Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KHO07_RS04250 Genome accession   NZ_HG995459
Coordinates   917471..918343 (-) Length   290 a.a.
NCBI ID   WP_212626539.1    Uniprot ID   -
Organism   Pseudomonas sp. PP3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 912471..923343
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KHO07_RS04220 - 912929..914149 (+) 1221 WP_212626536.1 benzoate/H(+) symporter BenE family transporter -
  KHO07_RS04225 - 914166..915434 (+) 1269 WP_212626537.1 OprD family porin -
  KHO07_RS04230 - 915443..915685 (-) 243 WP_150734763.1 DUF2790 domain-containing protein -
  KHO07_RS04235 - 915936..916625 (+) 690 WP_150734764.1 energy-coupling factor ABC transporter permease -
  KHO07_RS04240 yacG 916654..916854 (-) 201 WP_056855639.1 DNA gyrase inhibitor YacG -
  KHO07_RS04245 coaE 916851..917474 (-) 624 WP_212626538.1 dephospho-CoA kinase -
  KHO07_RS04250 pilD 917471..918343 (-) 873 WP_212626539.1 A24 family peptidase Machinery gene
  KHO07_RS04255 pilC 918345..919562 (-) 1218 WP_212626540.1 type II secretion system F family protein Machinery gene
  KHO07_RS04260 pilB 919565..921265 (-) 1701 WP_150734768.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KHO07_RS04265 pilA 921491..921910 (+) 420 WP_075948424.1 pilin Machinery gene

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32277.53 Da        Isoelectric Point: 8.2533

>NTDB_id=1112607 KHO07_RS04250 WP_212626539.1 917471..918343(-) (pilD) [Pseudomonas sp. PP3]
MPLNEILIQYPLAFVVIAGVIGLLVGSFLNVLVWRLPKMLEREWRVQAHEILGQPGESTLPTFNLFLPHSQCPHCSHRIR
PWENIPLLSFLFLRGRCSGCAAPISKRYPLVELACGLGSAFIAWHFGFGWQACMTLLLSWSLLAMSLIDAEHQLLPDVLV
LPLLWLGLIVNSLGLFVPLPDAVWGAVAGYMTLWSVFWLFKLLTGKDGMGHGDFKLLAMFGAWGGWQILPLTILLSSLVG
AVIGVIYLRLRNARTSTPIPFGPYLAIAGWIALLWGGQITDFYWQFVGLK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=1112607 KHO07_RS04250 WP_212626539.1 917471..918343(-) (pilD) [Pseudomonas sp. PP3]
ATGCCCTTGAACGAAATACTGATTCAATACCCGCTGGCGTTCGTTGTGATCGCCGGGGTGATCGGCCTGCTGGTCGGCAG
CTTCCTCAACGTGCTGGTCTGGCGCCTGCCGAAAATGCTGGAACGCGAATGGCGCGTGCAGGCCCACGAGATCCTCGGGC
AGCCCGGCGAATCAACGCTGCCGACCTTCAATCTGTTTCTACCCCACTCCCAATGCCCCCATTGCAGCCACCGGATACGC
CCGTGGGAAAATATTCCGCTGCTCAGTTTTCTGTTCCTGCGCGGCCGCTGTTCAGGCTGCGCAGCACCGATCAGCAAGCG
TTATCCGCTGGTCGAACTGGCCTGCGGCCTGGGGTCGGCTTTCATTGCCTGGCATTTCGGCTTCGGCTGGCAAGCGTGCA
TGACATTGCTCCTGAGCTGGAGCCTGTTGGCCATGAGCCTGATCGACGCCGAGCACCAACTGCTGCCGGACGTGCTGGTG
CTGCCCTTGTTGTGGCTGGGGCTGATCGTCAACAGTCTCGGTCTGTTCGTGCCGTTACCGGACGCGGTGTGGGGCGCCGT
GGCCGGCTACATGACGCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGCTCACCGGCAAGGACGGCATGGGCCATGGTGACT
TCAAGTTGCTGGCGATGTTTGGCGCGTGGGGCGGCTGGCAAATTCTGCCGCTGACGATCCTGTTGTCATCCTTGGTGGGC
GCGGTGATTGGCGTGATTTACCTGCGCTTGCGCAATGCCAGAACATCGACGCCGATCCCCTTCGGCCCCTATCTGGCAAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTTCTATTGGCAGTTTGTCGGTTTGAAATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)


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

54.737

98.276

0.538
  pilD Vibrio campbellii strain DS40M4

51.064

97.241

0.497
  pilD Neisseria gonorrhoeae MS11

48.519

93.103

0.452
  pilD Acinetobacter baumannii D1279779

47.122

95.862

0.452
  pilD Acinetobacter nosocomialis M2

47.122

95.862

0.452

Multiple sequence alignment