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139717
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
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Structure Summary
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Annotations
Sequence
Sequence Similarity
Structure Similarity
Experiment
4FRU
Crystal structure of horse wild-type cyclophilin B
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 Hanging Drop
pH
7.2
Temperature
295.0
Details
0.1M MES, 10mM ZnCl2, 10% glycerol, 28% PEG MME 550, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 295.0K
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 64.88
α = 90
b = 44.07
β = 95.2
c = 60.57
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
NOIR-1
Rosenbaum-Rock monochromator 1: high-resolution double-crystal sagittal focusing, Rosenbaum-Rock monochromator 2: double crystal, Rosenbaum-Rock vertical focusing mirror
2010-08-12
Diffraction Radiation
Monochromator
Protocol
double crystal
SINGLE WAVELENGTH
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
ALS BEAMLINE 4.2.2
0.827
ALS
4.2.2
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
1.1
16.42
90.4
0.078
--
--
3.3
69023
62397
1.0
1.0
4.2
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)
1.1
1.16
53.4
0.272
--
3.9
2.0
--
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
1.1
16.416
--
1.37
69108
62351
3161
90.22
--
0.1167
0.1155
0.1391
--
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
1.1
1.1164
--
56
1248
0.213
0.1861
--
43.0
X Ray Diffraction
1.1164
1.1339
--
81
1449
0.1919
0.1995
--
52.0
X Ray Diffraction
1.1339
1.1524
--
92
1695
0.1764
0.2159
--
59.0
X Ray Diffraction
1.1524
1.1723
--
95
1897
0.1658
0.2102
--
68.0
X Ray Diffraction
1.1723
1.1936
--
104
2212
0.1609
0.1925
--
77.0
X Ray Diffraction
1.1936
1.2166
--
148
2410
0.1455
0.1733
--
86.0
X Ray Diffraction
1.2166
1.2414
--
147
2605
0.1346
0.1912
--
92.0
X Ray Diffraction
1.2414
1.2684
--
163
2781
0.1223
0.1674
--
97.0
X Ray Diffraction
1.2684
1.2979
--
142
2824
0.1072
0.1293
--
100.0
X Ray Diffraction
1.2979
1.3303
--
115
2863
0.0996
0.1353
--
100.0
X Ray Diffraction
1.3303
1.3663
--
147
2871
0.097
0.1294
--
100.0
X Ray Diffraction
1.3663
1.4064
--
179
2815
0.0913
0.1182
--
100.0
X Ray Diffraction
1.4064
1.4518
--
165
2831
0.0881
0.1287
--
100.0
X Ray Diffraction
1.4518
1.5037
--
163
2838
0.0884
0.1099
--
100.0
X Ray Diffraction
1.5037
1.5638
--
169
2846
0.0856
0.1285
--
100.0
X Ray Diffraction
1.5638
1.6349
--
153
2843
0.0874
0.1139
--
100.0
X Ray Diffraction
1.6349
1.7211
--
139
2837
0.0898
0.1072
--
100.0
X Ray Diffraction
1.7211
1.8288
--
169
2857
0.092
0.1072
--
100.0
X Ray Diffraction
1.8288
1.9697
--
151
2873
0.0964
0.1241
--
100.0
X Ray Diffraction
1.9697
2.1676
--
129
2894
0.098
0.1152
--
100.0
X Ray Diffraction
2.1676
2.4803
--
154
2858
0.1085
0.1301
--
100.0
X Ray Diffraction
2.4803
3.1214
--
155
2885
0.1301
0.1545
--
100.0
X Ray Diffraction
3.1214
16.4181
--
145
2958
0.1391
0.1483
--
100.0
RMS Deviations
Key
Refinement Restraint Deviation
f_angle_d
1.301
f_chiral_restr
0.078
f_bond_d
0.007
f_plane_restr
0.006
f_dihedral_angle_d
11.819
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
1429
Nucleic Acid Atoms
0
Heterogen Atoms
17
Solvent Atoms
283
Software
Software
Software Name
Purpose
AMoRE
phasing
PHENIX
refinement version: (phenix.refine: 1.8_1069)
MOSFLM
data reduction
SCALA
data scaling