3UR7

Higher-density crystal structure of potato endo-1,3-beta-glucanase

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.6	292	0.1 M sodium acetate, 0.2 M ammonium acetate, 25% PEG 4000, 15 mM glucose, streak seeding, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Properties
Matthews coefficient	Solvent content
1.96	37.1

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 74.128	α = 90
b = 49.133	β = 102.4
c = 80.504	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	MAR CCD 165 mm	mirrors	2006-03-20	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MAX II BEAMLINE I911-2	1.04300	MAX II	I911-2

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	1.4	30	100	0.071	20.1	4.5	110982	110982		-3	27.1

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	1.4	1.45	100		0.49	2.7	3.1	11024

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	R free	PDB ENTRY 1GHS	1.4	20	109834	109834	1117	99.66	0.16153	0.16153	0.16128	0.1859	RANDOM	16.815

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]
-1.45		0.24	-1.38		2.93

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.631
r_dihedral_angle_4_deg	17.295
r_dihedral_angle_3_deg	12.074
r_sphericity_free	10.357
r_sphericity_bonded	6.286
r_dihedral_angle_1_deg	6.271
r_scangle_it	5.136
r_scbond_it	3.625
r_mcangle_it	2.691
r_mcbond_it	1.897
r_angle_refined_deg	1.731
r_rigid_bond_restr	1.706
r_mcbond_other	1.104
r_angle_other_deg	0.935
r_symmetry_vdw_other	0.223
r_nbd_refined	0.219
r_nbtor_refined	0.182
r_nbd_other	0.171
r_symmetry_hbond_refined	0.161
r_symmetry_vdw_refined	0.151
r_chiral_restr	0.123
r_xyhbond_nbd_refined	0.113
r_metal_ion_refined	0.096
r_nbtor_other	0.085
r_symmetry_metal_ion_refined	0.048
r_bond_refined_d	0.019
r_gen_planes_refined	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	5046
Nucleic Acid Atoms
Solvent Atoms	506
Heterogen Atoms	1

Software

Software
Software Name	Purpose
MAR345dtb	data collection
MOLREP	phasing
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling