7QLI | pdb_00007qli

Cis structure of rsKiiro at 290 K

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5OQ9

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	BATCH MODE		293	0.2 M LITHIUM SULFATE 0.1 M TRIS-CL PH 8.5 23-30% PEG 3350,

Crystal Properties
Matthews coefficient	Solvent content
2.22	44.52

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 38.56	α = 90
b = 73.467	β = 90
c = 78.038	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		2018-12-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.7293	Diamond	I03

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	1.155	53.549	77	0.122	0.127	0.999	12.1	13.2		59836

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.159	1.261			0.5

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	5OQ9	1.155	53.549	59836	2888	76.168	0.162	0.1609	0.16	0.1787	0.18	13.723

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]
-0.001			0.087		-0.086

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.653
r_dihedral_angle_4_deg	17.513
r_dihedral_angle_3_deg	12.068
r_dihedral_angle_1_deg	7.51
r_lrange_it	4.953
r_lrange_other	4.773
r_scangle_other	3.537
r_scangle_it	3.531
r_scbond_other	2.349
r_scbond_it	2.347
r_mcangle_other	1.852
r_mcangle_it	1.847
r_angle_refined_deg	1.811
r_angle_other_deg	1.527
r_mcbond_it	1.187
r_mcbond_other	1.174
r_nbd_refined	0.287
r_symmetry_nbd_other	0.207
r_xyhbond_nbd_refined	0.195
r_nbd_other	0.178
r_nbtor_refined	0.176
r_symmetry_xyhbond_nbd_refined	0.113
r_chiral_restr	0.096
r_symmetry_nbtor_other	0.087
r_symmetry_xyhbond_nbd_other	0.087
r_symmetry_nbd_refined	0.071
r_bond_refined_d	0.013
r_gen_planes_refined	0.011
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1747
Nucleic Acid Atoms
Solvent Atoms	232
Heterogen Atoms	21

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
STARANISO	data scaling
REFMAC	phasing