2F7C | pdb_00002f7c

CatM effector binding domain with its effector cis,cis-muconate

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2F7B	PDB Entry 2F7B

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	microbatch under oil		288	PEG 4000, ammonium sulfate, sodium acetate, NaCl, tris, glycerol, imidazole, microbatch under oil, temperature 288K

Crystal Properties
Matthews coefficient	Solvent content
2.34	47.54

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 65.568	α = 90
b = 73.108	β = 90
c = 102.627	γ = 90

Symmetry
Space Group	I 2 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	MARRESEARCH				SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-BM	0.97934	APS	19-BM

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	2.16	59.549	97.8	0.079	42.8	5.5	13349	13349			44.08847

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	2.17	2.25	82.1	82.1	0.537	0.537	4.1	4.3	1099

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	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	MOLECULAR REPLACEMENT	THROUGHOUT	PDB Entry 2F7B	2.162	59.549	12611	12611	657	97.991	0.185	0.185	0.1823	0.19	0.242	0.25	Random	38.375

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]
-0.597			1.703		-1.106

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.658
r_dihedral_angle_4_deg	21.112
r_dihedral_angle_other_3_deg	16.934
r_dihedral_angle_3_deg	12.13
r_dihedral_angle_1_deg	5.663
r_scangle_it	3.447
r_scbond_it	2.65
r_scangle_other	1.365
r_mcangle_it	1.281
r_angle_refined_deg	1.159
r_scbond_other	0.907
r_mcbond_it	0.845
r_angle_other_deg	0.751
r_mcangle_other	0.551
r_symmetry_vdw_refined	0.249
r_symmetry_vdw_other	0.221
r_nbd_refined	0.185
r_nbd_other	0.17
r_nbtor_refined	0.168
r_symmetry_hbond_refined	0.147
r_xyhbond_nbd_refined	0.144
r_mcbond_other	0.089
r_nbtor_other	0.081
r_chiral_restr	0.063
r_bond_refined_d	0.008
r_gen_planes_refined	0.003
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1700
Nucleic Acid Atoms
Solvent Atoms	202
Heterogen Atoms	15

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
MOLREP	phasing