2I5C | pdb_00002i5c

Crystal structure of the C-terminal PH domain of pleckstrin in complex with D-myo-Ins(1,2,3,4,5)P5

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	297.15	0.1M Bis-Tris pH 6.5, 28% PEG 2000 MME, VAPOR DIFFUSION, HANGING DROP, temperature 297.15K

Crystal Properties
Matthews coefficient	Solvent content
2.2	44.8

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 82.501	α = 90
b = 47.604	β = 90
c = 87.622	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		CCD	ADSC QUANTUM 4	channel-cut Si(111)	2006-07-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X26C	0.9797	NSLS	X26C

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	1.65	50	96.5	0.039	26.6	3.5	43292	39679	3	3	29.3

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)
	1.65	1.71	81.5		0.36	2.37	2.5

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	1.75	30	31402	31402	2609	98.47	0.17952	0.17952	0.17583	0.26	0.24334	0.28	RANDOM	40.133

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]
0.06		0.12	0.13		-0.19

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.368
r_dihedral_angle_3_deg	15.32
r_dihedral_angle_1_deg	13.82
r_sphericity_free	12.713
r_dihedral_angle_4_deg	10.172
r_scangle_it	6.055
r_sphericity_bonded	5.202
r_scbond_it	4.518
r_mcangle_it	3.189
r_rigid_bond_restr	3.127
r_mcbond_it	2.594
r_angle_refined_deg	2.233
r_nbtor_refined	0.323
r_nbd_refined	0.241
r_symmetry_vdw_refined	0.238
r_xyhbond_nbd_refined	0.173
r_chiral_restr	0.157
r_symmetry_hbond_refined	0.15
r_bond_refined_d	0.024
r_gen_planes_refined	0.01

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2362
Nucleic Acid Atoms
Solvent Atoms	313
Heterogen Atoms	96

Software

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