1ZUA | pdb_00001zua

Crystal Structure Of AKR1B10 Complexed With NADP+ And Tolrestat

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1FRB	PDB ENTRY 1FRB

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	9	293	PEG 6000, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.03	38.82

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 89.113	α = 90
b = 89.113	β = 90
c = 78.433	γ = 120

Symmetry
Space Group	P 61

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	298	CCD	ADSC QUANTUM 4r		2005-05-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4	1.00632	ESRF	ID14-4

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.25	55.05	97.7	0.056	5	5	92151	92151			30.4

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.25	1.3	95		0.4	2	3

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 1FRB	1.25	20	92151	92151	4867	99.49	0.1313	0.13098	0.12962	0.13	0.15619	0.16	RANDOM	14.292

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
0.09	0.05		0.09		-0.14

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.273
r_dihedral_angle_4_deg	15.449
r_dihedral_angle_3_deg	13.309
r_sphericity_free	12.875
r_dihedral_angle_1_deg	7.76
r_sphericity_bonded	5.696
r_scangle_it	4.931
r_scbond_it	3.978
r_mcangle_it	2.731
r_mcbond_it	2.451
r_angle_refined_deg	2.094
r_rigid_bond_restr	2.054
r_mcbond_other	1.116
r_angle_other_deg	1.007
r_symmetry_vdw_refined	0.338
r_nbd_refined	0.262
r_symmetry_vdw_other	0.259
r_nbd_other	0.204
r_symmetry_hbond_refined	0.194
r_nbtor_refined	0.192
r_xyhbond_nbd_refined	0.183
r_chiral_restr	0.126
r_nbtor_other	0.092
r_bond_refined_d	0.022
r_gen_planes_refined	0.012
r_bond_other_d	0.003
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2665
Nucleic Acid Atoms
Solvent Atoms	411
Heterogen Atoms	72

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing