7QNP | pdb_00007qnp

Designed Armadillo repeat protein N(A4)M4C(AII) co-crystallized with hen egg white lysozyme

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5AEI

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	35% (v/v) dioxane, pH undefined

Crystal Properties
Matthews coefficient	Solvent content
2.43	49.48

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 56.592	α = 90
b = 62.655	β = 90
c = 108.74	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 16M		2020-02-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06SA	1.00	SLS	X06SA

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	1.586	42	99.96	0.056	0.059	0.016	1	22.36	13.4		53083

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.586	1.65	99.98		0.384	0.702	1.48	13.8

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	5aei	1.586	41.997	53083	2654	99.876	0.188	0.1865	0.2	0.2185	0.23	32.885

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]
-0.39			-0.34		0.731

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.183
r_dihedral_angle_4_deg	20.261
r_dihedral_angle_3_deg	13.511
r_lrange_it	6.914
r_lrange_other	6.794
r_dihedral_angle_1_deg	5.717
r_scangle_it	5.273
r_scangle_other	5.272
r_scbond_it	3.422
r_scbond_other	3.42
r_mcangle_other	3.056
r_mcangle_it	3.052
r_mcbond_it	2.272
r_mcbond_other	2.255
r_angle_refined_deg	2.17
r_angle_other_deg	1.717
r_symmetry_xyhbond_nbd_refined	0.323
r_nbd_other	0.318
r_xyhbond_nbd_refined	0.285
r_nbd_refined	0.239
r_symmetry_nbd_refined	0.199
r_symmetry_nbd_other	0.193
r_nbtor_refined	0.171
r_chiral_restr	0.123
r_symmetry_nbtor_other	0.088
r_symmetry_xyhbond_nbd_other	0.078
r_bond_refined_d	0.018
r_gen_planes_refined	0.016
r_bond_other_d	0.009
r_gen_planes_other	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2778
Nucleic Acid Atoms
Solvent Atoms	305
Heterogen Atoms	34

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing