3HJU | pdb_00003hju

Crystal structure of human monoglyceride lipase

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		a partial/incomplete model of PDB entries obtained by other methods

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	under oil		277	35% v/v MPD, 70mM Sodium Cacodylate, pH 4-6, under oil, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
2.48	50.48

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 85.86	α = 90
b = 127.23	β = 90
c = 137.14	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	ADSC QUANTUM 315r		2009-03-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID29	0.976180	ESRF	ID29

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	2.2	43.02	97.9	0.119		4.5		37674

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.2	2.3	86.3	86	0.4	3.86	4.5

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 (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	a partial/incomplete model of PDB entries obtained by other methods	2.2	43.02	37675	35779	1896	97.93	0.19392	0.19207	0.1879	0.22889	0.2257	RANDOM	31.203

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]
0.87			-1.35		0.48

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.037
r_dihedral_angle_3_deg	15.03
r_dihedral_angle_4_deg	13.805
r_dihedral_angle_1_deg	6.066
r_scangle_it	4.774
r_scbond_it	3.179
r_mcangle_it	1.93
r_angle_refined_deg	1.839
r_mcbond_it	1.065
r_chiral_restr	0.117
r_bond_refined_d	0.021
r_gen_planes_refined	0.013

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4516
Nucleic Acid Atoms
Solvent Atoms	177
Heterogen Atoms	12

Software

Software
Software Name	Purpose
REFMAC	refinement
ADSC	data collection
XDS	data reduction
XSCALE	data scaling
PHASER	phasing