2IZZ

Crystal structure of human pyrroline-5-carboxylate reductase

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2AG8	PDB ENTRY 2AG8

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7.5		20% PEG3350, 10% ETHYLENE GLYCOL 0.2M NA2SO4, 0.1M BIS-TRIS PROPANE PH7.5, pH 7.50

Crystal Properties
Matthews coefficient	Solvent content
2.43	49.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 110.453	α = 90
b = 177.944	β = 106.7
c = 87.916	γ = 90

Symmetry
Space Group	C 1 2 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	MARRESEARCH		2006-06-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA		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	1.95	40	99.9	0.06	11.9	3.1		117744			25.5

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	1.95	2.06	99.9		0.38	2.3	2.6

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	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	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 2AG8	1.95	40	115902	1835	99.9	0.167	0.166	0.19	RANDOM	23.71

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]
0.79		0.28	1.6		-2.23

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.597
r_dihedral_angle_4_deg	13.197
r_dihedral_angle_3_deg	12.712
r_dihedral_angle_1_deg	5.685
r_scangle_it	2.249
r_angle_other_deg	1.497
r_angle_refined_deg	1.455
r_scbond_it	1.404
r_mcangle_it	0.921
r_mcbond_it	0.556
r_symmetry_vdw_other	0.213
r_nbd_refined	0.199
r_nbd_other	0.186
r_symmetry_vdw_refined	0.176
r_nbtor_refined	0.16
r_chiral_restr	0.146
r_symmetry_hbond_refined	0.13
r_xyhbond_nbd_refined	0.128
r_nbtor_other	0.087
r_bond_refined_d	0.011
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	9935
Nucleic Acid Atoms
Solvent Atoms	695
Heterogen Atoms	248

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing