1N3Z

Crystal structure of the [S-carboxyamidomethyl-Cys31, S-carboxyamidomethyl-Cys32] monomeric derivative of the bovine seminal ribonuclease in the liganded state

Structural Biology Knowledgebase: 1N3Z SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.230
  • R-Value Work: 0.186

Literature

Macromolecules
Sequence Display for 1N3Z

Classification: HYDROLASE

Total Structure Weight: 14338.23

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

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
U3P
Query on U3P

A 3'-URIDINEMONOPHOSPHATE
C9 H13 N2 O9 P
FOGRQMPFHUHIGU-XVFCMESISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ADN
Query on ADN

A ADENOSINE
C10 H13 N5 O4
OIRDTQYFTABQOQ-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
U3P Ki: 63200 nM (100) BindingDB

N/A in BindingMoad
Ki: 63200 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
YCM
Query on YCM
A L-PEPTIDE LINKING C5 H10 N2 O3 S CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.230
  • R-Value Work: 0.186
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 70.69 α = 90.00
b = 28.82 β = 119.20
c = 67.52 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-10-30
  • Released Date: 2003-08-26
  • Deposition author(s): Sica, F., Di Fiore, A., Zagari, A., Mazzarella, L.

Revision History

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