2Q1E

Altered dimer interface decreases stability in an amyloidogenic kappa1 Bence Jones protein.

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		Vk1 O18/O8 germline variable light chain domain monomer

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.4	295	Mother Liquor: 15-30% (w/v) PEG 4K, 0.2 M Li2SO4, 0.1 M TRIS pH 7.9-8.9. Protein: 890 micromolar in 10 mM TRIS, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Properties
Matthews coefficient	Solvent content
4.75	74.11

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 176.054	α = 90
b = 176.054	β = 90
c = 176.054	γ = 90

Symmetry
Space Group	P 41 3 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	SBC-3	mirror	2007-02-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-BM	1.0718	APS	19-BM

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	2.55	176	99.3	0.095	82.5	98.7	29819	29819			50.3

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)
	2.55	2.64	93		0.47	9.8	68.3	2094

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	Vk1 O18/O8 germline variable light chain domain monomer	2.55	35.21	29819	29819	529	97.73	0.1662	0.16547	0.20601	RANDOM	18.458

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]

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	42.93
r_dihedral_angle_3_deg	17.465
r_dihedral_angle_4_deg	12.731
r_dihedral_angle_1_deg	8.026
r_scangle_it	3.316
r_scbond_it	2.145
r_angle_refined_deg	1.832
r_angle_other_deg	1.292
r_mcangle_it	1.161
r_mcbond_it	0.829
r_symmetry_vdw_refined	0.344
r_symmetry_vdw_other	0.235
r_nbd_other	0.217
r_nbd_refined	0.205
r_xyhbond_nbd_refined	0.2
r_nbtor_refined	0.188
r_symmetry_hbond_refined	0.178
r_mcbond_other	0.172
r_chiral_restr	0.097
r_nbtor_other	0.095
r_xyhbond_nbd_other	0.055
r_bond_refined_d	0.02
r_gen_planes_refined	0.006
r_gen_planes_other	0.002
r_bond_other_d	0.001
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3490
Nucleic Acid Atoms
Solvent Atoms	443
Heterogen Atoms	5

Software

Software
Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing