Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   QR290_RS25110 Genome accession   NZ_CP128260
Coordinates   5599298..5600170 (+) Length   290 a.a.
NCBI ID   WP_289203825.1    Uniprot ID   -
Organism   Pseudomonas fluorescens strain PH.SM     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5594298..5605170
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QR290_RS25085 (QR290_25085) - 5594609..5594905 (+) 297 WP_289203822.1 DUF2845 domain-containing protein -
  QR290_RS25090 (QR290_25090) - 5595073..5595429 (-) 357 WP_115079239.1 BON domain-containing protein -
  QR290_RS25095 (QR290_25095) pilA/pilAI 5595727..5596149 (-) 423 WP_115079240.1 pilin Machinery gene
  QR290_RS25100 (QR290_25100) pilB 5596376..5598076 (+) 1701 WP_289203823.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QR290_RS25105 (QR290_25105) pilC 5598079..5599296 (+) 1218 WP_289203824.1 type II secretion system F family protein Machinery gene
  QR290_RS25110 (QR290_25110) pilD 5599298..5600170 (+) 873 WP_289203825.1 A24 family peptidase Machinery gene
  QR290_RS25115 (QR290_25115) coaE 5600167..5600790 (+) 624 WP_289203826.1 dephospho-CoA kinase -
  QR290_RS25120 (QR290_25120) yacG 5600787..5600987 (+) 201 WP_011335983.1 DNA gyrase inhibitor YacG -
  QR290_RS25125 (QR290_25125) - 5600994..5601209 (-) 216 WP_007959584.1 hypothetical protein -
  QR290_RS25130 (QR290_25130) - 5601275..5601964 (-) 690 WP_289203827.1 energy-coupling factor ABC transporter permease -
  QR290_RS25135 (QR290_25135) - 5602098..5602724 (+) 627 WP_007959580.1 DUF1780 domain-containing protein -
  QR290_RS25140 (QR290_25140) - 5602721..5603248 (+) 528 WP_289203828.1 MOSC domain-containing protein -
  QR290_RS25145 (QR290_25145) - 5603300..5603473 (+) 174 WP_007909875.1 DUF3094 domain-containing protein -
  QR290_RS25150 (QR290_25150) - 5603540..5604838 (+) 1299 WP_115079248.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32320.64 Da        Isoelectric Point: 7.4006

>NTDB_id=846926 QR290_RS25110 WP_289203825.1 5599298..5600170(+) (pilD) [Pseudomonas fluorescens strain PH.SM]
MPIDELFSVFPLAFDFTALLLGLVVGSFLNVLIWRLPKMLEREWRQQAHDVLGLPGEAPLPTYNLMLPHSQCPHCGHRIR
VWENIPVLSYVFLRGRCSSCSAPISKRYPLTELACGLLSAFIAWHLGFGWPACLLIVLTWGLLAMSLIDIEHQLLPDVLV
LPLLWLGLIVNSFELFVSLHDALWGAVLGYMALWSVFWLFKLITGKDGIGHGDFKLLALLGAWGGWQILPLTILLSSLVG
AVLGVILLKLRDQKTSTPIPFGPYLAIAGWIALLWGGQITGFYWQFVGLK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=846926 QR290_RS25110 WP_289203825.1 5599298..5600170(+) (pilD) [Pseudomonas fluorescens strain PH.SM]
ATGCCTATCGACGAACTCTTCAGTGTCTTTCCGCTGGCCTTTGACTTCACTGCCCTGCTGTTGGGGCTGGTGGTCGGCAG
TTTCCTCAACGTGTTGATCTGGCGCCTGCCGAAAATGCTCGAGCGCGAATGGCGCCAACAGGCTCACGATGTTTTGGGGC
TGCCCGGTGAAGCGCCGTTGCCCACTTACAACCTGATGCTGCCGCACTCGCAATGCCCGCACTGTGGCCACCGGATCCGC
GTGTGGGAAAACATTCCCGTGTTGAGTTACGTGTTCCTGCGCGGGCGCTGCTCAAGTTGCAGCGCACCGATCAGCAAGCG
TTACCCGCTGACCGAACTGGCCTGCGGCCTGCTCTCGGCGTTCATCGCCTGGCACTTGGGTTTCGGCTGGCCGGCGTGCC
TGCTGATCGTGCTGACCTGGGGCCTGTTGGCCATGAGCCTGATCGACATCGAGCATCAATTGCTGCCCGATGTGCTGGTG
CTGCCGCTGTTGTGGCTGGGGTTGATCGTCAACAGCTTCGAGCTGTTCGTATCGCTGCACGACGCACTGTGGGGCGCAGT
GCTGGGCTACATGGCGCTGTGGTCGGTGTTCTGGCTGTTCAAACTGATCACCGGCAAGGACGGCATCGGCCACGGCGATT
TCAAGTTGCTGGCGCTGCTCGGGGCCTGGGGCGGCTGGCAGATTCTGCCGCTGACCATCCTGTTGTCCTCGCTGGTGGGC
GCTGTGCTCGGGGTGATTCTGCTCAAGCTGCGCGACCAGAAAACCTCGACGCCGATCCCCTTCGGCCCATATCTGGCAAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGGCTTCTATTGGCAGTTTGTCGGTTTGAAATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)

Type IV leader peptidase family (Peptidase_A24)

(136-245)


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

52.482

97.241

0.51
  pilD Vibrio campbellii strain DS40M4

51.064

97.241

0.497
  pilD Acinetobacter baumannii D1279779

49.438

92.069

0.455
  pilD Acinetobacter nosocomialis M2

48.689

92.069

0.448
  pilD Neisseria gonorrhoeae MS11

45.926

93.103

0.428