2GUD

Crystal structure of a complex of griffithsin with mannose at 0.94 A resolution

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	293	1.8M magnesium sulfate,0.1M MES, 1:10 ratio of griffithsin monomers to mannose, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.38	48.3

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.74	α = 90
b = 39.44	β = 91
c = 57.16	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	CCD	MARMOSAIC 300 mm CCD		2006-02-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-ID	0.7	APS	22-ID

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	0.94	50	95.5	0.064		3.4	148669	148669		-3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	0.94	0.96	75

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 2GTY	0.94	30	148669	148646	1498	95.17	0.1355	0.1355	0.1355	0.15607	RANDOM	8.641

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]
-0.5		-0.35	-0.14		0.62

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	42.7
r_dihedral_angle_4_deg	17.269
r_dihedral_angle_3_deg	12.48
r_sphericity_free	11.393
r_dihedral_angle_1_deg	7.342
r_sphericity_bonded	6.485
r_angle_other_deg	4.862
r_scangle_it	4.273
r_scbond_it	3.645
r_mcangle_it	2.418
r_angle_refined_deg	2.154
r_mcbond_it	1.945
r_rigid_bond_restr	1.838
r_mcbond_other	1.13
r_nbd_refined	0.293
r_symmetry_vdw_refined	0.271
r_symmetry_vdw_other	0.263
r_nbd_other	0.231
r_xyhbond_nbd_refined	0.202
r_nbtor_refined	0.199
r_symmetry_hbond_refined	0.191
r_nbtor_other	0.164
r_chiral_restr	0.152
r_bond_refined_d	0.024
r_gen_planes_refined	0.011
r_bond_other_d	0.002
r_gen_planes_other	0.001
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

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1888
Nucleic Acid Atoms
Solvent Atoms	458
Heterogen Atoms	105

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
DENZO	data reduction
HKL-2000	data scaling
SCALEPACK	data scaling
PHASER	phasing