5IJF | pdb_00005ijf

Crystal structure of Human Serum Albumin in the presence of 0.5 mM zinc at pH 9.0

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1AO6

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	9	289	0.2 ul of 90 mg/ml protein in 20 mM K2HPO4 pH 7.5 buffer was mixed with 0.2 ul of the well condition (0.1 M MMT Buffer pH 9.0, 23 % PEG 1500, 1 mM ZnCl2) and equilibrated against well solution in 96 Well 3 drop Crystallization Plate (Swissci)

Crystal Properties
Matthews coefficient	Solvent content
2.51	51.05

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 78.614	α = 90
b = 121.56	β = 90
c = 140.036	γ = 90

Symmetry
Space Group	C 2 2 21

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	MARMOSAIC 225 mm CCD	Beryllium Lenses	2013-03-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 21-ID-F	0.979	APS	21-ID-F

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	2.65	50.01	98.8	0.068	0.068	11.8	7.3		19741		-3	48.1

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	2.65	2.7	88.4		0.818		6.6

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	1AO6	2.65	50.01	18566	949	98.22	0.2171	0.2131	0.2136	0.2924	0.2831	RANDOM	105.023

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]
-7.76			14.13		-6.37

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.351
r_dihedral_angle_4_deg	15.653
r_dihedral_angle_3_deg	14.798
r_mcangle_it	11.491
r_mcbond_it	8.238
r_mcbond_other	8.232
r_dihedral_angle_1_deg	5.226
r_angle_refined_deg	1.16
r_angle_other_deg	0.906
r_chiral_restr	0.058
r_bond_refined_d	0.008
r_gen_planes_refined	0.004
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4279
Nucleic Acid Atoms
Solvent Atoms	40
Heterogen Atoms	9

Software

Software
Software Name	Purpose
MD2	data collection
HKL-3000	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction