6XI3 | pdb_00006xi3

Crystal structure of tetra-tandem repeat in extending region of large adhesion protein

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	MICROBATCH	5	296	PEG 6000, sodium acetate, sodium chloride

Crystal Properties
Matthews coefficient	Solvent content
3.3	62.77

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 202.833	α = 90
b = 45.631	β = 99.994
c = 58.6	γ = 90

Symmetry
Space Group	C 1 2 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	RAYONIX MX-300	Ultra-low expansion titanium siliicate flat mirror	2015-06-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CLSI BEAMLINE 08ID-1	1.7712	CLSI	08ID-1

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	2	50	99	0.103	0.107	0.028	0.999	19.6	14.1		35779			17.218

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	2	2.05	87.6		0.471	0.493	0.144	0.99	4.2	11.4

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	SAD	THROUGHOUT	2	46.63	35778	1769	99.05	0.182	0.1791	0.19	0.2308	0.24	28.192

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]
-0.931		3.106	1.84		-1.887

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	41.765
r_dihedral_angle_3_deg	10.932
r_dihedral_angle_1_deg	7.116
r_lrange_it	7.105
r_lrange_other	6.806
r_dihedral_angle_4_deg	6.501
r_scangle_it	5.019
r_scangle_other	5.018
r_scbond_it	3.474
r_scbond_other	3.473
r_mcangle_it	2.76
r_mcangle_other	2.76
r_mcbond_it	2.104
r_mcbond_other	2.092
r_angle_refined_deg	1.642
r_angle_other_deg	1.56
r_nbd_refined	0.217
r_nbd_other	0.205
r_symmetry_nbd_other	0.199
r_xyhbond_nbd_refined	0.179
r_symmetry_xyhbond_nbd_refined	0.178
r_metal_ion_refined	0.157
r_symmetry_nbd_refined	0.148
r_nbtor_refined	0.144
r_symmetry_nbtor_other	0.089
r_symmetry_metal_ion_refined	0.072
r_chiral_restr	0.065
r_bond_refined_d	0.011
r_gen_planes_refined	0.007
r_bond_other_d	0.003
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2638
Nucleic Acid Atoms
Solvent Atoms	498
Heterogen Atoms	42

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
AutoSol	phasing
PHENIX	model building
Coot	model building