2H3H

Crystal structure of the liganded form of Thermotoga maritima glucose binding protein

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7	291	17% PEG 3350, 0.2M sodium formate, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Properties
Matthews coefficient	Solvent content
2.83	56.53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 148.2	α = 90
b = 46.06	β = 108.22
c = 118.4	γ = 90

Symmetry
Space Group	C 1 2 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		2005-02-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X25	1.0357	NSLS	X25

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.7	50	95.1	0.058		3.2	79951	79951

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.7	1.74	88.9		0.393	2.2	2.8	5488

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2DRI	1.7	50	75919	4030	95.08	0.20502	0.20306	0.24108	RANDOM	25.765

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]
-0.49		-0.14	-0.2		0.61

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.349
r_dihedral_angle_4_deg	13.867
r_dihedral_angle_3_deg	13.386
r_dihedral_angle_1_deg	5.511
r_scangle_it	2.242
r_scbond_it	1.585
r_angle_refined_deg	1.172
r_mcangle_it	0.989
r_mcbond_it	0.914
r_angle_other_deg	0.763
r_symmetry_vdw_other	0.297
r_symmetry_vdw_refined	0.28
r_nbd_refined	0.198
r_nbtor_refined	0.17
r_nbd_other	0.166
r_xyhbond_nbd_refined	0.163
r_symmetry_hbond_refined	0.142
r_mcbond_other	0.137
r_nbtor_other	0.082
r_chiral_restr	0.071
r_bond_refined_d	0.01
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4725
Nucleic Acid Atoms
Solvent Atoms	668
Heterogen Atoms	24

Software

Software
Software Name	Purpose
REFMAC	refinement
ADSC	data collection
XDS	data scaling
AMoRE	phasing