1QD0

CAMELID HEAVY CHAIN VARIABLE DOMAINS PROVIDE EFFICIENT COMBINING SITES TO HAPTENS

Structural Biology Knowledgebase: 1QD0 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.210

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1QD0

Classification: IMMUNE SYSTEM

Total Structure Weight: 15170.78

Macromolecule Entities
Molecule Chains Length Organism Details
VHH-R2 ANTI-RR6 ANTIBODY A 128 Lama glama Fragment: VARIABLE DOMAIN OF A HEAVY CHAIN ANTIBODY
Mutation: T29A, P91G, D107A
Gene Name(s): r2

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
RR6
Query on RR6

A 3-HYDROXY-7-(4-{1-[2-HYDROXY-3-(2-HYDROXY- 5-SULFO-PHENYLAZO)-BENZYL]-2-SULFO-ETHYLAMINO}- [1,2,5]TRIAZIN-2-YLAMINO)-2-(2-HYDROXY-5- SULFO-PHENYLAZO)-NAPTHALENE-1,8-DISULFONIC ACID
AZO-DYE RR6 HAPTEN (Synonym)
C35 H25 N9 O22 S6
PJONDRDKCIFXDA-CHQNLTHESA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CU
Query on CU

A COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.210
  • Space Group: P 32 2 1

Unit Cell:

Length (Å) Angle (°)
a = 46.70 α = 90.00
b = 46.70 β = 90.00
c = 121.10 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-07-08
  • Released Date: 2000-07-19
  • Deposition author(s): Spinelli, S., Frenken, L.G.J., Hermans, P., Verrips, T., Brown, K., Tegoni, M., Cambillau, C.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4