1Y8R

SUMO E1 ACTIVATING ENZYME SAE1-SAE2-SUMO1-MG-ATP COMPLEX

  • Classification: LIGASE
  • Deposited: 2004-12-13 Released: 2005-01-25
  • Deposition author(s): Lois, L.M.Lima, C.D.
  • Organism: Homo sapiens
  • Expression System: Escherichia coli, Escherichia coli, Escherichia coli BL21(DE3)
  • Mutation(s): 1

Structural Biology Knowledgebase: 1Y8R SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.220

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1Y8R

Classification: LIGASE

Total Structure Weight: 243059.54

Macromolecule Entities
Molecule Chains Length Organism Details
Ubiquitin-like 1 activating enzyme E1A A, D 346 Homo sapiens Gene Name(s): SAE1 Gene View AOS1 SUA1 UBLE1A
Ubiquitin-like 2 activating enzyme E1B B, E 640 Homo sapiens EC#: 6.3.2 IUBMB
Mutation: C173A
Gene Name(s): UBA2 Gene View SAE2 UBLE1B HRIHFB2115
Ubiquitin-like protein SMT3C C, F 97 Homo sapiens Gene Name(s): SUMO1 Gene View SMT3C SMT3H3 UBL1 OK/SW-cl.43

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

B, E ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

B, E ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B, E MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.220
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 117.20 α = 90.00
b = 215.15 β = 90.00
c = 100.87 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-12-13
  • Released Date: 2005-01-25
  • Deposition author(s): Lois, L.M., Lima, C.D.

Revision History

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