YacG -
  VFU_RS04255 (vfu_A00867) zapD 886158..886898 (-) 741 WP_004729090.1 cell division protein ZapD -
  VFU_RS04260 (vfu_A00868) coaE 886931..887539 (-) 609 WP_014204457.1 dephospho-CoA kinase -
  VFU_RS04265 (vfu_A00869) pilD 887542..888411 (-) 870 WP_014204458.1 prepilin peptidase Machinery gene
  VFU_RS04270 (vfu_A00870) pilC 888463..889689 (-) 1227 WP_014204459.1 type II secretion system F family protein Machinery gene
  VFU_RS04275 (vfu_A00871) pilB 889768..891456 (-) 1689 WP_014204460.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VFU_RS04280 (vfu_A00872) - 891463..891912 (-) 450 WP_014204461.1 pilin -
  VFU_RS04285 (vfu_A00873) nadC 892159..893046 (-) 888 WP_014204462.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32195.27 Da        Isoelectric Point: 6.8269

>NTDB_id=42935 VFU_RS04265 WP_014204458.1 887542..888411(-) (pilD) [Vibrio furnissii NCTC 11218]
MDIFTFYPWLFPTLATLLGLIIGSFLNVVIYRLPKIMEREWRQDCAESFPEYHIEPPQGVLTLSTPRSTCPHCDTPIRII
DNIPVLSWLLLRGKCSQCHAPISARYPLIESFTALCSLAIALQFGFSWFAVALLFFSYVLIAATFIDFDTMLLPDQLTLP
LMWGGIALALAGISPITLQDAVIGAMAGYLALWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSVVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSALYGQAIVGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=42935 VFU_RS04265 WP_014204458.1 887542..888411(-) (pilD) [Vibrio furnissii NCTC 11218]
ATGGACATTTTTACTTTCTATCCCTGGCTGTTTCCCACGCTGGCCACCTTGCTGGGTCTGATCATCGGCAGTTTTCTCAA
TGTGGTGATCTATCGCTTGCCGAAAATCATGGAGCGCGAGTGGCGTCAAGACTGTGCCGAGTCCTTTCCGGAATACCACA
TTGAACCGCCCCAAGGTGTGTTAACGCTCAGCACGCCCCGTTCCACCTGCCCACATTGTGATACACCGATTCGTATCATC
GACAATATTCCGGTACTGAGCTGGCTGCTACTGCGCGGCAAGTGCTCGCAGTGCCACGCGCCCATCAGCGCTCGCTACCC
ATTGATCGAATCGTTTACGGCGCTGTGCAGTTTGGCGATTGCTTTGCAGTTTGGTTTTAGCTGGTTTGCGGTGGCTTTGC
TGTTTTTCAGTTATGTGCTGATTGCGGCAACCTTCATCGACTTCGACACCATGCTGCTGCCTGACCAACTGACGCTGCCA
TTGATGTGGGGCGGTATCGCACTCGCGCTAGCGGGCATCAGTCCAATCACGTTGCAAGATGCCGTGATCGGCGCGATGGC
GGGGTATCTGGCGCTGTGGTCCGTCTACTGGCTGTTTAAACTGCTCACCGGCAAGGAAGGCATGGGGTACGGAGACTTTA
AGTTGTTGGCCGCACTGGGCGCTTGGCTCGGATGGCAGCAGCTGCCGATCATCATTTTGATGTCTTCAGTGGTTGGCCTC
GTGTTTGGTCTGATTCAACTGCGCCTGCAAAAACGCGGCATAGATAAAGCCTTCCCGTTTGGCCCTTATCTGGCGATTGC
GGGCTGGCTGTCAGCGCTATACGGTCAGGCGATCGTTGGTTGGTATTTTCACTCCGTATTAGGATTTTGA

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
  AlphaFold DB A0A0Q2XW48

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

79.167

99.654

0.789
  pilD Vibrio campbellii strain DS40M4

77.431

99.654

0.772
  pilD Acinetobacter nosocomialis M2

52.574

94.118

0.495
  pilD Acinetobacter baumannii D1279779

51.812

95.502

0.495
  pilD Neisseria gonorrhoeae MS11

47.955

93.08

0.446

Multiple sequence alignment