1KY3

GDP-BOUND YPT7P AT 1.35 A RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.161

Literature

Macromolecules
Sequence Display for 1KY3

Classification: ENDOCYTOSIS / EXOCYTOSIS

Total Structure Weight: 20627.27

Macromolecule Entities
Molecule Chains Length Organism Details
GTP-BINDING PROTEIN YPT7P A 182 Saccharomyces cerevisiae Fragment: GTPASE DOMAIN
Gene Name(s): YPT7 VAM4 YML001W YM8270.02
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.161
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 49.53 α = 90.00
b = 55.43 β = 90.00
c = 60.18 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-02-02
  • Released Date: 2002-06-05
  • Deposition author(s): Constantinescu, A.-T., Rak, A., Scheidig, A.J.

Revision History

  • Version 1_0: 2002-06-05

    Type: Initial release

  • Version 1_1: 2008-04-28

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance

  • Version 1_3: 2017-10-11

    Type: Advisory, Refinement description