3T7N

Crystal Structure of Human Glycogenin-1 (GYG1) complexed with manganese and UDP, in a monoclinic closed form

Structural Biology Knowledgebase: 3T7N SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.265
  • R-Value Work: 0.203

Literature

Macromolecules
Sequence Display for 3T7N

Classification: TRANSFERASE

Total Structure Weight: 60141.96

Macromolecule Entities
Molecule Chains Length Organism Details
Glycogenin-1 A, B 263 Homo sapiens EC#: 2.4.1.186 IUBMB
Fragment: glycogenin (UNP residues 1-262)
Gene Name(s): GYG1 Gene View GYG
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B URIDINE-5'-DIPHOSPHATE
C9 H14 N2 O12 P2
XCCTYIAWTASOJW-XVFCMESISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.265
  • R-Value Work: 0.203
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 47.02 α = 90.00
b = 80.72 β = 100.92
c = 69.85 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-07-30
  • Released Date: 2011-08-31
  • Deposition author(s): Chaikuad, A., Froese, D.S., Krysztofinska, E., von Delft, F., Weigelt, J., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Oppermann, U., Yue, W.W., Structural Genomics Consortium (SGC)

Revision History

  • 2012-01-11
    Type: Citation | Details: Citation update
  • 2011-12-28
    Type: Citation | Details: Citation update