5XHV | pdb_00005xhv

Crystal Structure Of Fab S40 In Complex With Influenza Hemagglutinin, HA1 subunit.

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3W9D	3W9D, 3HC4, 3GBN
experimental model	PDB	3HC4	3W9D, 3HC4, 3GBN
experimental model	PDB	3GBN	3W9D, 3HC4, 3GBN

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	8%(w/v) PEG 6000, 1N NaOH, 15% MPD, 0.1 M Na HEPES pH 7.5

Crystal Properties
Matthews coefficient	Solvent content
4.97	75.24

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 200.395	α = 90
b = 133.64	β = 110.47
c = 133.136	γ = 90

Symmetry
Space Group	C 1 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	94	CCD	RAYONIX MX-225		2016-04-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL44XU	0.9	SPring-8	BL44XU

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	3.35	25	99.6	0.096	17.3	4.6		34636

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	3.35	3.47	100		0.645	2.4	4.7

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	3W9D, 3HC4, 3GBN	3.35	25	34487	1826	76.64	0.23227	0.22987	0.23	0.27452	0.27	RANDOM	173.528

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]
-5.81		-3.04	22.97		-11.64

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.414
r_long_range_B_refined	23.722
r_long_range_B_other	23.722
r_dihedral_angle_4_deg	18.69
r_dihedral_angle_3_deg	18.072
r_mcangle_other	17.953
r_mcangle_it	17.949
r_scangle_other	16.976
r_mcbond_it	11.602
r_mcbond_other	11.577
r_scbond_it	10.678
r_scbond_other	10.678
r_dihedral_angle_1_deg	8.561
r_angle_refined_deg	1.494
r_angle_other_deg	0.977
r_chiral_restr	0.079
r_bond_refined_d	0.01
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.002
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	11100
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data processing
HKL-2000	data scaling
MOLREP	phasing