1XA5 | pdb_00001xa5

Structure of Calmodulin in complex with KAR-2, a bis-indol alkaloid

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1LIN	C-terminal domain of pdb entry 1lin truncated to poly-ALA

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.7	279	CaCl2, MgCl2, cacodylate, PEG 8000, pH 4.7, VAPOR DIFFUSION, HANGING DROP, temperature 279K

Crystal Properties
Matthews coefficient	Solvent content
2.25	44.79

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 37.573	α = 90
b = 37.573	β = 90
c = 356.662	γ = 120

Symmetry
Space Group	P 61 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	Triangular monochromator, Bent mirror	2003-02-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	EMBL/DESY, HAMBURG BEAMLINE X11	0.813	EMBL/DESY, HAMBURG	X11

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	2.12	20	98.7	0.077	23.39	13.5	9429	9429		-3	33.408

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	2.12	2.2	88.7		0.306	8	9.38	858

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	C-terminal domain of pdb entry 1lin truncated to poly-ALA	2.12	20	8981	8981	448	99.15	0.21992	0.21992	0.2179	0.22	0.26105	0.27	RANDOM	17.023

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]
0.26	0.13		0.26		-0.4

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	6.018
r_mcangle_it	1.778
r_scangle_it	1.719
r_angle_refined_deg	1.232
r_scbond_it	1.115
r_mcbond_it	1.067
r_angle_other_deg	0.552
r_symmetry_hbond_refined	0.339
r_nbd_other	0.266
r_symmetry_vdw_other	0.252
r_nbd_refined	0.247
r_symmetry_vdw_refined	0.225
r_xyhbond_nbd_refined	0.207
r_metal_ion_refined	0.134
r_chiral_restr	0.106
r_nbtor_other	0.088
r_bond_refined_d	0.005
r_gen_planes_refined	0.002
r_bond_other_d
r_gen_planes_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1093
Nucleic Acid Atoms
Solvent Atoms	53
Heterogen Atoms	63

Software

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