9GA7 | pdb_00009ga7

The crystal structure of human Annexin A4 derived from crystal grown at 4 mM CaCl2 and retro-soaking

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2ZOC

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.6	293	0.1 M sodium acetate (pH 4.6), 0.2 M ammonium sulfate, and 25 % (v/v) PEG 4000

Crystal Properties
Matthews coefficient	Solvent content
2.06	40.39

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 58.384	α = 90
b = 39.926	β = 99.094
c = 65.904	γ = 90

Symmetry
Space Group	P 1 21 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	PIXEL	DECTRIS EIGER X 9M		2002-07-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID30B	0.99	ESRF	ID30B

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	1.4	65.1	95.3	0.048	8.9	2.5		51347

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	1.45	1.47			0.495

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.446	65.076	51336	2538	95.077	0.187	0.1863	0.1863	0.2086	0.2086	20

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]
-0.001		0.001			0.001

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.599
r_dihedral_angle_3_deg	11.807
r_dihedral_angle_2_deg	9.035
r_lrange_it	7.794
r_lrange_other	7.734
r_dihedral_angle_1_deg	5.859
r_scangle_it	5.261
r_scangle_other	5.219
r_scbond_it	3.398
r_scbond_other	3.363
r_mcangle_other	3.251
r_mcangle_it	3.25
r_mcbond_it	2.025
r_mcbond_other	2.005
r_angle_refined_deg	1.787
r_angle_other_deg	0.613
r_nbd_refined	0.25
r_xyhbond_nbd_refined	0.247
r_symmetry_nbd_refined	0.23
r_symmetry_xyhbond_nbd_refined	0.198
r_nbtor_refined	0.183
r_symmetry_nbd_other	0.182
r_nbd_other	0.176
r_metal_ion_refined	0.144
r_chiral_restr	0.084
r_symmetry_nbtor_other	0.074
r_symmetry_xyhbond_nbd_other	0.013
r_bond_refined_d	0.009
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2479
Nucleic Acid Atoms
Solvent Atoms	171
Heterogen Atoms	21

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing