3KM0 | pdb_00003km0

17betaHSD1 in complex with 3beta-diol

• PDB DOI: https://doi.org/10.2210/pdb3KM0/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2009-11-09 Released: 2010-11-10 
• Deposition Author(s): Mazumdar, M., Lin, S.-X.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.312 (Depositor), 0.319 (DCC) 
• R-Value Work: 
  0.233 (Depositor), 0.241 (DCC) 
• R-Value Observed: 
  0.237 (Depositor) 

Literature

Molecular basis of sex-steroid translation

Mazumdar, M., Chen, J., Lin, S.-X.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 71.85 kDa 
• Atom Count: 4,544 
• Modeled Residue Count: 550 
• Deposited Residue Count: 654 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Estradiol 17-beta-dehydrogenase 1	A, B	327	Homo sapiens	Mutation(s): 0  EC: 1.1.1.62 (PDB Primary Data), 1.1.1.51 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P14061 (Homo sapiens) Explore P14061  Go to UniProtKB:  P14061
PHAROS:  P14061 GTEx:  ENSG00000108786

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP	D [auth A], F [auth B]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
AOM	C [auth A], E [auth B]	5-ALPHA-ANDROSTANE-3-BETA,17BETA-DIOL C19 H32 O2 CBMYJHIOYJEBSB-YSZCXEEOSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.312 (Depositor), 0.319 (DCC) 
• R-Value Work:  0.233 (Depositor), 0.241 (DCC) 
• R-Value Observed: 0.237 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 154.42	α = 90
b = 43.12	β = 128.59
c = 121.1	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
XDS	data scaling
REFMAC	refinement
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-11-10 
Deposition Author(s): Mazumdar, M., Lin, S.-X.

Revision History  

• Version 1.0: 2010-11-10
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations
• Version 2.0: 2024-03-13
  Changes: Advisory, Atomic model, Data collection, Derived calculations