Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VFH86_RS02305 Genome accession   NZ_CP142014
Coordinates   481457..482332 (-) Length   291 a.a.
NCBI ID   WP_114762862.1    Uniprot ID   A0A6A9VED4
Organism   Vibrio cholerae strain LK-18     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 476457..487332
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VFH86_RS02285 (VFH86_02285) parC 477391..479676 (+) 2286 WP_345658279.1 DNA topoisomerase IV subunit A -
  VFH86_RS02290 (VFH86_02290) yacG 479725..479922 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  VFH86_RS02295 (VFH86_02295) zapD 480080..480820 (-) 741 WP_000207194.1 cell division protein ZapD -
  VFH86_RS02300 (VFH86_02300) coaE 480852..481460 (-) 609 WP_033928827.1 dephospho-CoA kinase -
  VFH86_RS02305 (VFH86_02305) pilD 481457..482332 (-) 876 WP_114762862.1 A24 family peptidase Machinery gene
  VFH86_RS02310 (VFH86_02310) pilC 482390..483616 (-) 1227 WP_000648510.1 type II secretion system F family protein Machinery gene
  VFH86_RS02315 (VFH86_02315) pilB 483659..485347 (-) 1689 WP_148524149.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VFH86_RS02320 (VFH86_02320) pilA 485356..485829 (-) 474 WP_331305089.1 pilin Machinery gene
  VFH86_RS02325 (VFH86_02325) nadC 486074..486964 (-) 891 WP_000665275.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


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

>NTDB_id=920926 VFH86_RS02305 WP_114762862.1 481457..482332(-) (pilD) [Vibrio cholerae strain LK-18]
MELFYFYPWLFPVLATLFGLIVGSFLNVVIYRLPKIMEREWRAECAASFPEYGITPPEGKLTLSLPRSTCPHCQTPIRVI
DNIPLLSWLALRGQCSHCKAPISARYPLIELLTALMSLVIATHFPFGVFAVALLFFSYVLIAATFIDFDTLLLPDQLTLP
LLWGGIALALLGFSPVSLSDAVIGAMAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIVLLSSVVGV
IFGLIQLRQQKKGIDMAFPFGPYLAIAGWFALLWGDKVIDWYFTTWVGQPL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=920926 VFH86_RS02305 WP_114762862.1 481457..482332(-) (pilD) [Vibrio cholerae strain LK-18]
ATGGAACTGTTTTACTTCTACCCTTGGCTGTTTCCGGTGCTCGCCACCCTGTTTGGCTTGATTGTCGGTAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCAAAATCATGGAGCGTGAATGGCGCGCGGAATGTGCGGCGAGTTTTCCTGAATATGGCA
TCACGCCACCAGAGGGTAAACTGACCCTCAGTTTACCGCGTTCCACTTGCCCACACTGCCAAACGCCGATTCGCGTCATT
GATAATATCCCGCTACTGAGTTGGCTAGCGCTGCGCGGTCAATGCTCACACTGTAAAGCGCCGATCAGCGCTCGTTATCC
CTTGATTGAGCTACTCACTGCCCTCATGAGCTTAGTGATTGCTACTCACTTTCCGTTCGGGGTGTTTGCCGTGGCGCTGC
TGTTTTTCAGCTATGTATTGATTGCGGCGACCTTCATCGACTTCGATACCCTGTTGCTGCCCGACCAATTAACGCTACCT
TTACTGTGGGGCGGTATTGCACTGGCACTGCTTGGTTTTTCTCCGGTTTCACTCAGTGATGCGGTGATCGGAGCCATGGC
GGGTTATCTCTCGCTGTGGTCGATTTACTGGCTATTTAAACTGCTGACAGGTAAAGAAGGCATGGGTTATGGCGATTTCA
AATTGCTCGCCGCTCTCGGCGCTTGGCTGGGTTGGCAGCAGTTACCTATCATCGTACTGCTCTCATCGGTGGTCGGGGTG
ATTTTCGGTTTAATCCAACTGCGCCAGCAGAAAAAAGGTATTGATATGGCCTTTCCGTTTGGCCCTTATCTCGCCATCGC
GGGGTGGTTTGCCTTGCTGTGGGGCGATAAGGTAATTGATTGGTACTTCACCACTTGGGTAGGACAACCATTATGA

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 A0A6A9VED4

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

75.347

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

44.444

98.969

0.44