2O23

The structure of wild-type human HADH2 (17beta-hydroxysteroid dehydrogenase type 10) bound to NAD+ at 1.2 A

Structural Biology Knowledgebase: 2O23 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.154
  • R-Value Work: 0.123

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2O23

Classification: OXIDOREDUCTASE

Total Structure Weight: 55991.96

Macromolecule Entities
Molecule Chains Length Organism Details
HADH2 protein A, B 265 Homo sapiens EC#: 1.1.1.35 IUBMB
Gene Name(s): HSD17B10 Gene View ERAB HADH2 MRPP2 SCHAD SDR5C1 XH98G2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.154
  • R-Value Work: 0.123
  • Space Group: P 32 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 117.04 α = 90.00
b = 117.04 β = 90.00
c = 69.09 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-11-29
  • Released Date: 2006-12-12
  • Deposition author(s): Kavanagh, K.L., Shafqat, N., Scholer, K., Debreczeni, J., Zschocke, J., Von Delft, F., Weigelt, J., Arrowsmith, C., Sundstrom, M., Edwards, A., Oppermann, U., Structural Genomics Consortium (SGC)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values