Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   IAE60_RS18380 Genome accession   NZ_CP060731
Coordinates   3916353..3917216 (+) Length   287 a.a.
NCBI ID   WP_187573334.1    Uniprot ID   -
Organism   Pseudoxanthomonas mexicana strain GTZY2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3911353..3922216
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IAE60_RS18370 (IAE60_18370) pilB 3913127..3914863 (+) 1737 WP_187573332.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IAE60_RS18375 (IAE60_18375) pilC 3915087..3916343 (+) 1257 WP_187573333.1 type II secretion system F family protein Machinery gene
  IAE60_RS18380 (IAE60_18380) pilD 3916353..3917216 (+) 864 WP_187573334.1 A24 family peptidase Machinery gene
  IAE60_RS18385 (IAE60_18385) coaE 3917250..3917867 (+) 618 WP_187573335.1 dephospho-CoA kinase -
  IAE60_RS18390 (IAE60_18390) - 3918014..3918439 (-) 426 WP_244966612.1 transposase -
  IAE60_RS18395 (IAE60_18395) - 3918818..3919768 (-) 951 WP_187573337.1 Nudix family hydrolase -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31877.78 Da        Isoelectric Point: 8.5960

>NTDB_id=478156 IAE60_RS18380 WP_187573334.1 3916353..3917216(+) (pilD) [Pseudoxanthomonas mexicana strain GTZY2]
MAFLDQHPELGYPVVAGLGLLVGSFLNVVILRLPRRLEWEWKRDAREVLEEPEIYDPPPPGIVVERSHCPHCKTPLSWYE
NIPLFSWLVLRGKCRHCKAPISPQYPLVELLTALLAMASVWRFGFGWQGFGAALFSCYLVALSGIDLRTRLLPDQLTLPL
MWLGLIGSLDNLYMPAKPALLGAIAGYVSLWLVWWLFKQVTGKEGMGRGDFKLLAAIGAWVGLNGVLPTLLLSSVVGAVI
GSVWLATQGRDRATPIPFGPYLAIAGWIVFFWGPQIIDAYLRFAGLK

Nucleotide


Download         Length: 864 bp        

>NTDB_id=478156 IAE60_RS18380 WP_187573334.1 3916353..3917216(+) (pilD) [Pseudoxanthomonas mexicana strain GTZY2]
ATGGCATTCCTGGATCAACACCCCGAACTGGGGTACCCGGTGGTGGCAGGCCTGGGCCTGCTGGTGGGCAGCTTCCTCAA
CGTGGTCATCCTGCGGCTGCCGCGACGGCTGGAGTGGGAGTGGAAGCGCGACGCGCGCGAGGTGCTGGAGGAGCCGGAGA
TCTACGATCCGCCGCCACCCGGCATCGTGGTGGAGCGCTCGCACTGCCCCCACTGCAAGACGCCGCTGTCGTGGTACGAG
AACATTCCGCTGTTCAGCTGGCTGGTGCTGCGCGGCAAGTGCCGTCACTGCAAGGCCCCCATCTCTCCGCAGTATCCACT
GGTCGAACTGCTGACCGCGCTGCTGGCGATGGCCTCGGTGTGGCGCTTCGGCTTCGGCTGGCAGGGGTTCGGTGCGGCCC
TCTTCAGCTGCTACCTGGTGGCGCTGAGCGGCATCGACCTGCGCACGCGACTGCTCCCCGACCAGCTGACGCTGCCGCTG
ATGTGGCTGGGCCTGATCGGCAGCCTGGACAACCTGTACATGCCGGCCAAGCCGGCGCTGCTGGGCGCGATCGCCGGCTA
TGTCTCGCTGTGGCTGGTGTGGTGGCTGTTCAAGCAGGTCACCGGCAAGGAAGGCATGGGCCGGGGCGATTTCAAGCTGC
TGGCGGCCATCGGCGCCTGGGTGGGGCTCAACGGCGTGCTGCCGACGCTGCTGTTGTCCTCGGTGGTTGGTGCGGTGATC
GGTTCGGTGTGGCTGGCCACGCAGGGCCGCGACCGCGCCACGCCGATTCCGTTCGGCCCGTACCTGGCCATCGCCGGCTG
GATCGTGTTCTTCTGGGGCCCGCAGATCATCGATGCCTACCTGCGTTTCGCCGGGCTGAAATAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)

Type IV leader peptidase family (Peptidase_A24)

(135-241)


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

51.636

95.819

0.495
  pilD Vibrio campbellii strain DS40M4

47.887

98.955

0.474
  pilD Acinetobacter nosocomialis M2

47.163

98.258

0.463
  pilD Acinetobacter baumannii D1279779

46.454

98.258

0.456
  pilD Neisseria gonorrhoeae MS11

44.649

94.425

0.422