2YPT

Crystal structure of the human nuclear membrane zinc metalloprotease ZMPSTE24 mutant (E336A) in complex with a synthetic CSIM tetrapeptide from the C-terminus of prelamin A

Structural Biology Knowledgebase: 2YPT SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.8 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.262

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2YPT

Classification: HYDROLASE / PEPTIDE

Total Structure Weight: 224668.26

Macromolecule Entities
Molecule Chains Length Organism Details
CAAX PRENYL PROTEASE 1 HOMOLOG A, B, D, E 482 Homo sapiens EC#: 3.4.24.84 IUBMB
Mutation: T137A, E336A
Gene Name(s): ZMPSTE24 Gene View FACE1 STE24
PRELAMIN-A/C F, G, H, I 4 Homo sapiens Fragment: C-TERMINAL TETRAPEPTIDE, RESIDUES 661-664
Gene Name(s): LMNA Gene View LMN1

Membrane Protein

Source: inferred by homology | Group: ALPHA-HELICAL

Subgroup Name: Intramembrane Proteases

Protein Name: CAAX protease ZMPSTE24


Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ZN
Query on ZN

A, B, D, E ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.8 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.262
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 61.32 α = 76.26
b = 95.54 β = 79.67
c = 132.03 γ = 72.30

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-11-01
  • Released Date: 2012-12-05
  • Deposition author(s): Pike, A.C.W., Dong, Y.Y., Quigley, A., Dong, L., Savitsky, P., Cooper, C.D.O., Chaikuad, A., Goubin, S., Shrestha, L., Li, Q., Mukhopadhyay, S., Yang, J., Xia, X., Shintre, C.A., Barr, A.J., Berridge, G., Chalk, R., Bray, J.E., Von Delft, F., Bullock, A., Bountra, C., Arrowsmith, C.H., Edwards, A., Burgess-Brown, N., Carpenter, E.P.

Revision History

  • 2013-05-15
    Type: Citation | Details: JRNL