2HP0 | pdb_00002hp0

Crystal structure of iminodisuccinate epimerase

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	8.5	298	20% PEG 3350, 0.2M sodium sulphate, 0.1M Bis-Tris propane, pH 8.5, VAPOR DIFFUSION, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.31	46.78

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 55.602	α = 90
b = 104.973	β = 102.51
c = 78.645	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 315		2005-06-05	M	SINGLE WAVELENGTH
2	1	x-ray	100	CCD	ADSC QUANTUM 315		2005-06-05	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.9253	ESRF	ID14-4
2	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.9793, 0.9796, 0.9393	ESRF	ID14-4

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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
1,2	1.5	62.02	99.8	0.095	9.9		140534	140120

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1,2	1.5	1.58	99.9		0.53	2

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	MAD	THROUGHOUT	1.5	62.02	140534	140120	7085	99.71	0.15234	0.15234	0.15119	0.1602	0.17386	0.1808	RANDOM	16.317

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]
0.13		-0.3	0.59		-0.85

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.171
r_dihedral_angle_4_deg	14.772
r_dihedral_angle_3_deg	12.902
r_dihedral_angle_1_deg	5.076
r_sphericity_bonded	3.856
r_scangle_it	3.171
r_rigid_bond_restr	2.621
r_scbond_it	2.257
r_angle_refined_deg	1.338
r_mcangle_it	1.32
r_mcbond_it	1.134
r_angle_other_deg	0.927
r_symmetry_vdw_other	0.248
r_nbd_refined	0.224
r_symmetry_hbond_refined	0.195
r_mcbond_other	0.194
r_nbd_other	0.192
r_nbtor_refined	0.182
r_xyhbond_nbd_refined	0.144
r_chiral_restr	0.08
r_nbtor_other	0.08
r_symmetry_vdw_refined	0.077
r_bond_refined_d	0.014
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6709
Nucleic Acid Atoms
Solvent Atoms	948
Heterogen Atoms	54

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
CCP4	data scaling
SOLVE	phasing