3UI6

0.89 A resolution crystal structure of human Parvulin 14 in complex with oxidized DTT

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	8	298	0.1 M Tris, 2.5 M (NH4)2SO4, 3-20 mM Ala-Pro, pH 8.0, vapor diffusion, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
1.87	34.22

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 34.24	α = 90
b = 47.02	β = 90
c = 51.85	γ = 90

Symmetry
Space Group	P 21 21 21

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	MARMOSAIC 225 mm CCD		2008-09-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA	0.82656	SLS	X10SA

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	0.89		99.2	0.061	20.91			64302		-3	7.483

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	0.89	0.99	97.1		0.202	8.9

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 (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	THROUGHOUT	0.89	34.84	64298	3259	99.15	0.1034	0.1028	0.1159	RANDOM	9.1823

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]
-0.06			0.04		0.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.428
r_sphericity_free	21.727
r_dihedral_angle_3_deg	13.182
r_dihedral_angle_4_deg	11.501
r_rigid_bond_restr	11.369
r_dihedral_angle_1_deg	6.549
r_sphericity_bonded	5.725
r_angle_refined_deg	3.017
r_angle_other_deg	1.76
r_chiral_restr	0.438

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.428
r_sphericity_free	21.727
r_dihedral_angle_3_deg	13.182
r_dihedral_angle_4_deg	11.501
r_rigid_bond_restr	11.369
r_dihedral_angle_1_deg	6.549
r_sphericity_bonded	5.725
r_angle_refined_deg	3.017
r_angle_other_deg	1.76
r_chiral_restr	0.438
r_bond_refined_d	0.027
r_gen_planes_refined	0.011
r_bond_other_d	0.01
r_gen_planes_other	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	778
Nucleic Acid Atoms
Solvent Atoms	190
Heterogen Atoms	35

Software

Software
Software Name	Purpose
XSCALE	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction

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 R01GM133198.