4N8Z

In situ lysozyme crystallized on a MiTeGen micromesh with benzamidine ligand

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1LYZ	PDB ENTRY 1LYZ

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	In situ crystallization on micromesh	4.6	290	4% sodium chloride, 100mM sodium acetate pH 4.6, 120mg/ml, In situ crystallization on micromesh, temperature 290K

Crystal Properties
Matthews coefficient	Solvent content
1.98	37.95

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 79.15	α = 90
b = 79.15	β = 90
c = 36.28	γ = 90

Symmetry
Space Group	P 43 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	100	PIXEL	DECTRIS PILATUS 6M		2013-10-13	M	SINGLE WAVELENGTH
2	1
3	1

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

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	1.2	26.76	97.78	0.079	30.46	1.9	34775	34003	2	1

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.2		97.78		0.079	0.079	30.46	1.9	34003

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 1LYZ	1.2	26.76	2	34775	34003	1795	97.78	0.23007	0.23007	0.22902	0.25073	RANDOM	19.173

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]
-1.2			-1.2		2.41

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.641
r_dihedral_angle_4_deg	17.865
r_dihedral_angle_3_deg	14.319
r_dihedral_angle_1_deg	7.231
r_long_range_B_refined	6.524
r_long_range_B_other	5.964
r_scangle_other	3.811
r_scbond_it	2.63
r_scbond_other	2.628
r_angle_refined_deg	2.441
r_mcangle_other	1.976
r_mcangle_it	1.96
r_mcbond_it	1.57
r_mcbond_other	1.51
r_angle_other_deg	1.131
r_chiral_restr	0.168
r_bond_refined_d	0.029
r_gen_planes_refined	0.014
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1001
Nucleic Acid Atoms
Solvent Atoms	218
Heterogen Atoms	24

Software

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