7C82 | pdb_00007c82

Crystal structure of AlinE4, a SGNH-hydrolase family esterase

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4JGG

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	291.15	1M Sodium acetate, 100mM HEPES, pH 7.5, 50mM Cadmium sulfate

Crystal Properties
Matthews coefficient	Solvent content
2.34	47.53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 79.783	α = 90
b = 79.783	β = 90
c = 61.01	γ = 90

Symmetry
Space Group	P 42 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	80	CCD	ADSC QUANTUM 315r		2017-06-11	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRF BEAMLINE BL17U1	0.97931	SSRF	BL17U1

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	1.18	48.46	99.05	0.073	20	2		64489

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	1.18	1.22			0.645

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	4JGG	1.18	48.46	61212	3291	99.043	0.128	0.127	0.13	0.1546	0.15	14.738

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]
-0.063			-0.063		0.126

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.725
r_dihedral_angle_4_deg	22.583
r_dihedral_angle_3_deg	13.932
r_dihedral_angle_1_deg	5.662
r_rigid_bond_restr	5.193
r_scangle_it	3.983
r_scangle_other	3.982
r_scbond_it	3.46
r_scbond_other	3.458
r_lrange_it	3.272
r_lrange_other	3.15
r_angle_refined_deg	2.131
r_mcangle_other	1.862
r_mcangle_it	1.849
r_angle_other_deg	1.662
r_mcbond_it	1.54
r_mcbond_other	1.454
r_symmetry_nbd_refined	0.317
r_nbd_refined	0.272
r_xyhbond_nbd_refined	0.208
r_symmetry_xyhbond_nbd_refined	0.207
r_symmetry_nbd_other	0.2
r_nbd_other	0.188
r_nbtor_refined	0.178
r_chiral_restr	0.139
r_symmetry_nbtor_other	0.091
r_metal_ion_refined	0.073
r_bond_refined_d	0.019
r_gen_planes_refined	0.012
r_gen_planes_other	0.003
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1439
Nucleic Acid Atoms
Solvent Atoms	221
Heterogen Atoms	24

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
PHENIX	phasing