3D4C

ZP-N domain of mammalian sperm receptor ZP3 (crystal form I)

Structural Biology Knowledgebase: 3D4C SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.190

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3D4C

Classification: CELL ADHESION

Total Structure Weight: 54078.77

Macromolecule Entities
Molecule Chains Length Organism Details
Maltose-binding periplasmic protein, LINKER, Zona pellucida protein 3 A 481 Escherichia coli Mus musculus Unidentified Fragment: ZP3 ZP-N domain, UNP residues 27-393, UNP residues 42-143
Mutation: I3T, E360A, K363A, D364A, R368N
Details: This protein is a chimera. Residues 2-368 are from E. COLI maltose binding protein (MBP), correspond to residues 27-393 of swiss-prot database entry P0AEX9 and contain mutations I3T, E360A, K363A, D364A, R368N (corresponding to I28T, E385A, K388A, D389A AND R393N in P0AEX9). Residues 372-473 are from mouse ZP3 protein and correspond to residues 42-143 of swiss-prot database entry P10761.
Gene Name(s): malE b4034 JW3994 Zp3 Zp-3 Zpc

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

A MALTOSE
C12 H22 O11
GUBGYTABKSRVRQ-ASMJPISFSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CD
Query on CD

A CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.190
  • Space Group: I 2 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 93.04 α = 90.00
b = 95.12 β = 90.00
c = 141.70 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-05-14
  • Released Date: 2008-12-02
  • Deposition author(s): Jovine, L., Monne, M.

Revision History

  • 2016-02-17
    Type: Other | Details: update tls records
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4