1K27

Crystal Structure of 5'-Deoxy-5'-Methylthioadenosine Phosphorylase in Complex with a Transition State Analogue


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.207
  • R-Value Work: 0.180

Literature

Macromolecules
Sequence Display for 1K27

Classification: TRANSFERASE

Total Structure Weight: 31669.60

Macromolecule Entities
Molecule Chains Length Organism Details
5'-Deoxy-5'-Methylthioadenosine Phosphorylase A 283 Homo sapiens EC#: 2.4.2.28 IUBMB
Mutation: I56V
Gene Name(s): MTAP Gene View MSAP
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A (3S,4R)-2-(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN- 7-YL)-5-[(METHYLSULFANYL)METHYL]PYRROLIDINE- 3,4-DIOL
4, (Synonym)
C12 H19 N5 O2 S
YLCQGEBEQIBOOJ-BOFBLULFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
MTM N/A in BindingDB
Ki: 1 nM  BindingMOAD
Ki: 1.0 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.207
  • R-Value Work: 0.180
  • Space Group: P 3 2 1

Unit Cell:

Length (Å) Angle (°)
a = 122.23 α = 90.00
b = 122.23 β = 90.00
c = 44.74 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-09-26
  • Released Date: 2003-09-30
  • Deposition author(s): Shi, W., Singh, V., Tyler, P.C., Furneaux, R.H., Almo, S.C., Schramm, V.L.

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