2HEG | pdb_00002heg

Phospho-Aspartyl Intermediate Analogue of Apha class B acid phosphatase/phosphotransferase

X-RAY DIFFRACTION

---

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	reservoir: Na acetate 50mM, PEG6000 18% (w/v), 0.6% Spermine (w/v) protein concentration: 3.5 mg/ml, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 279K

Crystal Properties
Matthews coefficient	Solvent content
2.55	51.67

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 92.428	α = 90
b = 66.631	β = 119.85
c = 90.103	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	1.5	51.23	99.8	0.068		7.2		75720

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	1.5	1.58	100		0.358

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	1.5	51.23	68744	6952	100	0.16643	0.16408	0.1627	0.18943	0.1882	RANDOM	14.772

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]
-0.08		-0.39	-0.18		-0.13

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.015
r_dihedral_angle_4_deg	18.569
r_dihedral_angle_3_deg	12.348
r_dihedral_angle_1_deg	4.933
r_scangle_it	2.62
r_scbond_it	1.582
r_angle_refined_deg	1.125
r_mcangle_it	0.967
r_mcbond_it	0.519
r_nbtor_refined	0.312
r_nbd_refined	0.236
r_symmetry_vdw_refined	0.193
r_symmetry_hbond_refined	0.126
r_xyhbond_nbd_refined	0.111
r_chiral_restr	0.08
r_metal_ion_refined	0.037
r_bond_refined_d	0.008
r_gen_planes_refined	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3322
Nucleic Acid Atoms
Solvent Atoms	892
Heterogen Atoms	2

Software

Software
Software Name	Purpose
REFMAC	refinement
MOLREP	phasing