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139555
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
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Structure Summary
3D View
Annotations
Sequence
Sequence Similarity
Structure Similarity
Experiment
4HF5
Crystal structure of Fab 8F8 in complex a H2N2 influenza virus hemagglutinin
Display Files
FASTA Sequence
PDB File
PDB File (Header)
mmCIF File
mmCIF File (Header)
PDBML/XML File
PDBML/XML File (Header)
Download Files
FASTA Sequence
PDB File (Text)
PDB File (gz)
PDBx/mmCIF File
PDBx/mmCIF File (gz)
PDBML/XML File
PDBML/XML File (gz)
Structure Factor (Text)
Structure Factor (gz)
Biological Assembly (gz) (A)
X-RAY DIFFRACTION Experimental Data & Validation
X-ray Experimental Help
Crystallization
Crystalization Experiments
Method
Vapor Diffusion Sitting Drop
pH
8.5
Temperature
295.7
Details
11% PEG4000, 0.1 M Tris, pH 8.5 and 0.1 M MgCl2, vapor diffusion, sitting drop, temperature 295.7K
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 136.62
α = 90
b = 136.62
β = 90
c = 142.13
γ = 120
Symmetry
Space Group
P 3 2 1
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
100
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
CCD
MARMOSAIC 300 mm CCD
--
2011-03-23
Diffraction Radiation
Monochromator
Protocol
--
SINGLE WAVELENGTH
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
APS BEAMLINE 23-ID-B
1.0332
APS
23-ID-B
Data Collection
Overall
Resolution (High)
Resolution (Low)
Percent Possible (Observed)
R Merge I (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
3
50
94.7
0.097
--
--
3.9
--
29412
--
--
--
High Resolution Shell
Resolution (High)
Resolution (Low)
Percent Possible (All)
R Merge I (Observed)
R-Sym I (Observed)
Mean I Over Sigma (Observed)
Redundancy
Number Unique Reflections (All)
3.0
3.11
64.8
0.589
--
--
3.2
1988
Refinement
Statistics
Structure Solution Method
Refinement High Resolution
Refinement Low Resolution
Cut-off Sigma (I)
Cut-off Sigma (F)
Number of Reflections (All)
Number of Reflections (Observed)
Number of Reflections (R-Free)
Percent Reflections (Observed)
R-Factor (All)
R-Factor (Observed)
R-Work
R-Free
R-Free Selection Details
MOLECULAR REPLACEMENT
3.004
44.718
--
0.0
--
27264
1395
87.78
--
0.2318
0.229
0.2822
--
High Resolution Shell
Refinement method
Shell Resolution (High)
Shell Resolution (Low)
# of Reflections (Observed)
# of Reflections (R-Free)
# of Reflections (R-Work)
R-Factor (R-Work)
R-Factor (R-Free)
R-Factor (R-Free Error)
Percent Reflections (Observed)
X Ray Diffraction
3.0044
3.1117
--
62
1476
0.368
0.3948
--
50.0
X Ray Diffraction
3.1117
3.2363
--
110
2082
0.3397
0.3997
--
72.0
X Ray Diffraction
3.2363
3.3835
--
125
2406
0.2984
0.3678
--
82.0
X Ray Diffraction
3.3835
3.5618
--
143
2566
0.2795
0.3449
--
89.0
X Ray Diffraction
3.5618
3.7849
--
149
2736
0.2498
0.3221
--
94.0
X Ray Diffraction
3.7849
4.077
--
156
2789
0.2157
0.2517
--
96.0
X Ray Diffraction
4.077
4.4869
--
169
2851
0.1857
0.2314
--
97.0
X Ray Diffraction
4.4869
5.1353
--
180
2902
0.1847
0.2585
--
98.0
X Ray Diffraction
5.1353
6.4669
--
146
2963
0.211
0.288
--
99.0
X Ray Diffraction
6.4669
44.7227
--
155
3098
0.2297
0.2656
--
99.0
Temperature Factor Modeling
Temperature Factor
Value
Mean Isotropic B
98.2333
Anisotropic B[1][1]
6.5736
Anisotropic B[1][2]
0.0
Anisotropic B[1][3]
0.0
Anisotropic B[2][2]
6.5736
Anisotropic B[2][3]
0.0
Anisotropic B[3][3]
-13.1472
RMS Deviations
Key
Refinement Restraint Deviation
f_bond_d
0.008
f_angle_d
1.229
f_chiral_restr
0.076
f_dihedral_angle_d
22.077
f_plane_restr
0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
6561
Nucleic Acid Atoms
0
Heterogen Atoms
78
Solvent Atoms
0
Software
Software
Software Name
Purpose
DENZO
data reduction
SCALEPACK
data scaling
PHASER
phasing
PHENIX
refinement version: 1.7_650
PDB_EXTRACT
data extraction version: 3.11