5VPL

CRYSTAL STRUCTURE OF DER F 1 COMPLEXED WITH FAB 4C1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.194
  • R-Value Work: 0.152

Literature

Macromolecules
Sequence Display for 5VPL

Classification: HYDROLASE / IMMUNE SYSTEM

Total Structure Weight: 77295.45

Macromolecule Entities
Molecule Chains Length Organism Details
Der f 1 variant A 223 Dermatophagoides farinae EC#: 3.4.22.65 IUBMB
Fragment: UNP RESIDUES 99-321
Gene Name(s): DERF1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
4C1 - LIGHT CHAIN C 213 Mus musculus Mutation: K3V, S9F, S14T, N30Y, F36L, P44L, V55I, D56T, R96Y, I106M
4C1 - HEAVY CHAIN D 255 Mus musculus

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

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, C 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.194
  • R-Value Work: 0.152
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 65.40 α = 90.00
b = 79.43 β = 105.20
c = 72.20 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2017-05-05
  • Released Date: 2017-05-24
  • Deposition author(s): Chruszcz, M., Vailes, L.D., Chapman, M.D., Pomes, A., Minor, W.
  • Previous versions:

Revision History

No revisions since initial release