3NK3

Crystal structure of full-length sperm receptor ZP3 at 2.6 A resolution

Structural Biology Knowledgebase: 3NK3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.219

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3NK3

Classification: CELL ADHESION

Total Structure Weight: 72179.27

Macromolecule Entities
Molecule Chains Length Organism Details
Zona pellucida 3 A, B 297 Gallus gallus Fragment: unp residues 21-347
Mutation: ΔP23, ΔW24, ΔD25, ΔI26, ΔS27, ΔW28, ΔA29, ΔA30, ΔR31, ΔG32, ΔD33, ΔP34, ΔS35, ΔA36, ΔW37, ΔS38, ΔW39, ΔG40, ΔA41, ΔE42, ΔA43, ΔH44, ΔS45, ΔR46, ΔA47, ΔV48, ΔA49, ΔG50, ΔS51, ΔH52, N159Q
Gene Name(s): ZP3 Gene View ZPC
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Zona pellucida 3 C, D 30 Gallus gallus Fragment: unp residues 359-382
Mutation: R359A, R361A, R362A
Gene Name(s): ZP3 Gene View ZPC

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
A2G
Query on A2G

A N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
C8 H15 N O6
OVRNDRQMDRJTHS-CBQIKETKSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FLC
Query on FLC

C CITRATE ANION
C6 H5 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

A BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.219
  • Space Group: P 41 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 98.39 α = 90.00
b = 98.39 β = 90.00
c = 257.37 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-06-18
  • Released Date: 2010-11-10
  • Deposition author(s): Monne', M., Jovine, L.

Revision History

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