2VJR

The structure of phycocyanin from Gloeobacter violaceus

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP			33.3 MM LITHIUM SULFATE, 17 MM TRIS HYDROCHLORIDE PH 8.5, 5% W/V PEG 4K, MIXED WITH AN EQUAL VOLUME OF PROTEIN SOLUTION. HANGING DROP VAPOUR DIFFUSION.

Crystal Properties
Matthews coefficient	Solvent content
3.1	60

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 117.538	α = 90
b = 117.538	β = 90
c = 116.163	γ = 120

Symmetry
Space Group	P 63 2 2

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	MARRESEARCH		2005-11-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SRS BEAMLINE PX10.1		SRS	PX10.1

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	2.49	29.39	99.6	0.08	34.42	21.11		16967

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	2.49	2.51	98.8		0.41	5.56	20.96

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 ENTRY 1JBO	2.6	101.53	14301	766	99.6	0.21	0.207	0.266	RANDOM	28.22

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]
-0.52	-0.26		-0.52		0.78

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.852
r_dihedral_angle_4_deg	20.763
r_dihedral_angle_3_deg	16.588
r_dihedral_angle_1_deg	5.738
r_angle_refined_deg	1.982
r_scangle_it	1.965
r_scbond_it	1.235
r_angle_other_deg	1.01
r_mcangle_it	0.814
r_mcbond_it	0.721
r_nbd_refined	0.23
r_symmetry_vdw_other	0.205
r_nbd_other	0.194
r_nbtor_refined	0.189
r_xyhbond_nbd_refined	0.188
r_symmetry_vdw_refined	0.157
r_symmetry_hbond_refined	0.141
r_nbtor_other	0.088
r_chiral_restr	0.068
r_bond_refined_d	0.012
r_gen_planes_other	0.012
r_gen_planes_refined	0.007
r_bond_other_d	0.002
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2536
Nucleic Acid Atoms
Solvent Atoms	84
Heterogen Atoms	129

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing