4FYK

Crystal structure of rcl with 5'-phiosphorothioate-adenosine

Structural Biology Knowledgebase: 4FYK SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.194

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4FYK

Classification: HYDROLASE

Total Structure Weight: 70435.23

Macromolecule Entities
Molecule Chains Length Organism Details
Deoxyribonucleoside 5'-monophosphate N-glycosidase A, B, C, D 152 Rattus norvegicus EC#: 3.2.2 IUBMB
Fragment: UNP residues 11-151
Mutation: D69N
Gene Name(s): Dnph1 Rcl
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D ADENOSINE -5'-THIO-MONOPHOSPHATE
C10 H14 N5 O6 P S
UBCPYVAQZGCDJO-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, D SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.194
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 86.38 α = 90.00
b = 128.77 β = 90.00
c = 57.51 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-04
  • Released Date: 2013-01-02
  • Deposition author(s): Labesse, G., Padilla, A., Kaminski, P.A.

Revision History

  • 2013-02-20
    Type: Citation | Details: Citation update