4M65

In situ thermolysin crystallized on a MiTeGen micromesh with asparagine ligand

X-RAY DIFFRACTION

---

Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	In situ crystallization on micromesh	7.5	290	1.45M calcium chloride, 45% DMSO, 50mM TRIS pH 7.5, In situ crystallization on micromesh, temperature 290K

Crystal Properties
Matthews coefficient	Solvent content
2.33	47.28

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 92.831	α = 90
b = 92.831	β = 90
c = 129.171	γ = 120

Symmetry
Space Group	P 61 2 2

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	ADSC QUANTUM 210		2013-08-04	M	SINGLE WAVELENGTH
2	1		PIXEL	DECTRIS PILATUS 6M
3	1		CCD	ADSC QUANTUM 315

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X12C	1.1	NSLS	X12C
2	SYNCHROTRON	NSLS BEAMLINE X25	1.1	NSLS	X25
3	SYNCHROTRON	NSLS BEAMLINE X29A	1.075	NSLS	X29A

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	1.6	31.59	98.1	0.048	58.4	28.2	43577	43035	2	1

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 4TLN	1.6	31.59	2	43035	40851	2167	98.17	0.1316	0.1316	0.13008	0.15928	RANDOM	16.678

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]
-0.43	-0.43		-0.43		1.39

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.072
r_dihedral_angle_4_deg	17.971
r_dihedral_angle_3_deg	12.666
r_long_range_B_refined	7.363
r_long_range_B_other	6.555
r_dihedral_angle_1_deg	5.829
r_scangle_other	4.157
r_scbond_it	2.983
r_scbond_other	2.983
r_angle_refined_deg	2.559
r_mcangle_it	2.004
r_mcangle_other	2.004
r_mcbond_it	1.518
r_mcbond_other	1.517
r_angle_other_deg	1.128
r_chiral_restr	0.164
r_bond_refined_d	0.029
r_gen_planes_refined	0.014
r_bond_other_d	0.002
r_gen_planes_other	0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2431
Nucleic Acid Atoms
Solvent Atoms	460
Heterogen Atoms	61

Software

Software
Software Name	Purpose
CBASS	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling