Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PE064_RS10725 Genome accession   NZ_CP116007
Coordinates   2301372..2302235 (-) Length   287 a.a.
NCBI ID   WP_187573334.1    Uniprot ID   -
Organism   Pseudoxanthomonas mexicana strain DMF-5     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2296372..2307235
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PE064_RS10710 (PE064_10710) - 2298038..2298988 (+) 951 WP_271249191.1 Nudix family hydrolase -
  PE064_RS10715 (PE064_10715) - 2299507..2299932 (+) 426 WP_271249192.1 transposase -
  PE064_RS10720 (PE064_10720) coaE 2300721..2301338 (-) 618 WP_271249193.1 dephospho-CoA kinase -
  PE064_RS10725 (PE064_10725) pilD 2301372..2302235 (-) 864 WP_187573334.1 A24 family peptidase Machinery gene
  PE064_RS10730 (PE064_10730) pilC 2302245..2303501 (-) 1257 WP_271249194.1 type II secretion system F family protein Machinery gene
  PE064_RS10735 (PE064_10735) pilB 2303725..2305467 (-) 1743 WP_271249195.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PE064_RS10740 (PE064_10740) - 2305618..2306544 (-) 927 WP_271249196.1 hypothetical protein -
  PE064_RS10745 (PE064_10745) - 2306514..2307122 (-) 609 WP_271249197.1 class I SAM-dependent methyltransferase -

Sequence

Protein


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

>NTDB_id=774878 PE064_RS10725 WP_187573334.1 2301372..2302235(-) (pilD) [Pseudoxanthomonas mexicana strain DMF-5]
MAFLDQHPELGYPVVAGLGLLVGSFLNVVILRLPRRLEWEWKRDAREVLEEPEIYDPPPPGIVVERSHCPHCKTPLSWYE
NIPLFSWLVLRGKCRHCKAPISPQYPLVELLTALLAMASVWRFGFGWQGFGAALFSCYLVALSGIDLRTRLLPDQLTLPL
MWLGLIGSLDNLYMPAKPALLGAIAGYVSLWLVWWLFKQVTGKEGMGRGDFKLLAAIGAWVGLNGVLPTLLLSSVVGAVI
GSVWLATQGRDRATPIPFGPYLAIAGWIVFFWGPQIIDAYLRFAGLK

Nucleotide


Download         Length: 864 bp        

>NTDB_id=774878 PE064_RS10725 WP_187573334.1 2301372..2302235(-) (pilD) [Pseudoxanthomonas mexicana strain DMF-5]
ATGGCATTCCTGGATCAACACCCCGAGCTGGGGTACCCGGTGGTGGCAGGCCTGGGCCTGCTGGTGGGCAGCTTCCTCAA
CGTGGTCATCCTGCGGCTGCCGCGGCGGCTGGAGTGGGAGTGGAAGCGCGACGCGCGCGAGGTGCTGGAGGAGCCGGAGA
TCTACGATCCCCCGCCGCCCGGCATCGTGGTGGAGCGCTCGCACTGCCCCCACTGCAAGACGCCGCTGTCGTGGTACGAG
AACATCCCGCTGTTCAGCTGGCTGGTGCTGCGCGGCAAGTGCCGCCACTGCAAGGCCCCCATCTCGCCGCAGTATCCGCT
GGTCGAACTGCTGACCGCGCTGCTGGCAATGGCCTCGGTCTGGCGCTTCGGCTTCGGCTGGCAGGGGTTCGGTGCGGCCC
TCTTCAGCTGCTACCTGGTGGCGCTGAGCGGCATCGACCTGCGCACGCGCCTGCTGCCCGACCAGCTGACGCTGCCGCTG
ATGTGGCTGGGCCTGATCGGCAGCCTGGACAACTTGTACATGCCGGCCAAGCCGGCGCTGCTGGGCGCGATCGCCGGCTA
TGTCTCACTGTGGCTGGTGTGGTGGCTGTTCAAGCAGGTCACCGGCAAGGAAGGCATGGGCCGGGGCGATTTCAAGCTGC
TGGCGGCCATCGGCGCCTGGGTGGGGCTCAACGGCGTGCTGCCGACGCTGCTGCTGTCCTCGGTGGTCGGTGCGGTGATC
GGTTCGGTGTGGCTGGCCACGCAGGGCCGCGACCGTGCCACGCCGATTCCGTTCGGCCCGTACCTGGCCATCGCCGGCTG
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