4R1F | pdb_00004r1f

Re-refined Human DNA topoisomerase IIa (ATPase and transducer domains) in complex with ADP and SO4

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1ZXN

Crystallization

Crystal Properties
Matthews coefficient	Solvent content
2.61	52.85

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 71.015	α = 90
b = 90.492	β = 89.97
c = 148.293	γ = 90

Symmetry
Space Group	P 1 21 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray						M	SINGLE WAVELENGTH

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	1ZXN	2.51	30	61079	61079	4648	94.86	0.2108	0.2108	0.2081	0.21	0.2434	0.25	RANDOM	64.255

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]
1.01		-0.63	0.56		-1.58

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.685
r_dihedral_angle_4_deg	21.774
r_dihedral_angle_3_deg	15.78
r_mcangle_it	6.872
r_dihedral_angle_1_deg	6.139
r_mcbond_it	4.865
r_mcbond_other	4.865
r_angle_refined_deg	1.467
r_angle_other_deg	1.223
r_chiral_restr	0.084
r_bond_refined_d	0.012
r_gen_planes_refined	0.008
r_bond_other_d	0.006
r_gen_planes_other	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	12093
Nucleic Acid Atoms
Solvent Atoms	134
Heterogen Atoms	133

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction