Macromolecule Content

Total Structure Weight: 71.69 kDa
Atom Count: 4453
Modelled Residue Count: 557
Deposited Residue Count: 656
Unique protein chains: 1

6DTP

CRYSTAL STRUCTURE OF HUMAN 17BETA-HYDROXYSTEROID DEHYDROGENASE TYPE 1 COMPLEXED WITH EM139

DOI: 10.2210/pdb6DTP/pdb

Classification: OXIDOREDUCTASE/Inhibitor
Organism(s): Homo sapiens
Expression System: Spodoptera frugiperda
Mutation(s): No

Deposited: 2018-06-18 Released: 2018-09-12
Deposition Author(s): Li, T., Lin, S.X.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.234
R-Value Work: 0.191
R-Value Observed: 0.193

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

CRYSTAL STRUCTURE OF HUMAN 17BETA-HYDROXYSTEROID DEHYDROGENASE TYPE 1 COMPLEXED WITH Dual-Site Inhibitor EM-139

Li, T., Zhu, D., Labrie, F., Lin, S.X.

(2018) Health

Macromolecules

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Estradiol 17-beta-dehydrogenase 1	A, B	328	Homo sapiens	Mutation(s): 0 Gene Names: HSD17B1, E17KSR, EDH17B1, EDH17B2, EDHB17, SDR28C1 EC: 1.1.1.62 (PDB Primary Data), 1.1.1.51 (UniProt)
Find proteins for P14061 (Homo sapiens) Explore P14061 Go to UniProtKB: P14061
NIH Common Fund Data Resources
PHAROS: P14061 GTEx: ENSG00000108786
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EM9 Query on EM9 Download Ideal Coordinates CCD File SDF format, chain J [A] MOL2 format, chain J [A]	A	N-butyl-11-[(7alpha,9beta,13alpha,14beta,16alpha,17alpha)-16-chloro-3,17-dihydroxyestra-1,3,5(10)-trien-7-yl]-N-methylundecanamide C₃₄ H₅₄ Cl N O₃ FQJIZXBCOKNLMR-FTAPQOLWSA-N		Ligand Interaction
PGE Query on PGE Download Ideal Coordinates CCD File SDF format, chain K [A] MOL2 format, chain K [A]	A	TRIETHYLENE GLYCOL C₆ H₁₄ O₄ ZIBGPFATKBEMQZ-UHFFFAOYSA-N		Ligand Interaction
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain P [B] MOL2 format, chain P [B]	B	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Ligand Interaction
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain C [A] SDF format, chain D [A] SDF format, chain E [A] SDF format, chain F [A] SDF format, chain G [A] SDF format, chain L [B] SDF format, chain M [B] MOL2 format, chain C [A] MOL2 format, chain D [A] MOL2 format, chain E [A] MOL2 format, chain F [A] MOL2 format, chain G [A] MOL2 format, chain L [B] MOL2 format, chain M [B]	A, B	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain H [A] SDF format, chain I [A] SDF format, chain N [B] SDF format, chain O [B] MOL2 format, chain H [A] MOL2 format, chain I [A] MOL2 format, chain N [B] MOL2 format, chain O [B]	A, B	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.234
R-Value Work: 0.191
R-Value Observed: 0.193
Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 120.761	α = 90
b = 42.188	β = 102.07
c = 122.671	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Deposited Date: 2018-06-18
Released Date: 2018-09-12

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2018-09-12
Type: Initial release

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.