6V1V

VIP3B (VIP3B_2160) adapted for crystallization

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
other		truncated protein (structure to be published)

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	9	293	25% PEG 1500, 100 mM Bis-Tris Propane pH 9.0, 100 mM NaCl.

Crystal Properties
Matthews coefficient	Solvent content
3.39	63.73

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 106.488	α = 96.13
b = 106.542	β = 70.93
c = 117.728	γ = 69.52

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	CCD	MARMOSAIC 325 mm CCD		2014-10-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-ID	1	APS	22-ID

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	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	3.189	49.892	98.7	0.105	0.117	0.064	15.2	3.9		72704

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	3.189	3.26	98.9		0.95	0.95	0.668	0.388		3.5

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	truncated protein (structure to be published)	3.189	49.892	72704	3538	98.273	0.22	0.218	0.2586	107.401

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]
1.143	-2.691	-0.342	-0.801	-1.076	-0.977

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.13
r_dihedral_angle_4_deg	18.801
r_dihedral_angle_3_deg	18.598
r_lrange_it	16.959
r_lrange_other	16.959
r_scangle_it	12.647
r_scangle_other	12.645
r_mcangle_it	12.251
r_mcangle_other	12.251
r_scbond_it	8.033
r_scbond_other	8.031
r_mcbond_it	8.025
r_mcbond_other	8.025
r_dihedral_angle_1_deg	6.97
r_angle_refined_deg	1.571
r_angle_other_deg	1.514
r_nbd_other	0.396
r_symmetry_nbd_refined	0.304
r_symmetry_nbd_other	0.224
r_nbd_refined	0.219
r_nbtor_refined	0.18
r_xyhbond_nbd_refined	0.136
r_symmetry_xyhbond_nbd_refined	0.124
r_ncsr_local_group_3	0.114
r_ncsr_local_group_5	0.11
r_ncsr_local_group_2	0.105
r_ncsr_local_group_4	0.105
r_ncsr_local_group_6	0.098
r_chiral_restr	0.096
r_symmetry_nbtor_other	0.089
r_symmetry_xyhbond_nbd_other	0.08
r_ncsr_local_group_1	0.079
r_ext_dist_refined_d	0.067
r_bond_refined_d	0.009
r_gen_planes_refined	0.007
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	23683
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing