3EL0 | pdb_00003el0

Crystal structure of the inhibitor Nelfinavir (NFV) in complex with a multi-drug resistant HIV-1 protease variant (L10I/G48V/I54V/V64I/V82A) (Refer: FLAP+ in citation)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.2	298	pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.11	41.68

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 51.073	α = 90
b = 58.484	β = 90
c = 61.096	γ = 90

Symmetry
Space Group	P 21 21 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	133	IMAGE PLATE	RIGAKU RAXIS IV		2004-04-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU	1.5418

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	20		0.044	12.6		12125	12125

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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		THROUGHOUT	2	20	12104	591	94.13	0.2	0.197	0.21	0.25	0.27	RANDOM	29.943

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]
-2.92			0.37		2.56

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.179
r_dihedral_angle_3_deg	14.18
r_dihedral_angle_4_deg	13.356
r_dihedral_angle_1_deg	6.705
r_scangle_it	2.242
r_scbond_it	1.583
r_angle_other_deg	1.271
r_angle_refined_deg	1.166
r_mcangle_it	0.978
r_mcbond_it	0.931
r_symmetry_vdw_other	0.331
r_nbd_refined	0.292
r_symmetry_vdw_refined	0.276
r_xyhbond_nbd_refined	0.26
r_nbd_other	0.207
r_symmetry_hbond_refined	0.199
r_nbtor_refined	0.163
r_mcbond_other	0.116
r_nbtor_other	0.085
r_chiral_restr	0.068
r_gen_planes_other	0.034
r_bond_refined_d	0.007
r_bond_other_d	0.005
r_gen_planes_refined	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1483
Nucleic Acid Atoms
Solvent Atoms	125
Heterogen Atoms	70

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing