3MQ1

Crystal Structure of Dust Mite Allergen Der p 5

Structural Biology Knowledgebase: 3MQ1 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.279
  • R-Value Work: 0.226

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3MQ1

Classification: ALLERGEN

Total Structure Weight: 76972.16

Macromolecule Entities
Molecule Chains Length Organism Details
Mite allergen Der p 5 A, B, C..., D, E, FA, B, C, D, E, F 103 Dermatophagoides pteronyssinus Fragment: UNP residues 34-132
Gene Name(s): DERP5

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MPD
Query on MPD

A, B, C, D (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MRD
Query on MRD

A, B, C, E, F (4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.279
  • R-Value Work: 0.226
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 46.78 α = 90.00
b = 96.57 β = 90.00
c = 167.89 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-04-27
  • Released Date: 2010-06-02
  • Deposition author(s): Mueller, G.A., Gosavi, R.A., Krahn, J.M., Edwards, L.L., Cuneo, M.J., Glesner, J., Pomes, A., Chapman, M.D., London, R.E., Pedersen, L.C.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4