3CZH

Crystal structure of CYP2R1 in complex with vitamin D2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.206 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Crystal structure of CYP2R1 in complex with vitamin D2.

Strushkevich, N.V.Tempel, W.Gilep, A.A.Loppnau, P.Arrowsmith, C.H.Edwards, A.M.Bountra, C.Wilkstrom, M.Bochkarev, A.Park, H.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Cytochrome P450 2R1 AB481Homo sapiensMutation(s): 0 
Gene Names: CYP2R1
EC: 1.14.14 (PDB Primary Data), 1.14.14.24 (UniProt)
Find proteins for Q6VVX0 (Homo sapiens)
Explore Q6VVX0 
Go to UniProtKB:  Q6VVX0
NIH Common Fund Data Resources
PHAROS:  Q6VVX0
Protein Feature View
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  • Reference Sequence
Oligosaccharides

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Entity ID: 2
MoleculeChainsChain Length2D Diagram Glycosylation3D Interactions
Cycloheptakis-(1-4)-(alpha-D-glucopyranose)
C, D
7 N/A Oligosaccharides Interaction
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download Ideal Coordinates CCD File 
A, B
PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
D2V
Query on D2V

Download Ideal Coordinates CCD File 
A, B
(3S,5Z,7E,22E)-9,10-secoergosta-5,7,10,22-tetraen-3-ol
C28 H44 O
MECHNRXZTMCUDQ-RKHKHRCZSA-N
 Ligand Interaction
UNX
Query on UNX

Download Ideal Coordinates CCD File 
A, B
UNKNOWN ATOM OR ION
X
 Ligand Interaction
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2
IDChainsNameType/Class2D Diagram3D Interactions
PRD_900012
Query on PRD_900012
C, Dbeta-cyclodextrinOligosaccharide /  Drug delivery

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.206 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 137.361α = 90
b = 163.393β = 90
c = 152.289γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
ADSCdata collection
HKL-3000data reduction
REFMACphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-08-05
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2017-10-25
    Changes: Refinement description
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary