2B7F | pdb_00002b7f

Crystal structure of human T-cell leukemia virus protease, a novel target for anti-cancer design

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1NH0	HIVPR, pdb entry 1nh0

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.2	293	PEG8000, PEG300, DTT and Sodium Acetate, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K

Crystal Properties
Matthews coefficient	Solvent content
2.8	54.9

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 134.319	α = 90
b = 77.793	β = 99.28
c = 80.376	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	MARMOSAIC 225 mm CCD		2003-07-10	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-ID	1.00	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	2.6	50	98.1	0.089	21.7	6.55	24654	24654		-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	2.6	2.63	85.7		0.304	2.8	3.53	2127

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-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	HIVPR, pdb entry 1nh0	2.6	10	24654	23030	1143	97.56	0.20225	0.19833	0.27835	0.2491	RANDOM	36.364

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]
-0.93		0.35	-0.85		1.89

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.273
r_dihedral_angle_4_deg	22.328
r_dihedral_angle_3_deg	19.866
r_dihedral_angle_1_deg	8.202
r_scangle_it	3.859
r_scbond_it	2.456
r_angle_refined_deg	2.176
r_mcangle_it	1.852
r_mcbond_it	1.115
r_nbtor_refined	0.321
r_symmetry_vdw_refined	0.289
r_nbd_refined	0.255
r_xyhbond_nbd_refined	0.195
r_symmetry_hbond_refined	0.184
r_chiral_restr	0.126
r_bond_refined_d	0.022
r_gen_planes_refined	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5515
Nucleic Acid Atoms
Solvent Atoms	172
Heterogen Atoms	10

Software

Software
Software Name	Purpose
REFMAC	refinement
MAR345	data collection
SCALEPACK	data scaling
PHASER	phasing