3EXW | pdb_00003exw

Crystal structure of the human Adenovirus type 7 fiber knob

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3EXV	Human Adenovirus type 11 fiber knob

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.6	293.15	23% w/v PEG 3350, 0.1M HEPES buffer, pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K

Crystal Properties
Matthews coefficient	Solvent content
2.06	40.3

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 83.31	α = 90
b = 88.05	β = 90
c = 79.17	γ = 90

Symmetry
Space Group	P 21 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	93.15	CCD	MARMOSAIC 225 mm CCD		2006-10-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06SA	1	SLS	X06SA

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	1.75	79.06	99.1	0.05		5.1	59433	52966		-3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.75	1.81	95.1		0.364	1.34	4.6

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 (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	Human Adenovirus type 11 fiber knob	1.75	36.11	59433	52966	5916	99.08	0.19572	0.19192	0.2	0.22999	0.23	RANDOM	16.948

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]
-1.2			-1.03		2.23

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.472
r_dihedral_angle_4_deg	19.272
r_dihedral_angle_1_deg	18.09
r_dihedral_angle_3_deg	12.441
r_scangle_it	2.365
r_scbond_it	1.695
r_mcangle_it	1.144
r_mcbond_it	0.983
r_angle_refined_deg	0.732
r_angle_other_deg	0.651
r_symmetry_vdw_other	0.285
r_symmetry_vdw_refined	0.271
r_nbd_other	0.218
r_nbd_refined	0.212
r_nbtor_refined	0.181
r_xyhbond_nbd_refined	0.178
r_mcbond_other	0.173
r_symmetry_hbond_refined	0.17
r_nbtor_other	0.084
r_chiral_restr	0.054
r_gen_planes_refined	0.007
r_bond_refined_d	0.006
r_bond_other_d	0.003
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4636
Nucleic Acid Atoms
Solvent Atoms	492
Heterogen Atoms

Software

Software
Software Name	Purpose
MAR345dtb	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling