6WZX

GID4 in complex with IGLWKS peptide

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	291	20% (w/v) PEG 3350 and 8% (v/v) Tacsimate pH 7.0

Crystal Properties
Matthews coefficient	Solvent content
2.41	48.96

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 40.122	α = 68.228
b = 51.19	β = 89.119
c = 55.447	γ = 69.079

Symmetry
Space Group	P 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	PIXEL	DECTRIS EIGER X 16M		2018-04-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 24-ID-E	0.97900	APS	24-ID-E

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim 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	1.67	51.02	91.4	0.033	0.044	0.03	0.999	11.6	2		40219

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.67	1.7	88.5		0.713	0.967	0.649	0.588		1.8

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	6CCR	1.75	51.005	35093	1737	91.722	0.194	0.1926	0.2266	34.874

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]
0.583	-0.548	-0.604	-0.191	0.065	-0.36

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.911
r_dihedral_angle_4_deg	22.8
r_dihedral_angle_3_deg	13.441
r_dihedral_angle_1_deg	7.948
r_lrange_it	4.205
r_lrange_other	4.194
r_scangle_it	2.417
r_scangle_other	2.416
r_mcangle_it	2.036
r_mcangle_other	2.036
r_angle_refined_deg	1.68
r_scbond_it	1.544
r_scbond_other	1.544
r_angle_other_deg	1.448
r_mcbond_it	1.323
r_mcbond_other	1.322
r_nbd_refined	0.214
r_nbtor_refined	0.187
r_symmetry_nbd_other	0.184
r_nbd_other	0.182
r_symmetry_nbd_refined	0.158
r_xyhbond_nbd_refined	0.148
r_chiral_restr	0.085
r_symmetry_nbtor_other	0.079
r_symmetry_xyhbond_nbd_refined	0.05
r_symmetry_xyhbond_nbd_other	0.038
r_bond_refined_d	0.011
r_gen_planes_refined	0.011
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2725
Nucleic Acid Atoms
Solvent Atoms	56
Heterogen Atoms	16

Software

Software
Software Name	Purpose
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing