2ABI | pdb_00002abi

Crystal structure of the human mineralocorticoid receptor ligand-binding domain bound to deoxycorticosterone

PDB DOI: https://doi.org/10.2210/pdb2ABI/pdb

Classification: TRANSCRIPTION REGULATOR
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2005-07-15 Released: 2006-07-25
Deposition Author(s): Huyet, J., Pinon, G.-M., Rochel, M., Mayer, C., Rafestin-Oblin, M.-E., Fagart, J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.33 Å
R-Value Free:
0.264 (Depositor), 0.259 (DCC)
R-Value Work:
0.207 (Depositor), 0.206 (DCC)
R-Value Observed:
0.207 (Depositor)

Starting Model: experimental
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Literature

Crystal structure of the human mineralocorticoid receptor ligand-binding domain bound to deoxycorticosterone

Huyet, J., Pinon, G.-M., Rochel, M., Mayer, C., Rafestin-Oblin, M.-E., Fagart, J.

To be published.

Macromolecule Content

Total Structure Weight: 90.02 kDa
Atom Count: 6,075
Modeled Residue Count: 698
Deposited Residue Count: 768
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mineralocorticoid receptor	A, B, C	256	Homo sapiens	Mutation(s): 1 Gene Names: NR3C2, MCR, MLR
UniProt & NIH Common Fund Data Resources
Find proteins for P08235 (Homo sapiens) Explore P08235 Go to UniProtKB: P08235
PHAROS: P08235 GTEx: ENSG00000151623
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P08235
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
1CA Query on 1CA Download:Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth B] SDF format, chain F [auth C] MOL2 format, chain D [auth A] MOL2 format, chain E [auth B] MOL2 format, chain F [auth C] mmCIF format, chain D [auth A] mmCIF format, chain E [auth B] mmCIF format, chain F [auth C]	D [auth A], E [auth B], F [auth C]	DESOXYCORTICOSTERONE C₂₁ H₃₀ O₃ ZESRJSPZRDMNHY-YFWFAHHUSA-N		Interactions Focus chain D [auth A] Focus chain E [auth B] Focus chain F [auth C] Interactions & Density Focus chain D [auth A] Focus chain E [auth B] Focus chain F [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.33 Å
R-Value Free: 0.264 (Depositor), 0.259 (DCC)
R-Value Work: 0.207 (Depositor), 0.206 (DCC)
R-Value Observed: 0.207 (Depositor)

Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 119.77	α = 90
b = 119.77	β = 90
c = 41.5	γ = 120

Software Package:

Software Name	Purpose
XDS	data scaling
XDS	data reduction
BEAST	model building
CNS	refinement
BEAST	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2006-07-25

Deposition Author(s):

Rafestin-Oblin, M.-E.

Revision History (Full details and data files)

Version 1.0: 2006-07-25
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2021-11-10
Changes: Database references, Derived calculations
Version 1.4: 2023-10-25
Changes: Data collection, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.