1ZJK

Crystal structure of the zymogen catalytic region of human MASP-2

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1Q3X	SP domain of PDB ENTRY 1Q3X

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	293	PEG 6000, sodium chloride, TRIS/HCl buffer, pH 8.0, temperature 293K, VAPOR DIFFUSION, HANGING DROP

Crystal Properties
Matthews coefficient	Solvent content
2.2	43.3

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 47.665	α = 90
b = 72.689	β = 90
c = 110.989	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	ADSC QUANTUM 4	toroidal focusing mirror	2003-03-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.9392	ESRF	ID14-4

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	2.18	28.9	88.1	0.099	15.13	8.3	18330	18330		-3

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	2.18	2.25	43.1		0.575	1.9	1.9	800

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	SP domain of PDB ENTRY 1Q3X	2.18	28.9	17391	17391	938	88.18	0.20733	0.20733	0.20491	0.25285	RANDOM	25.915

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]
-0.27			-2.56		2.83

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	5.19
r_mcangle_it	2.135
r_scangle_it	1.491
r_mcbond_it	1.29
r_scbond_it	0.988
r_angle_refined_deg	0.875
r_angle_other_deg	0.639
r_symmetry_vdw_other	0.269
r_nbd_other	0.239
r_xyhbond_nbd_refined	0.228
r_nbd_refined	0.201
r_symmetry_vdw_refined	0.168
r_symmetry_hbond_refined	0.144
r_nbtor_other	0.119
r_chiral_restr	0.056
r_bond_refined_d	0.005
r_gen_planes_refined	0.002
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2909
Nucleic Acid Atoms
Solvent Atoms	84
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing