2IA7 | pdb_00002ia7

Crystal structure of putative tail lysozyme (NP_952040.1) from GEOBACTER SULFURREDUCENS at 1.44 A resolution

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION,SITTING DROP, NANODROP	7.1	277	0.2M LiNO3, 20.0% PEG 3350, pH 7.1, VAPOR DIFFUSION,SITTING DROP, NANODROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
1.97	37.1

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 40.27	α = 90
b = 43.332	β = 90
c = 64.636	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	CCD	MARMOSAIC 300 mm CCD	Adjustable focusing mirrors in K-B geometry	2006-08-11	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 23-ID-D	0.94926,0.97925,0.97939	APS	23-ID-D

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	1.44	43.315	90.4	0.049	13.38	3.92		19105			23.067

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	1.44	1.49	48.9		0.439	1.8	1.92	982

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	1.44	43.315	19064	978	90.95	0.169	0.168	0.1762	0.203	0.2093	RANDOM	17.112

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]
1.52			-0.8		-0.72

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.218
r_dihedral_angle_4_deg	15.474
r_dihedral_angle_3_deg	11.943
r_scangle_it	5.613
r_dihedral_angle_1_deg	5.578
r_scbond_it	4.144
r_mcangle_it	2.82
r_mcbond_it	2.246
r_angle_refined_deg	1.544
r_angle_other_deg	0.956
r_mcbond_other	0.439
r_symmetry_vdw_other	0.323
r_nbd_other	0.207
r_nbd_refined	0.202
r_nbtor_refined	0.177
r_symmetry_hbond_refined	0.172
r_xyhbond_nbd_refined	0.144
r_symmetry_vdw_refined	0.124
r_chiral_restr	0.088
r_nbtor_other	0.086
r_bond_refined_d	0.015
r_gen_planes_refined	0.007
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	870
Nucleic Acid Atoms
Solvent Atoms	120
Heterogen Atoms	8

Software

Software
Software Name	Purpose
MolProbity	model building
SHELX	phasing
REFMAC	refinement
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
SHELXD	phasing
SOLVE	phasing