334D | pdb_0000334d

DEFINING GC-SPECIFICITY IN THE MINOR GROOVE: SIDE-BY-SIDE BINDING OF THE DI-IMIDAZOLE LEXITROPSIN TO C-A-T-G-G-C-C-A-T-G

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	Other		AN IDEAL HELIX RMS FIT TO BDJ057

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.4	277	pH 7.40, VAPOR DIFFUSION, SITTING DROP, temperature 277.00K

Crystal Properties
Matthews coefficient	Solvent content
2.14	50

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 36.654	α = 90
b = 42.643	β = 90
c = 34.684	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	278	IMAGE PLATE	RIGAKU RAXIS II	MIRROR MSC-YALE	1993-09-15	M

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU RU200

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	1.8	8	93	0.0374				4895			21.41

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.8	1.85	91.9

Refinement

Statistics
Diffraction ID	Structure Solution Method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	AN IDEAL HELIX RMS FIT TO BDJ057	1.8	8	1	4895		92	0.2	0.2	0.2

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]

RMS Deviations
Key	Refinement Restraint Deviation
n_phos_bond_it	4.858
n_sugar_angle_it	4.664
n_phos_angle_it	4.654
n_sugar_bond_it	4.026
n_chiral_restr	0.146
n_multtor_nbd	0.104
n_singtor_nbd	0.085
n_phos_bond_angle_d	0.069
n_phos_bond_d	0.05
n_sugar_bond_angle_d	0.039
n_sugar_bond_d	0.026
n_plane_restr	0.016
n_bond_d
n_angle_d
n_planar_d
n_hb_or_metal_coord
n_bond_angle_restr
n_dihedral_angle_restr
n_impr_tor
n_xhyhbond_nbd

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms
Nucleic Acid Atoms	404
Solvent Atoms	58
Heterogen Atoms	57

Software

Software
Software Name	Purpose
X-PLOR	model building
NUCLSQ	refinement
MSC	data reduction
MSC	data scaling
X-PLOR	phasing