7BEW | pdb_00007bew

Glyceraldehyde 3-phosphate dehydrogenase from Campylobacter jejeuni - NAD(P) complex

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	4.5	295	PEG 4000 (20%), 0.3 M Na/K tartrate, 01.M Na Acetate

Crystal Properties
Matthews coefficient	Solvent content
3.21	61.67

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 90.81	α = 90
b = 90.81	β = 90
c = 224.8	γ = 90

Symmetry
Space Group	I 41 2 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	PIXEL	DECTRIS PILATUS 6M		2014-12-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.9763	Diamond	I03

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	2.25	64.21	99.9	0.15	10.6	6.5		22791

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.25	2.35	100		0.73	2.5	6.5

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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	FREE R-VALUE	2.25	57.797	22778	1173	99.803	0.166	0.1632	0.17	0.2118	0.22	24.316

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]
-0.013			-0.013		0.025

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.976
r_dihedral_angle_3_deg	16.101
r_dihedral_angle_4_deg	14.677
r_dihedral_angle_1_deg	8.145
r_lrange_it	6.658
r_lrange_other	6.554
r_scangle_it	4.874
r_scangle_other	4.873
r_scbond_it	3.088
r_scbond_other	3.087
r_mcangle_it	3.049
r_mcangle_other	3.048
r_mcbond_it	2.008
r_mcbond_other	2
r_angle_refined_deg	1.674
r_angle_other_deg	1.355
r_xyhbond_nbd_refined	0.65
r_symmetry_nbd_refined	0.212
r_nbd_refined	0.204
r_symmetry_nbd_other	0.18
r_nbd_other	0.176
r_nbtor_refined	0.159
r_symmetry_xyhbond_nbd_refined	0.143
r_symmetry_nbtor_other	0.081
r_chiral_restr	0.077
r_metal_ion_refined	0.038
r_bond_refined_d	0.01
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2524
Nucleic Acid Atoms
Solvent Atoms	164
Heterogen Atoms	57

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
SCALA	data scaling
REFMAC	phasing