Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VF_RS11390 Genome accession   NC_006840
Coordinates   2459978..2460865 (+) Length   295 a.a.
NCBI ID   WP_011262625.1    Uniprot ID   Q5E2R3
Organism   Aliivibrio fischeri ES114     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2454978..2465865
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VF_RS11370 (VF2184) nadC 2455287..2456174 (+) 888 WP_005420889.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VF_RS11375 (VF2185) pilA 2456516..2456920 (+) 405 WP_011262622.1 pilin Machinery gene
  VF_RS11380 (VF2186) pilB 2456927..2458615 (+) 1689 WP_011262623.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VF_RS11385 (VF2187) pilC 2458635..2459873 (+) 1239 WP_011262624.1 type II secretion system F family protein Machinery gene
  VF_RS11390 (VF2188) pilD 2459978..2460865 (+) 888 WP_011262625.1 prepilin peptidase Machinery gene
  VF_RS11395 (VF2189) coaE 2460862..2461484 (+) 623 Protein_2204 dephospho-CoA kinase -
  VF_RS11400 (VF2190) zapD 2461490..2462236 (+) 747 WP_005420900.1 cell division protein ZapD -
  VF_RS11405 (VF2191) yacG 2462244..2462453 (+) 210 WP_011262627.1 DNA gyrase inhibitor YacG -
  VF_RS11410 (VF2192) mutT 2462523..2462924 (-) 402 WP_011262628.1 8-oxo-dGTP diphosphatase MutT -
  VF_RS11415 (VF2193) secA 2463016..2465739 (-) 2724 WP_011262629.1 preprotein translocase subunit SecA -

Sequence

Protein


Download         Length: 295 a.a.        Molecular weight: 33132.58 Da        Isoelectric Point: 7.7919

>NTDB_id=24265 VF_RS11390 WP_011262625.1 2459978..2460865(+) (pilD) [Aliivibrio fischeri ES114]
MAVFDYYPWLFPLFATLFGLLVGSFLNVVIYRLPIMMEKEWKKDCIDCFPDLAPKKTSEEKEETFNLSVPRSRCPKCQTQ
IKFYDNIPVISWLLLKGKCRQCSNPISFRYPAIELLSGAMCFAVSYLLPFSYFAVAAVLFTLVLIALTFIDIDTMLLPDQ
ITLPLLWSGLYLALVGWSSVSLVDSVVGAMAGYLILWSIYWGFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPLIILLSS
VVGAIIGVIMLTAQKKGFDKAIPFGPYLAIAGWVCLLWGQNISQWYFNHILGLPL

Nucleotide


Download         Length: 888 bp        

>NTDB_id=24265 VF_RS11390 WP_011262625.1 2459978..2460865(+) (pilD) [Aliivibrio fischeri ES114]
ATGGCTGTTTTTGATTATTACCCTTGGCTTTTCCCTCTATTTGCCACCCTATTTGGGTTGCTTGTTGGTAGTTTTTTAAA
TGTCGTAATTTATCGTTTACCCATCATGATGGAAAAGGAATGGAAAAAAGACTGCATTGATTGCTTTCCAGATCTTGCCC
CTAAAAAAACAAGTGAAGAAAAAGAAGAAACCTTTAACTTAAGTGTTCCTCGCTCTCGCTGCCCAAAGTGTCAAACTCAA
ATTAAATTCTATGACAACATTCCTGTCATTAGCTGGCTTTTATTAAAAGGAAAATGTCGTCAATGCAGTAACCCTATCAG
TTTTCGATATCCTGCAATTGAACTACTATCAGGCGCAATGTGTTTTGCCGTTTCATACTTATTACCCTTCTCATATTTTG
CTGTTGCTGCCGTTCTATTTACTCTAGTTTTGATCGCATTAACCTTTATCGATATTGATACCATGTTACTGCCAGATCAA
ATCACCCTACCTCTACTATGGAGTGGTCTATACTTAGCTCTAGTGGGTTGGAGTTCAGTGAGCTTAGTTGATTCTGTTGT
TGGTGCAATGGCTGGCTATTTGATTTTATGGTCTATTTACTGGGGCTTTAAGCTGCTTACAGGCAAAGAAGGCATGGGTT
ATGGTGATTTCAAATTACTGGCGGCTCTTGGAGCATGGCTTGGTTGGCAGCAGCTACCATTGATCATTCTATTATCTTCT
GTTGTCGGAGCAATCATTGGCGTCATCATGCTAACCGCTCAAAAGAAAGGGTTTGACAAAGCAATTCCCTTTGGTCCTTA
TTTAGCTATTGCTGGCTGGGTTTGCCTATTATGGGGACAAAACATTAGCCAATGGTATTTTAATCACATTCTAGGTTTGC
CACTATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(139-248)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-126)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q5E2R3

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 campbellii strain DS40M4

66.894

99.322

0.664
  pilD Vibrio cholerae strain A1552

64.407

100

0.644
  pilD Acinetobacter baumannii D1279779

50.725

93.559

0.475
  pilD Acinetobacter nosocomialis M2

50.181

93.898

0.471
  pilD Neisseria gonorrhoeae MS11

45.139

97.627

0.441

Multiple sequence alignment