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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
1LL1
HYDROXO BRIDGE MET FORM HEMOCYANIN FROM LIMULUS
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
pH
6.8
Details
PROTEIN WAS CRYSTALLIZED FROM 4-6% PEG 3350, 0.2M BIS-TRIS, 0.5M NACL, 5MM H2O2. PH IN THE DROP NEAR 6.8.
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 116.61
α = 90
b = 116.61
β = 90
c = 285.61
γ = 120
Symmetry
Space Group
H 3 2
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
287
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
AREA DETECTOR
XUONG-HAMLIN MULTIWIRE
COLLIMATOR
1996-09
Diffraction Radiation
Monochromator
Protocol
GRAPHITE(002)
--
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
ROTATING ANODE
RIGAKU RUH2R
--
--
--
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
2.5
58.3
87.6
0.08
0.08
--
3.9
--
22669
--
1.0
34.3
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)
2.5
2.6
39.4
0.188
0.188
3.9
1.5
--
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
2.55
60.0
--
2.0
--
21960
2276
88.6
--
0.167
0.167
0.23
RANDOM
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
2.55
2.67
--
156
1241
0.248
0.279
0.04
45.6
Temperature Factor Modeling
Temperature Factor
Value
Isotropic Thermal Model
RESTRAINED
Mean Isotropic B
29.8
Anisotropic B[1][1]
17.434
Anisotropic B[1][2]
7.064
Anisotropic B[1][3]
0.0
Anisotropic B[2][2]
17.434
Anisotropic B[2][3]
0.0
Anisotropic B[3][3]
17.24
RMS Deviations
Key
Refinement Restraint Deviation
x_angle_deg
1.6
x_mcbond_it
2.76
x_scangle_it
6.195
x_bond_d
0.006
x_improper_angle_d
1.0
x_dihedral_angle_d
23.1
x_mcangle_it
4.242
x_scbond_it
4.297
Coordinate Error
Parameter
Value
Luzzati ESD (Observed)
0.25
Luzzati Sigma A (Observed)
0.28
Luzzati Resolution Cutoff (Low)
5.0
Luzzati ESD (R-Free Set)
0.33
Luzzati Sigma A (R-Free Set)
0.35
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
4763
Nucleic Acid Atoms
0
Heterogen Atoms
4
Solvent Atoms
135
Software
Software
Software Name
Purpose
UCSD
data collection
SCALA
data scaling version: IN CCP4
X-PLOR
model building version: 3.851
X-PLOR
refinement version: 3.851
UCSD
data reduction
CCP4
data scaling version: (SCALA)
X-PLOR
phasing version: 3.851