2VD6

Human adenylosuccinate lyase in complex with its substrate N6-(1,2- Dicarboxyethyl)-AMP, and its products AMP and fumarate.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.192

Literature

Macromolecules
Sequence Display for 2VD6

Classification: LYASE

Total Structure Weight: 231327.86

Macromolecule Entities
Molecule Chains Length Organism Details
ADENYLOSUCCINATE LYASE A, B, C, D 503 Homo sapiens EC#: 4.3.2.2 IUBMB
Fragment: RESIDUES 1-481
Details: THE CONSTRUCT CONTAINS A HEXAHISTIDINE TAIL AND A LINKER SEQUENCE IN THE N-TERMINUS (MHHHHHHSSGVDLGTENLYFQS)
Gene Name(s): ADSL Gene View AMPS
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
2SA
Query on 2SA

B, D 2-[9-(3,4-DIHYDROXY-5-PHOSPHONOOXYMETHYL- TETRAHYDRO-FURAN-2-YL)-9H-PURIN-6-YLAMINO]- SUCCINIC ACID
ADENYLOSUCCINIC ACID (Synonym)
C14 H18 N5 O11 P
OFBHPPMPBOJXRT-VWJPMABRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
AMP
Query on AMP

A, C ADENOSINE MONOPHOSPHATE
C10 H14 N5 O7 P
UDMBCSSLTHHNCD-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUM
Query on FUM

A, C FUMARIC ACID
C4 H4 O4
VZCYOOQTPOCHFL-OWOJBTEDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B, C, D CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.192
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 87.30 α = 90.00
b = 128.10 β = 90.00
c = 190.50 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-09-30
  • Released Date: 2007-10-23
  • Deposition author(s): Stenmark, P., Moche, M., Arrowsmith, C., Berglund, H., Busam, R., Collins, R., Dahlgren, L.G., Edwards, A., Flodin, S., Flores, A., Graslund, S., Hammarstrom, M., Hallberg, B.M., Holmberg-schiavone, L., Johansson, I., Kallas, A., Karlberg, T., Kotenyova, T., Lehtio, L., Nilsson, M., Nyman, T., Ogg, D., Persson, C., Sagemark, J., Sundstrom, M., Thorsell, A.G., Tresaugues, L., van den Berg, S., Weigelt, J., Welin, M., Nordlund, P., Structural Genomics Consortium (SGC)

Revision History

  • 2011-07-13
    Type: Advisory, Refinement description, Version format compliance
  • 2012-07-18
    Type: Other