1U2H

X-ray Structure of the N-terminally truncated human APEP-1

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1FHG	SWISS MODEL (PDB ENTRIES 1FHG, 1BIH, 1CS6)
experimental model	PDB	1BIH	SWISS MODEL (PDB ENTRIES 1FHG, 1BIH, 1CS6)
experimental model	PDB	1CS6	SWISS MODEL (PDB ENTRIES 1FHG, 1BIH, 1CS6)

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	4.6	293	30% PEG MME 2000, 200mM (NH4)2SO4, 100mM Na Acetate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
1.8	32.3

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 81.541	α = 90
b = 25.522	β = 104.59
c = 42.544	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	IMAGE PLATE	MARRESEARCH	mirrors	2004-02-25	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.2	0.9184	BESSY	14.2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	0.96	20	89.1	0.07	0.07	29.9	3.9	183130	46733

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	0.96	0.98	47.3		0.16	0.16	4.5	1.9	1651

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	SWISS MODEL (PDB ENTRIES 1FHG, 1BIH, 1CS6)	0.96	5	43956	2384	89.67	0.16113	0.16053	0.17213	RANDOM	7.249

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]
-0.64		-0.38	0.58		-0.13

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.676
r_dihedral_angle_3_deg	13.534
r_dihedral_angle_4_deg	9.418
r_sphericity_free	8.013
r_dihedral_angle_1_deg	6.654
r_scangle_it	3.808
r_sphericity_bonded	3.157
r_angle_other_deg	3
r_scbond_it	2.94
r_mcangle_it	2.387
r_mcbond_it	1.917
r_angle_refined_deg	1.782
r_rigid_bond_restr	1.302
r_mcbond_other	0.671
r_symmetry_vdw_other	0.323
r_symmetry_vdw_refined	0.289
r_nbd_refined	0.217
r_nbd_other	0.217
r_symmetry_hbond_refined	0.211
r_xyhbond_nbd_refined	0.185
r_nbtor_refined	0.174
r_chiral_restr	0.099
r_nbtor_other	0.088
r_bond_refined_d	0.015
r_gen_planes_refined	0.008
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	766
Nucleic Acid Atoms
Solvent Atoms	150
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing