2HF7 | pdb_00002hf7

Transition State Analogue of AphA class B Acid Phosphatase/Phosphotransferase (Aluminium Fluoride Complex)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2B82	PDB code: 2B82

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.2	279	Reservoior: Na acetate 50mM, 18% (w/v) PEG6000, 0.6% (w/v) Spermine. Protein concentration: 4.16 mg/ml, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 279K

Crystal Properties
Matthews coefficient	Solvent content
2.56	51.88

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 92.43	α = 90
b = 66.484	β = 121.12
c = 91.624	γ = 90

Symmetry
Space Group	C 1 2 1

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 315		2006-05-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.939239	ESRF	ID14-4

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	1.6	51.16		0.093		7.2		62575

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	1.6	1.69	99.9		0.448		7.3

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 code: 2B82	1.6	51.16	56814	5734	100	0.17351	0.17123	0.1698	0.19628	0.1948	RANDOM	11.868

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]
0.7		0.43	-0.42		0.16

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.655
r_dihedral_angle_4_deg	17.484
r_dihedral_angle_3_deg	12.053
r_dihedral_angle_1_deg	5.239
r_sphericity_free	4.466
r_scangle_it	2.914
r_scbond_it	1.812
r_angle_refined_deg	1.148
r_mcangle_it	1.125
r_mcbond_it	0.697
r_nbtor_refined	0.31
r_symmetry_vdw_refined	0.2
r_nbd_refined	0.192
r_symmetry_hbond_refined	0.108
r_xyhbond_nbd_refined	0.097
r_chiral_restr	0.082
r_bond_refined_d	0.009
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3314
Nucleic Acid Atoms
Solvent Atoms	612
Heterogen Atoms	10

Software

Software
Software Name	Purpose
REFMAC	refinement
MOLREP	phasing