2PEE

Crystal Structure of a Thermophilic Serpin, Tengpin, in the Native State

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2PEF	PDB ENTRIES 2PEF, 1SNG
experimental model	PDB	1SNG	PDB ENTRIES 2PEF, 1SNG

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		8	294	2M (NH4)2SO4, VAPOR DIFFUSION, HANGING DROP, temperature 294K, pH 8.0

Crystal Properties
Matthews coefficient	Solvent content
4.93	75.06

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 217.939	α = 90
b = 217.939	β = 90
c = 217.939	γ = 90

Symmetry
Space Group	I 2 3

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 4		2005-04-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 14-BM-C		APS	14-BM-C

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	2.7	154	97.8	7.7	14.4	3		43616		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	2.7	2.8	98.1		0.66	2.2	2.7

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 ENTRIES 2PEF, 1SNG	2.7	154	43616	2321	97.8	0.197	0.195	0.235	RANDOM	58.44

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]

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.815
r_dihedral_angle_4_deg	25.209
r_angle_other_deg	18.181
r_dihedral_angle_3_deg	17.804
r_dihedral_angle_1_deg	6.389
r_scangle_it	5.741
r_scbond_it	3.796
r_mcangle_it	2.314
r_angle_refined_deg	1.502
r_mcbond_it	1.372
r_nbtor_refined	0.311
r_nbd_refined	0.211
r_symmetry_vdw_refined	0.19
r_symmetry_hbond_refined	0.158
r_xyhbond_nbd_refined	0.126
r_chiral_restr	0.098
r_nbd_other	0.068
r_nbtor_other	0.025
r_bond_refined_d	0.015
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5895
Nucleic Acid Atoms
Solvent Atoms	38
Heterogen Atoms	17

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing