2W39

Glc(beta-1-3)Glc disaccharide in -1 and -2 sites of Laminarinase 16A from Phanerochaete chrysosporium

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2CL2	PDB ENTRY 2CL2

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		5		10 MG/ML LAMINARINASE 16A IN 25 % PEG 3350, 0.2 M AMMONIUM NITRATE AND 10 MM NAOAC PH 5, CO-CRYSTALIZED WITH 10 MM 4-O-BETA-D-GLUCOSYL-LAMINARIBIOSE (G4G3G) LIGAND FOR 6 MONTHS

Crystal Properties
Matthews coefficient	Solvent content
2.1	40.2

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 38.147	α = 90
b = 46.713	β = 90
c = 152.55	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 CCD	DIAMOND (111), GE(220) SAGITALLY FOCUSING GE(220) AND A MULTILAYER	2005-12-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-1		ESRF	ID14-1

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	1.1	29.55	88.3	0.06	15.43	3.84		98347		1.9	7

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	1.1	1.11	50.2		0.36	2.3	2.83

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	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	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 2CL2	1.1	29.55	1.1	93358	4912	88	0.138	0.138	0.14	0.152	0.15	RANDOM	12.38

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]
-0.054			0.079		-0.025

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.556
r_dihedral_angle_4_deg	16.647
r_dihedral_angle_3_deg	10.423
r_dihedral_angle_1_deg	7.139
r_scangle_it	2.703
r_scbond_it	1.955
r_mcangle_it	1.551
r_angle_refined_deg	1.45
r_mcbond_it	0.989
r_nbtor_refined	0.31
r_symmetry_vdw_refined	0.234
r_nbd_refined	0.205
r_xyhbond_nbd_refined	0.098
r_chiral_restr	0.092
r_symmetry_hbond_refined	0.086
r_bond_refined_d	0.009
r_gen_planes_refined	0.008
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_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	2247
Nucleic Acid Atoms
Solvent Atoms	436
Heterogen Atoms	49

Software

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