6QZA

HLA-DR1 with GMF Influenza PB1 Peptide

X-RAY DIFFRACTION

---

Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	6	291	Seeded with DR1-QAR crystals. 0.2M LiCl, 20% PEG 6K, 0.1M MES

Crystal Properties
Matthews coefficient	Solvent content
4.67	73.69

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 184.017	α = 90
b = 184.017	β = 90
c = 87.285	γ = 120

Symmetry
Space Group	P 32 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS3 S 6M		2017-07-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.97265	Diamond	I03

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	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	3.086	92.02	100	0.191	0.201	0.06	10.3	11		31506

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3.086	3.17	100		3.078	3.231	0.979		10.9

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1DLH	3.09	92.008	31427	1532	99.557	0.185	0.1834	0.2259	81.326

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]
-0.148	-0.074		-0.148		0.48

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.735
r_dihedral_angle_3_deg	20.243
r_dihedral_angle_4_deg	17.646
r_dihedral_angle_1_deg	7.725
r_lrange_it	6.25
r_scangle_it	3.963
r_mcangle_it	2.932
r_scbond_it	2.384
r_mcbond_it	1.697
r_angle_refined_deg	1.681
r_nbtor_refined	0.322
r_symmetry_xyhbond_nbd_refined	0.265
r_symmetry_nbd_refined	0.242
r_nbd_refined	0.238
r_ncsr_local_group_3	0.171
r_xyhbond_nbd_refined	0.137
r_ncsr_local_group_1	0.131
r_chiral_restr	0.121
r_ncsr_local_group_2	0.114
r_bond_refined_d	0.008
r_gen_planes_refined	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6148
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
XDS	data scaling
Aimless	data scaling
PHASER	phasing