7D2C | pdb_00007d2c

The Crystal Structure of human PARP14 from Biortus.

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5QI5

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.2M NaCl, 0.1M Tris pH8.5, 25% PEG3350

Crystal Properties
Matthews coefficient	Solvent content
1.77	30.56

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 33.761	α = 90
b = 41.281	β = 90
c = 109.683	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		2020-08-30	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS-II BEAMLINE 17-ID-2	0.97936	NSLS-II	17-ID-2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.56	28.766	99	0.053	23.1	7.1		22373

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.56	1.59			0.137

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	5qi5	1.56	28.75	22332	1083	98.718	0.176	0.1752	0.19	0.1969	0.21	12.332

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]
0.446			-0.649		0.202

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.685
r_dihedral_angle_4_deg	11.489
r_dihedral_angle_3_deg	11.02
r_dihedral_angle_1_deg	6.043
r_lrange_it	3.086
r_lrange_other	3.022
r_scangle_it	1.82
r_scangle_other	1.819
r_angle_other_deg	1.369
r_angle_refined_deg	1.235
r_scbond_it	1.165
r_scbond_other	1.164
r_mcangle_it	1.12
r_mcangle_other	1.12
r_mcbond_it	0.663
r_mcbond_other	0.656
r_nbd_refined	0.201
r_symmetry_nbd_refined	0.171
r_symmetry_nbd_other	0.161
r_nbd_other	0.157
r_nbtor_refined	0.156
r_symmetry_xyhbond_nbd_refined	0.108
r_xyhbond_nbd_refined	0.098
r_symmetry_nbtor_other	0.074
r_chiral_restr	0.06
r_bond_refined_d	0.005
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1367
Nucleic Acid Atoms
Solvent Atoms	108
Heterogen Atoms	14

Software

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