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139717
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
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Structure Summary
3D View
Annotations
Sequence
Sequence Similarity
Structure Similarity
Experiment
1MEX
Antibody Catalysis of a Bimolecular Cycloaddition Reaction
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+S)
X-RAY DIFFRACTION Experimental Data & Validation
X-ray Experimental Help
Crystallization
Crystalization Experiments
Method
Vapor Diffusion Sitting Drop
pH
7
Temperature
295.5
Details
MPEG2000, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 45.32
α = 90
b = 83.31
β = 90
c = 107.18
γ = 90
Symmetry
Space Group
P 21 21 21
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
84
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
CCD
ADSC QUANTUM 4
single crystal bent
2001-05-06
Diffraction Radiation
Monochromator
Protocol
Si
SINGLE WAVELENGTH
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
SSRL BEAMLINE BL11-1
0.96482
SSRL
BL11-1
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
1.25
20
99.5
--
0.043
--
3.9
112412
112412
--
-3.0
--
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)
1.25
1.28
99.5
--
0.638
1.9
--
7422
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
1.25
10.0
--
0.0
112119
112119
5609
99.5
--
--
0.1532
0.2131
RANDOM
RMS Deviations
Key
Refinement Restraint Deviation
s_similar_dist
0.0
s_non_zero_chiral_vol
0.086
s_from_restr_planes
0.0306
s_anti_bump_dis_restr
0.054
s_approx_iso_adps
0.091
s_similar_adp_cmpnt
0.058
s_bond_d
0.013
s_angle_d
0.034
s_rigid_bond_adp_cmpnt
0.004
s_zero_chiral_vol
0.074
Coordinate Error
Parameter
Value
Number Disordered Residues
12.0
Occupancy Sum Hydrogen
3128.0
Occupancy Sum Non Hydrogen
3842.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
3253
Nucleic Acid Atoms
0
Heterogen Atoms
25
Solvent Atoms
592
Software
Software
Software Name
Purpose
DENZO
data reduction
SCALEPACK
data scaling
AMoRE
phasing
SHELXL-97
refinement