2VQD

Crystal Structure of Biotin Carboxylase from Pseudomonas aeruginosa complexed with AMPCP

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1DV2	PDB ENTRY 1DV2

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1				0.1M HEPES (PH 7.0), 0.2M MGCL2, 15-20% PEG3350

Crystal Properties
Matthews coefficient	Solvent content
1.97	37.02

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 64.227	α = 90
b = 126.786	β = 90
c = 49.878	γ = 90

Symmetry
Space Group	P 21 21 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				2007-05-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU RUH2R

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	2.4	20	96	0.07	22.9	5.2		15777

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	2.4	2.49	83.9		0.35	2.86	3.2

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 1DV2	2.41	63.37	14953	791	95.7	0.182	0.178	0.252	RANDOM	33.49

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]
1.51			0.21		-1.73

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.85
r_dihedral_angle_4_deg	16.911
r_dihedral_angle_3_deg	15.604
r_dihedral_angle_1_deg	5.853
r_scangle_it	1.503
r_angle_refined_deg	1.212
r_scbond_it	1.021
r_angle_other_deg	0.758
r_mcangle_it	0.619
r_mcbond_it	0.543
r_nbd_refined	0.188
r_symmetry_vdw_other	0.182
r_nbd_other	0.176
r_symmetry_hbond_refined	0.172
r_nbtor_refined	0.165
r_xyhbond_nbd_refined	0.149
r_symmetry_vdw_refined	0.147
r_nbtor_other	0.082
r_chiral_restr	0.065
r_bond_refined_d	0.009
r_gen_planes_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001
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_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3412
Nucleic Acid Atoms
Solvent Atoms	232
Heterogen Atoms	33

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing