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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
4EU6
Succinyl-CoA:acetate CoA-transferase (AarCH6) in complex with CoA, acetate, and covalent acetylglutamyl anhydride and glutamyl-CoA thioester adducts
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 Hanging Drop
pH
8.2
Temperature
298.0
Details
0.9 M sodium citrate, 0.1 M imidazole, 25 mM 2-mercaptoethanol, and 2 mM acetyl-CoA, pH 8.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Data
Unit Cell
Length (Å)
Angle (°)
a = 67.17
α = 90
b = 110.41
β = 90
c = 119.82
γ = 90
Symmetry
Space Group
P 21 21 21
Diffraction
Diffraction Experiment
ID #
Data Collection Temperature
1
100
Diffraction Detector
Detector
Diffraction Type
Details
Collection Date
CCD
MARMOSAIC 225 mm CCD
--
2011-07-23
Diffraction Radiation
Monochromator
Protocol
C(111)
SINGLE WAVELENGTH
Diffraction Detector Source
Source
Type
Wavelength List
Synchrotron Site
Beamline
SYNCHROTRON
APS BEAMLINE 21-ID-F
0.97872
APS
21-ID-F
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
1.99
50
99.7
0.11
0.11
--
12.7
61848
61848
--
-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)
1.99
2.02
99.1
0.53
0.53
7.2
12.1
3022
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
1.988
34.745
--
0.0
--
61777
3092
99.6
--
0.1666
0.1644
0.2085
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
1.9878
2.0189
2690
141
2549
0.1654
0.2431
--
97.0
X Ray Diffraction
2.0189
2.052
2754
128
2626
0.1719
0.2351
--
99.0
X Ray Diffraction
2.052
2.0873
2755
138
2617
0.1755
0.2218
--
99.0
X Ray Diffraction
2.0873
2.1253
2776
145
2631
0.1688
0.2477
--
99.0
X Ray Diffraction
2.1253
2.1662
2778
130
2648
0.1716
0.2346
--
99.0
X Ray Diffraction
2.1662
2.2104
2738
150
2588
0.169
0.2312
--
99.0
X Ray Diffraction
2.2104
2.2584
2810
141
2669
0.1717
0.222
--
99.0
X Ray Diffraction
2.2584
2.3109
2756
144
2612
0.1713
0.2364
--
100.0
X Ray Diffraction
2.3109
2.3687
2783
138
2645
0.1701
0.2638
--
100.0
X Ray Diffraction
2.3687
2.4328
2776
131
2645
0.1677
0.2104
--
99.0
X Ray Diffraction
2.4328
2.5043
2794
138
2656
0.1638
0.1911
--
100.0
X Ray Diffraction
2.5043
2.5851
2808
152
2656
0.1701
0.2366
--
100.0
X Ray Diffraction
2.5851
2.6775
2792
128
2664
0.1862
0.2288
--
100.0
X Ray Diffraction
2.6775
2.7847
2804
144
2660
0.1837
0.2437
--
100.0
X Ray Diffraction
2.7847
2.9113
2827
141
2686
0.1782
0.2166
--
100.0
X Ray Diffraction
2.9113
3.0647
2829
133
2696
0.1792
0.2192
--
100.0
X Ray Diffraction
3.0647
3.2566
2819
154
2665
0.1671
0.2038
--
100.0
X Ray Diffraction
3.2566
3.5078
2825
129
2696
0.1605
0.1943
--
100.0
X Ray Diffraction
3.5078
3.8604
2839
149
2690
0.1491
0.209
--
100.0
X Ray Diffraction
3.8604
4.4181
2892
141
2751
0.1443
0.1563
--
100.0
X Ray Diffraction
4.4181
5.5626
2894
147
2747
0.1459
0.1819
--
100.0
X Ray Diffraction
5.5626
34.7502
3038
150
2888
0.1675
0.1888
--
100.0
Temperature Factor Modeling
Temperature Factor
Value
Mean Isotropic B
22.8315
Anisotropic B[1][1]
-1.1168
Anisotropic B[1][2]
0.0
Anisotropic B[1][3]
0.0
Anisotropic B[2][2]
4.5971
Anisotropic B[2][3]
0.0
Anisotropic B[3][3]
-3.4803
RMS Deviations
Key
Refinement Restraint Deviation
f_bond_d
0.007
f_plane_restr
0.005
f_angle_d
1.047
f_dihedral_angle_d
15.423
f_chiral_restr
0.069
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Numbers
Protein Atoms
7767
Nucleic Acid Atoms
0
Heterogen Atoms
107
Solvent Atoms
595
Software
Software
Software Name
Purpose
DENZO
data reduction
SCALEPACK
data scaling
PHENIX
refinement version: 1.7.1_743
PDB_EXTRACT
data extraction version: 3.11
HKL-2000
data collection
HKL-2000
data reduction
HKL-2000
data scaling
PHENIX
phasing