2ALL | pdb_00002all

Crystal structure of L122V/L132V mutant of nitrophorin 2

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	298	sodium citrate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
1.74	28.6

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 39.44	α = 90
b = 126.34	β = 90
c = 33.96	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	100	CCD	MARRESEARCH	bent Si-mirror	2003-07-31	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 14-ID-B	1.1808	APS	14-ID-B

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	1.47	30	97	0.08	20.8	6.6	29090	29090			20.5

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)
	1.47	1.52	84		0.19	4.8	4.8	2489

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	THROUGHOUT	1EUO	1.47	30	27616	27616	1474	97.06	0.13922	0.13922	0.13713	0.14	0.1773	0.18	RANDOM	11.765

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]
0.31			-0.11		-0.2

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.004
r_dihedral_angle_3_deg	12.423
r_sphericity_free	10.312
r_dihedral_angle_1_deg	6.652
r_scangle_it	4.811
r_sphericity_bonded	3.928
r_scbond_it	3.744
r_dihedral_angle_4_deg	3.414
r_mcangle_it	2.504
r_mcbond_it	2.088
r_angle_refined_deg	1.854
r_rigid_bond_restr	1.777
r_angle_other_deg	1.223
r_mcbond_other	0.774
r_symmetry_vdw_other	0.231
r_nbd_refined	0.23
r_nbd_other	0.186
r_xyhbond_nbd_refined	0.183
r_nbtor_refined	0.18
r_symmetry_vdw_refined	0.166
r_symmetry_hbond_refined	0.163
r_chiral_restr	0.119
r_nbtor_other	0.089
r_bond_refined_d	0.019
r_gen_planes_refined	0.011
r_gen_planes_other	0.003
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1487
Nucleic Acid Atoms
Solvent Atoms	204
Heterogen Atoms	43

Software

Software
Software Name	Purpose
REFMAC	refinement
XDISPLAYF	data reduction
d*TREK	data scaling