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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
1HFO
The Structure of the Macrophage Migration Inhibitory Factor from Trichinella Spiralis.
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 1 (gz) (S)
Biological Assembly 2 (gz) (S)
X-RAY DIFFRACTION Experimental Data & Validation
X-ray Experimental Help
Crystallization
Crystalization Experiments
pH
4.6
Details
CRYSTALS GROWN BY HANGING DROP METHOD. WELL CONTAINED 400-600 AMMONIUM ACETATE, 30-36% PEG4K, 100MM SODIUM ACETATE PH4.6. DROP CONTAINED 1:1 MIX OF WELL AND 16.5MG/ML TSMIF IN MINIMAL BUFFER., pH 4.60
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 110.13
α = 90
b = 88.34
β = 131.13
c = 86.36
γ = 90
Symmetry
Space Group
C 1 2 1
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
100
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
CCD
MARRESEARCH
--
1999-11-15
Diffraction Radiation
Monochromator
Protocol
--
SINGLE WAVELENGTH
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
ESRF BEAMLINE ID14-3
--
ESRF
ID14-3
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
1.65
28
97.6
--
0.057
--
2.3
--
72915
--
--
26.9
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)
1.65
1.71
97.6
--
0.281
2.5
2.2
--
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
1.65
28.33
--
0.0
--
72854
3687
97.4
--
0.225
0.225
0.281
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
1.65
1.75
--
607
11346
0.31
0.344
0.014
96.3
Temperature Factor Modeling
Temperature Factor
Value
Isotropic Thermal Model
RESTRAINED
Mean Isotropic B
31.3
Anisotropic B[1][1]
-3.19
Anisotropic B[1][2]
0.0
Anisotropic B[1][3]
-1.43
Anisotropic B[2][2]
0.37
Anisotropic B[2][3]
0.0
Anisotropic B[3][3]
2.82
RMS Deviations
Key
Refinement Restraint Deviation
c_mcbond_it
2.12
c_improper_angle_d
0.78
c_scangle_it
5.1
c_dihedral_angle_d
24.9
c_mcangle_it
2.74
c_bond_d
0.008
c_angle_deg
1.4
c_scbond_it
3.79
Coordinate Error
Parameter
Value
Luzzati ESD (Observed)
0.24
Luzzati Sigma A (Observed)
0.21
Luzzati Resolution Cutoff (Low)
5.0
Luzzati ESD (R-Free Set)
0.3
Luzzati Sigma A (R-Free Set)
0.26
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
5134
Nucleic Acid Atoms
0
Heterogen Atoms
0
Solvent Atoms
1032
Software
Software
Software Name
Purpose
CNS
refinement version: 1.0
MOSFLM
data reduction
SCALA
data scaling
AMoRE
phasing