2AAM | pdb_00002aam

Crystal structure of a putative glycosidase (tm1410) from thermotoga maritima at 2.20 A resolution

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION,SITTING DROP,NANODROP	9.5	277	25.0% PEG-300, 10.0% Glycerol, 5.0% PEG-8000, 0.1M CHES pH 9.5 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
6.43	80.71

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 194.93	α = 90
b = 84.62	β = 119.9
c = 195.01	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	flat mirror	2005-05-01	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL11-1	0.979170, 0.918370	SSRL	BL11-1

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	2.2	28.59	90.2	0.093	8.15			263407

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		61.1	0.543	1.97

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)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	2.2	28.59	263407	14007	99.39	0.217	0.216	0.23	0.239	0.25	RANDOM	37.156

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]
0.33			-1.13		0.8

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.178
r_dihedral_angle_4_deg	16.337
r_dihedral_angle_3_deg	13.906
r_dihedral_angle_1_deg	6.681
r_scangle_it	2.664
r_scbond_it	1.927
r_angle_refined_deg	1.529
r_mcangle_it	1.289
r_mcbond_it	0.984
r_angle_other_deg	0.983
r_mcbond_other	0.293
r_symmetry_hbond_refined	0.241
r_xyhbond_nbd_refined	0.204
r_nbd_refined	0.196
r_nbtor_refined	0.187
r_symmetry_vdw_other	0.179
r_nbd_other	0.173
r_symmetry_vdw_refined	0.123
r_chiral_restr	0.095
r_nbtor_other	0.086
r_xyhbond_nbd_other	0.078
r_bond_refined_d	0.016
r_gen_planes_refined	0.006
r_bond_other_d	0.003
r_gen_planes_other	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	14182
Nucleic Acid Atoms
Solvent Atoms	926
Heterogen Atoms	324

Software

Software
Software Name	Purpose
REFMAC	refinement
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
SHELX	phasing
SHARP	phasing