1JN4

The Crystal Structure of Ribonuclease A in complex with 2'-deoxyuridine 3'-pyrophosphate (P'-5') adenosine

Structural Biology Knowledgebase: 1JN4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.225

Literature

Macromolecules
Sequence Display for 1JN4

Classification: HYDROLASE

Total Structure Weight: 28054.19

Macromolecule Entities
Molecule Chains Length Organism Details
Pancreatic Ribonuclease A A, B 124 Bos taurus EC#: 3.1.27.5 IUBMB
Gene Name(s): RNASE1 Gene View RNS1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
139
Query on 139

A ADENOSINE-5'-[TRIHYDROGEN DIPHOSPHATE] P'- 3'-ESTER WITH 2'-DEOXYURIDINE
C19 H25 N7 O14 P2
NGHFJGUDQJTSRY-LNAOLWRRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
139 N/A in BindingDB
Ki: 11300 nM  BindingMOAD
Ki: 11300 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.225
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 99.82 α = 90.00
b = 32.29 β = 90.04
c = 72.06 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-07-23
  • Released Date: 2003-06-03
  • Deposition author(s): Jardine, A.M., Leonidas, D.D., Jenkins, J.L., Park, C., Raines, R.T., Acharya, K.R., Shapiro, R.

Revision History

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