1DY5

DEAMIDATED DERIVATIVE OF BOVINE PANCREATIC RIBONUCLEASE

Structural Biology Knowledgebase: 1DY5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.87 Å
  • R-Value Observed: 0.101

Literature

Macromolecules
Sequence Display for 1DY5

Classification: HYDROLASE

Total Structure Weight: 28423.89

Macromolecule Entities
Molecule Chains Length Organism Details
RIBONUCLEASE A A, B 124 Bos taurus EC#: 3.1.27.5 IUBMB
Mutation: N67X
Details: ASN 67 REPLACED BY A BETA-ASPARTYL RESIDUE
Gene Name(s): RNASE1 Gene View RNS1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

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

A, B ISOPROPYL ALCOHOL
2-PROPANOL (Synonym)
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A, B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
IAS
Query on IAS
A, B L-beta-peptide, C-gamma linking C4 H7 N O4 --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.87 Å
  • R-Value Observed: 0.101
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 61.31 α = 90.00
b = 37.47 β = 94.55
c = 44.92 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-01-27
  • Released Date: 2000-03-28
  • Deposition author(s): Esposito, L., Vitagliano, L., Sica, F., Zagari, A., Mazzarella, L.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4
  • 2011-07-13
    Type: Linkage | Details: Linkage
  • 2011-07-13
    Type: Sequence database correspondence | Details: Changed residue name in the sequence