1NOI

COMPLEX OF GLYCOGEN PHOSPHORYLASE WITH A TRANSITION STATE ANALOGUE NOJIRIMYCIN TETRAZOLE AND PHOSPHATE IN THE T AND R STATES

Structural Biology Knowledgebase: 1NOI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.171

Literature

Macromolecules
Sequence Display for 1NOI

Classification: GLYCOGEN PHOSPHORYLASE

Total Structure Weight: 391449.19

Macromolecule Entities
Molecule Chains Length Organism Details
GLYCOGEN PHOSPHORYLASE A, B, C, D 842 Oryctolagus cuniculus EC#: 2.4.1.1 IUBMB
Mutation: L380I, A609P
Gene Name(s): PYGM Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D PYRIDOXAL-5'-PHOSPHATE
VITAMIN B6 Phosphate (Synonym)
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NTZ
Query on NTZ

A, B, C, D NOJIRIMYCINE TETRAZOLE
C6 H10 N4 O4
UCJXQRFJERKPOZ-SQOUGZDYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B, C, D PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NTZ N/A in BindingDB
Ki: 700000 nM  BindingMOAD
Ki: 700000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.171
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 119.00 α = 90.00
b = 190.00 β = 109.35
c = 88.20 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1996-03-12
  • Released Date: 1996-08-01
  • Deposition author(s): Johnson, L.N., Mitchell, E.P.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4