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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
1MNQ
Thioesterase Domain of Picromycin Polyketide Synthase (PICS TE), pH 8.4
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
8.4
Temperature
298.0
Details
30% PEG 4000, 100 mM Tris, 2 mM DTT, 100 mM lithium sulfate, pH 8.4, VAPOR DIFFUSION, SITTING DROP at 298K
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 59.02
α = 90
b = 106.22
β = 90
c = 114.36
γ = 90
Symmetry
Space Group
P 21 21 21
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
190
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
CCD
ADSC QUANTUM 4
double crystals
2001-11-23
Diffraction Radiation
Monochromator
Protocol
double crystals
SINGLE WAVELENGTH
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
SSRL BEAMLINE BL9-2
1.000
SSRL
BL9-2
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
2.2
30
100.0
0.103
--
--
13.8
--
35346
--
1.0
--
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)
2.2
2.24
100.0
0.648
--
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
2.2
30.0
--
0.0
35344
35344
1858
99.92
0.221
0.22115
0.21966
0.24834
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
2.2
2.257
--
125
2570
0.255
0.287
--
--
Temperature Factor Modeling
Temperature Factor
Value
Mean Isotropic B
18.323
Anisotropic B[1][1]
0.83
Anisotropic B[1][2]
0.0
Anisotropic B[1][3]
0.0
Anisotropic B[2][2]
-0.95
Anisotropic B[2][3]
0.0
Anisotropic B[3][3]
0.11
RMS Deviations
Key
Refinement Restraint Deviation
r_dihedral_angle_1_deg
3.881
r_scbond_it
2.829
r_xyhbond_nbd_refined
0.289
p_angle_d
1.741
r_symmetry_hbond_refined
0.214
r_nbd_refined
0.322
r_dihedral_angle_3_deg
21.812
r_scangle_it
4.455
r_gen_planes_refined
0.007
r_mcbond_it
0.845
r_mcangle_it
1.524
r_bond_refined_d
0.017
r_chiral_restr
0.128
r_symmetry_vdw_refined
0.292
p_bond_d
0.017
p_angle_deg
1.741
r_angle_refined_deg
1.741
Coordinate Error
Parameter
Value
Luzzati ESD (Observed)
0.34
Luzzati Sigma A (Observed)
0.3
Luzzati Resolution Cutoff (Low)
5.0
Luzzati ESD (R-Free Set)
0.36
Luzzati Sigma A (R-Free Set)
0.37
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
4183
Nucleic Acid Atoms
0
Heterogen Atoms
0
Solvent Atoms
340
Software
Software
Software Name
Purpose
DENZO
data reduction
SCALEPACK
data scaling
CNS
refinement
REFMAC
refinement version: 5.0
CNS
phasing