3CG8 | pdb_00003cg8

Laccase from Streptomyces coelicolor

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	9	298	39 % (v/v) PEG monomethyl ether 550, 0.1 M NaCl, 0.1 M glycine, pH 9.0; 2:1 protein:reservoir ratio in a drop; data from this crystal were used for structure refinement, VAPOR DIFFUSION, HANGING DROP, temperature 298K
2	VAPOR DIFFUSION, HANGING DROP	7	298	45 % (w/v) Jeffamine ED-2001, pH 7.0, 0.05 M HEPES, pH 7.0; data from this crystal were consulted during structure refinement but not used as refinement target, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 180.868	α = 90
b = 180.868	β = 90
c = 177.111	γ = 90

Symmetry
Space Group	P 43 21 2

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	MARMOSAIC 225 mm CCD	Si(111) monochromator and mirrors	2007-02-22	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE BM14	1.3775, 1.380, 0.954	ESRF	BM14

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.65	50	94.1	0.095	0.095	11.6	17	80263	80263	-999	-999	61

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	2.65	2.74	70.6		0.64	0.64	9.4	15.3	5942

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	2.679	28.54	78462	78462	1569	96.89	0.172	0.172	0.172	0.17	0.194	0.18	RANDOM	29.146

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]
-0.18			-0.18		0.36

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.255
r_dihedral_angle_4_deg	19.615
r_dihedral_angle_3_deg	15.368
r_dihedral_angle_1_deg	6.61
r_scangle_it	2.93
r_scbond_it	2.067
r_angle_refined_deg	1.558
r_mcangle_it	1.321
r_mcbond_it	1.172
r_angle_other_deg	0.886
r_nbd_other	0.209
r_nbd_refined	0.191
r_nbtor_refined	0.186
r_xyhbond_nbd_refined	0.172
r_symmetry_vdw_refined	0.146
r_mcbond_other	0.146
r_metal_ion_refined	0.113
r_symmetry_vdw_other	0.112
r_symmetry_hbond_refined	0.105
r_chiral_restr	0.092
r_nbtor_other	0.092
r_bond_refined_d	0.016
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6321
Nucleic Acid Atoms
Solvent Atoms	360
Heterogen Atoms	71

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MxCuBE	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SHELX	phasing
SHELXD	phasing
SHELXE	model building