1VKW | pdb_00001vkw

Crystal structure of a putative nitroreductase (tm1586) from thermotoga maritima msb8 at 2.00 A resolution

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION,SITTING DROP,NANODROP	4.6	277	Acetate pH 4.6, 0.2M (NH4)2SO4, 20% Glycerol, 25% PEG-4000 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
2.2	43.58

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 45.299	α = 90
b = 45.299	β = 90
c = 192.752	γ = 120

Symmetry
Space Group	P 31 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		2004-04-04	M	SINGLE WAVELENGTH
2	1	x-ray		M	MAD
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL9-2		SSRL	BL9-2
2	SYNCHROTRON	SSRL BEAMLINE BL9-2	0.979029, 0.918370,0.978835	SSRL	BL9-2

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	2	39.23	97.1	0.059	18	5.7		15922			41.38

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	2	2.05	82.3		0.229	3.2	3.2	969

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	MAD	THROUGHOUT	2	39.23	15544	827	99.79	0.2118	0.21022	0.22	0.24281	0.25	RANDOM	32.938

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]
0.29	0.15		0.29		-0.44

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.558
r_dihedral_angle_3_deg	14.704
r_dihedral_angle_4_deg	9.222
r_dihedral_angle_1_deg	5.944
r_scangle_it	4.967
r_scbond_it	3.796
r_mcangle_it	2.219
r_mcbond_it	1.529
r_angle_refined_deg	1.13
r_angle_other_deg	0.739
r_mcbond_other	0.297
r_symmetry_vdw_refined	0.204
r_symmetry_vdw_other	0.196
r_nbd_refined	0.192
r_nbd_other	0.177
r_xyhbond_nbd_refined	0.139
r_symmetry_hbond_refined	0.139
r_nbtor_other	0.08
r_chiral_restr	0.07
r_bond_refined_d	0.008
r_gen_planes_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1751
Nucleic Acid Atoms
Solvent Atoms	95
Heterogen Atoms	10

Software

Software
Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
SOLVE	phasing
SHARP	phasing
REFMAC	refinement
CCP4	data scaling