1R43 | pdb_00001r43

Crystal structure of beta-alanine synthase from Saccharomyces kluyveri (selenomethionine substituted protein)

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6	293	trisodium citrate, dioxane, DTT, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.52	51.1

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 60.43	α = 90
b = 77.63	β = 95.63
c = 110.57	γ = 90

Symmetry
Space Group	P 1 21 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 4	Toroidal mirror	2002-10-03	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.9793, 0.9794, 0.9393	ESRF	ID14-4

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	2.8	30	99.9	0.103	15.5	5.8		25306			61.3

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)
	2.8	2.95	100		0.405	3.2	5.9	3659

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (All)	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	2.8	29.75	23973	23973	1289	99.89	0.21388	0.2106	0.2849	0.27395	0.3141	RANDOM	20.27

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]
1.05		3.4	-3.64		3.26

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	6.456
r_scangle_it	2.031
r_scbond_it	1.324
r_angle_refined_deg	1.268
r_mcangle_it	0.604
r_mcbond_it	0.29
r_symmetry_hbond_refined	0.26
r_nbd_refined	0.224
r_symmetry_vdw_refined	0.165
r_xyhbond_nbd_refined	0.143

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	6.456
r_scangle_it	2.031
r_scbond_it	1.324
r_angle_refined_deg	1.268
r_mcangle_it	0.604
r_mcbond_it	0.29
r_symmetry_hbond_refined	0.26
r_nbd_refined	0.224
r_symmetry_vdw_refined	0.165
r_xyhbond_nbd_refined	0.143
r_chiral_restr	0.087
r_bond_refined_d	0.01
r_gen_planes_refined	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6716
Nucleic Acid Atoms
Solvent Atoms	68
Heterogen Atoms	34

Software

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

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.