7EIY | pdb_00007eiy

Human histidine decarboxylase mutant Y334F soaking with histidine

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	8.5	293	0.1 M Tris-HCl (pH 8.5), 28% (w/v) PEG 3350, 0.2 M lithium sulfate

Crystal Properties
Matthews coefficient	Solvent content
2.12	42.09

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.93	α = 90
b = 84.998	β = 90
c = 187.417	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	ADSC QUANTUM 315		2012-06-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL38B1	1.0000	SPring-8	BL38B1

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	2.2	50	100	0.107	19.9	7.3		47992

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	2.2	2.28			0.61

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	FOURIER SYNTHESIS	FREE R-VALUE	2.2	36.43	47905	2425	99.919	0.169	0.1665	0.17	0.2241	0.22	34.338

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]
-0.668			-0.475		1.143

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.378
r_dihedral_angle_4_deg	16.626
r_dihedral_angle_3_deg	16.005
r_dihedral_angle_1_deg	7.407
r_lrange_it	4.302
r_lrange_other	4.291
r_scangle_it	3.324
r_scangle_other	3.298
r_mcangle_it	2.518
r_mcangle_other	2.518
r_scbond_it	2.207
r_scbond_other	2.192
r_angle_refined_deg	2.097
r_mcbond_it	1.756
r_mcbond_other	1.756
r_angle_other_deg	1.442
r_symmetry_nbd_refined	0.252
r_nbd_refined	0.216
r_symmetry_nbd_other	0.19
r_nbtor_refined	0.177
r_nbd_other	0.164
r_xyhbond_nbd_refined	0.141
r_symmetry_xyhbond_nbd_refined	0.124
r_chiral_restr	0.098
r_symmetry_nbtor_other	0.092
r_bond_refined_d	0.017
r_gen_planes_refined	0.013
r_symmetry_xyhbond_nbd_other	0.009
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7424
Nucleic Acid Atoms
Solvent Atoms	232
Heterogen Atoms	57

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
REFMAC	phasing