6YS2

Crystal structure of FAP R451A in the dark at 100K

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6YRU

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.5	281	PEG 4000 25-40%, Na citrate 100 mM, spermidine 10mM

Crystal Properties
Matthews coefficient	Solvent content
2.65	53.53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 58.95	α = 90
b = 60.82	β = 90
c = 180.15	γ = 90

Symmetry
Space Group	P 21 21 21

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 EIGER X 4M		2018-09-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID29	0.97625	ESRF	ID29

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	1.97	86	99.5	0.134	0.15	0.996	8.56	4.848		46463			33.757

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.97	2.09	99		1.01	1.131	0.568	1.44	4.871

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	6YRU	1.97	49.375	46460	2425	99.448	0.184	0.182	0.2287	33.043

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]
-1.225			1.164		0.061

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.659
r_dihedral_angle_4_deg	16.682
r_dihedral_angle_3_deg	14.028
r_dihedral_angle_1_deg	7.718
r_lrange_it	6.57
r_lrange_other	6.496
r_scangle_it	4.611
r_scangle_other	4.61
r_mcangle_other	3.552
r_mcangle_it	3.551
r_scbond_it	3.054
r_scbond_other	3.054
r_mcbond_it	2.552
r_mcbond_other	2.544
r_angle_refined_deg	1.618
r_angle_other_deg	1.332
r_nbd_other	0.223
r_nbd_refined	0.196
r_symmetry_nbd_other	0.189
r_xyhbond_nbd_refined	0.179
r_symmetry_xyhbond_nbd_refined	0.177
r_nbtor_refined	0.163
r_symmetry_nbd_refined	0.152
r_symmetry_xyhbond_nbd_other	0.09
r_symmetry_nbtor_other	0.079
r_chiral_restr	0.077
r_bond_refined_d	0.009
r_gen_planes_refined	0.009
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4192
Nucleic Acid Atoms
Solvent Atoms	314
Heterogen Atoms	93

Software

Software
Software Name	Purpose
XSCALE	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
MOLREP	phasing