9I2J | pdb_00009i2j

Branching Sucrase BRS-B in complex with Sucrose

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3TTQ

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		285	0.1M SPG Buffer pH 7, 20% PEG 1500

Crystal Properties
Matthews coefficient	Solvent content
4.08	69.85

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 255.133	α = 90
b = 255.133	β = 90
c = 344.915	γ = 120

Symmetry
Space Group	H 3 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		2018-04-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALBA BEAMLINE XALOC	0.97929	ALBA	XALOC

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	CC (Half)	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	3.1	48.63	98.7	0.982	4.4	3.5		76886

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	3.1	3.27			0.734	1

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	MOLECULAR REPLACEMENT	FREE R-VALUE	3.1	48.262	76881	3803	98.502	0.194	0.1925	0.1957	0.2253	0.2274	65.054

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]
1.375	0.688		1.375		-4.462

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	14.558
r_dihedral_angle_6_deg	13.132
r_lrange_it	11.053
r_lrange_other	11.053
r_dihedral_angle_1_deg	7.326
r_scangle_it	6.704
r_scangle_other	6.704
r_mcangle_it	6.276
r_mcangle_other	6.276
r_dihedral_angle_2_deg	5.672
r_scbond_it	4.02
r_scbond_other	4.02
r_mcbond_it	3.878
r_mcbond_other	3.878
r_angle_refined_deg	1.226
r_angle_other_deg	0.471
r_symmetry_nbd_other	0.215
r_nbd_refined	0.213
r_nbd_other	0.188
r_symmetry_xyhbond_nbd_refined	0.186
r_nbtor_refined	0.18
r_symmetry_nbd_refined	0.161
r_xyhbond_nbd_refined	0.15
r_ncsr_local_group_1	0.105
r_symmetry_xyhbond_nbd_other	0.1
r_symmetry_nbtor_other	0.079
r_chiral_restr	0.061
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	18161
Nucleic Acid Atoms
Solvent Atoms	185
Heterogen Atoms	301

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing