3FYW | pdb_00003fyw

Staph. aureus DHFR complexed with NADPH and AR-101

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3FY8	PDB ENTRY 3FY8

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1				25% PEG3350, 200mM NaCl, 100mM bis-Tris, pH5.5

Crystal Properties
Matthews coefficient	Solvent content
2.7	54.41

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 79.088	α = 90
b = 79.088	β = 90
c = 108.446	γ = 120

Symmetry
Space Group	P 61 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	IMAGE PLATE	MAR scanner 345 mm plate	mirrors	2007-11-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	ENRAF-NONIUS FR591	1.5418

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.1	20	96.2				11812

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	2.1	2.23	71.6

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 (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 3FY8	2.1	20	11215	561	96.23	0.22146	0.21942	0.23	0.26259	0.26	RANDOM	34.998

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]
-0.41	-0.2		-0.41		0.61

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.227
r_dihedral_angle_3_deg	20.716
r_dihedral_angle_4_deg	15.245
r_dihedral_angle_1_deg	10.915
r_angle_refined_deg	0.823
r_angle_other_deg	0.799
r_mcangle_it	0.774
r_mcbond_it	0.669
r_scangle_it	0.473
r_scbond_it	0.304
r_symmetry_vdw_other	0.288
r_xyhbond_nbd_refined	0.285
r_nbd_other	0.269
r_symmetry_vdw_refined	0.263
r_nbd_refined	0.244
r_nbtor_refined	0.202
r_symmetry_hbond_refined	0.125
r_nbtor_other	0.092
r_mcbond_other	0.066
r_chiral_restr	0.042
r_bond_refined_d	0.004
r_gen_planes_refined	0.002
r_gen_planes_other	0.002
r_bond_other_d
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1282
Nucleic Acid Atoms
Solvent Atoms	125
Heterogen Atoms	74

Software

Software
Software Name	Purpose
HKL-2000	data collection
AMoRE	phasing
REFMAC	refinement
DENZO	data reduction
SCALA	data scaling