3BBC

Crystal structure of R88A mutant of the NM23-H2 transcription factor

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	298	PEG 1500, 50 mM sodium citrate, 20 mM MgCl2, 5 mM DTT, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.16	43.03

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 71.756	α = 90
b = 104.616	β = 90
c = 118.089	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 QUANTUM 4	bent Si-mirror	2003-12-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 14-BM-C	0.9000	APS	14-BM-C

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	1.7	26.5	99.8	0.093	16.9	7.2	98113	98113

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)
	1.7	1.76	99.4		0.43	3.4	6.9	9666

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	PDB entry 1NUE	1.7	26.5	93076	4899	99.67	0.17589	0.17376	0.21574	RANDOM	14.669

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]
-0.37			-0.91		1.28

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.793
r_dihedral_angle_4_deg	20.506
r_dihedral_angle_3_deg	14.375
r_dihedral_angle_1_deg	8.059
r_scangle_it	3.849
r_scbond_it	2.706
r_angle_refined_deg	1.72
r_mcangle_it	1.551
r_mcbond_it	1.303
r_angle_other_deg	1.041
r_mcbond_other	0.307
r_symmetry_vdw_other	0.269
r_symmetry_vdw_refined	0.24
r_nbd_refined	0.219
r_nbd_other	0.206
r_xyhbond_nbd_refined	0.183
r_nbtor_refined	0.182
r_symmetry_hbond_refined	0.172
r_chiral_restr	0.118
r_nbtor_other	0.089
r_bond_refined_d	0.019
r_gen_planes_refined	0.008
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7224
Nucleic Acid Atoms
Solvent Atoms	1087
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
XDISPLAYF	data collection
CrystalClear	data reduction
CrystalClear	data scaling
MOLREP	phasing