1A6A | pdb_00001a6a

THE STRUCTURE OF AN INTERMEDIATE IN CLASS II MHC MATURATION: CLIP BOUND TO HLA-DR3

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1DLH	PDB ENTRY 1DLH

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		4.5		12% PEG 4K, 100 MM MGCL2, 100 MM ACETATE BUFFER, PH 4.5

Crystal Properties
Matthews coefficient	Solvent content
2.7	52

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 78.45	α = 90
b = 78.45	β = 90
c = 159.1	γ = 120

Symmetry
Space Group	P 32 1 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	IMAGE PLATE	FUJI	MIRRORS	1994-07-24	M

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CHESS BEAMLINE F1		CHESS	F1

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	2.75	15	96.9	0.071	6.7	3.2		14428		-3	30.8

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	2.75	3	97.2		0.314	2.3	3

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	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	PDB ENTRY 1DLH	2.75	6	13095	1323	97.9	0.246	0.246	0.24	0.325	0.31	RANDOM	47.6

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]
-10	-10		-10		10

RMS Deviations
Key	Refinement Restraint Deviation
x_dihedral_angle_d	24.6
x_scangle_it	9.35
x_mcangle_it	5.98
x_scbond_it	5.52
x_mcbond_it	3.53
x_angle_deg	1.6
x_improper_angle_d	1.31
x_bond_d	0.015
x_bond_d_na
x_bond_d_prot
x_angle_d
x_angle_d_na
x_angle_d_prot
x_angle_deg_na
x_angle_deg_prot
x_dihedral_angle_d_na
x_dihedral_angle_d_prot
x_improper_angle_d_na
x_improper_angle_d_prot

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3108
Nucleic Acid Atoms
Solvent Atoms	22
Heterogen Atoms	28

Software

Software
Software Name	Purpose
DENZO	data reduction
ROTAVATA/AGROVATA	data reduction
AMoRE	phasing
X-PLOR	refinement
CCP4	data scaling
ROTAVATA	data scaling