9OU1 | pdb_00009ou1

Crystal structure of maize AKR4C13 in P21 space group

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2BGS

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		291	15% (w/v) PEG 1500 and 0.1 M SPG buffer pH 4.5 added by 0.01 M of beta-NADP+

Crystal Properties
Matthews coefficient	Solvent content
2.31	46.72

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.823	α = 90
b = 115.37	β = 104.247
c = 56.532	γ = 90

Symmetry
Space Group	P 1 21 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	ADSC QUANTUM 210		2015-07-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-1	0.9334	ESRF	ID14-1

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	1.45	57.65	98.6	0.048	11.37	1.9		120277

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	1.45	1.54	98.6		0.644	1.4

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.45	39.728	117919	5905	99.953	0.16	0.1592	0.1688	0.183	0.1896	15.675

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]
0.041		-0.062	-0.057		0.042

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.793
r_dihedral_angle_3_deg	11.88
r_dihedral_angle_2_deg	7.592
r_dihedral_angle_1_deg	6.182
r_lrange_it	5.823
r_lrange_other	5.714
r_scangle_it	4.462
r_scangle_other	4.461
r_scbond_it	2.891
r_scbond_other	2.89
r_mcangle_other	2.235
r_mcangle_it	2.233
r_dihedral_angle_other_2_deg	2.157
r_angle_refined_deg	1.854
r_mcbond_it	1.547
r_mcbond_other	1.543
r_angle_other_deg	0.64
r_symmetry_nbd_refined	0.245
r_nbd_other	0.236
r_nbd_refined	0.223
r_symmetry_nbd_other	0.198
r_symmetry_xyhbond_nbd_other	0.184
r_nbtor_refined	0.18
r_xyhbond_nbd_refined	0.166
r_symmetry_xyhbond_nbd_refined	0.157
r_chiral_restr	0.09
r_symmetry_nbtor_other	0.08
r_bond_refined_d	0.011
r_gen_planes_refined	0.01
r_gen_planes_other	0.003
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4848
Nucleic Acid Atoms
Solvent Atoms	695
Heterogen Atoms	140

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
XSCALE	data scaling
BALBES	phasing