2FN8

Thermotoga maritima Ribose Binding Protein Ribose Bound Form

X-RAY DIFFRACTION

---

Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	MICROBATCH	6	290	0.1M RbCl, 0.1M MES pH6.0, 20% PEG 8,000, Micro-Batch, temperature 290K

Crystal Properties
Matthews coefficient	Solvent content
3.43	64.12

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 72.07	α = 90
b = 98.242	β = 90
c = 131.099	γ = 90

Symmetry
Space Group	I 2 2 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 300 mm CCD		2005-08-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-ID	0.97944	APS	22-ID

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	2	50	80.9	0.056	25.7	5.8	25783	25783

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	2	2.07	21		0.284	3.6	1.6	653

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 (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 2DRI	2.15	50	23715	23715	1179	92.17	0.194	0.194	0.193	0.2	0.223	0.23	RANDOM	32.1

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]
-0.35			-0.78		1.14

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.897
r_dihedral_angle_4_deg	16.433
r_dihedral_angle_3_deg	15.227
r_dihedral_angle_1_deg	6.781
r_scangle_it	2.311
r_scbond_it	1.616
r_angle_refined_deg	1.246
r_mcangle_it	1.095
r_mcbond_it	0.977
r_angle_other_deg	0.812
r_symmetry_vdw_other	0.221
r_nbd_refined	0.196
r_nbtor_refined	0.179
r_nbd_other	0.178
r_xyhbond_nbd_refined	0.136
r_mcbond_other	0.123
r_symmetry_vdw_refined	0.103
r_symmetry_hbond_refined	0.092
r_nbtor_other	0.086
r_chiral_restr	0.076
r_bond_refined_d	0.012
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	2286
Nucleic Acid Atoms
Solvent Atoms	142
Heterogen Atoms	10

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
AMoRE	phasing