7LKI | pdb_00007lki

The crystal structure of Epitope III of HCV envelop protein E2 in complex with antibody 1H8

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		294	20% PEG3350 0.1 M citrate pH 5.5

Crystal Properties
Matthews coefficient	Solvent content
2.31	46.66

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 201.683	α = 90
b = 42.793	β = 109.533
c = 110.824	γ = 90

Symmetry
Space Group	C 1 2 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	ADSC QUANTUM 315		2014-03-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X29A	1.0	NSLS	X29A

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	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	1.85	50	95.3	0.091	0.11	0.06	8.1	2.9		73746

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.85	1.88	70.2		0.511	0.66	0.412	0.476		2

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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1ZEA	2	35.699	60144	3030	98.416	0.248	0.2454	0.25	0.2944	0.29	27.752

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]
-2.078		0.388	2.005		-0.162

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.851
r_dihedral_angle_4_deg	18.939
r_dihedral_angle_1_deg	16.619
r_dihedral_angle_3_deg	14.485
r_lrange_it	5.094
r_lrange_other	5.076
r_angle_refined_deg	1.513
r_angle_other_deg	1.21
r_mcangle_it	0.997
r_mcangle_other	0.997
r_scangle_it	0.741
r_scangle_other	0.741
r_mcbond_it	0.538
r_mcbond_other	0.538
r_scbond_it	0.412
r_scbond_other	0.412
r_symmetry_nbd_refined	0.275
r_nbd_other	0.244
r_symmetry_xyhbond_nbd_refined	0.241
r_nbd_refined	0.195
r_symmetry_nbd_other	0.192
r_xyhbond_nbd_refined	0.178
r_nbtor_refined	0.161
r_symmetry_xyhbond_nbd_other	0.116
r_symmetry_nbtor_other	0.076
r_chiral_restr	0.06
r_gen_planes_refined	0.009
r_bond_refined_d	0.006
r_gen_planes_other	0.003
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6557
Nucleic Acid Atoms
Solvent Atoms	429
Heterogen Atoms

Software

Software
Software Name	Purpose
HKL-2000	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
PHASER	phasing