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- EMDB-40671: Cryo-EM structure of Enoyl-CoA hydratase from Mycobacterium smegmatis -
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Open data
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Basic information
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Title | Cryo-EM structure of Enoyl-CoA hydratase from Mycobacterium smegmatis | |||||||||
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![]() | Structural Genomics / Seattle Structural Genomics Center for Infectious Disease / SSGCID / Lyase / HYDROLASE | |||||||||
Function / homology | Delta(3,5)-Delta(2,4)-dienoyl-CoA isomerase Ech1-like / enoyl-CoA hydratase / Enoyl-CoA hydratase, C-terminal / Enoyl-CoA hydratase/isomerase / Enoyl-CoA hydratase/isomerase / fatty acid beta-oxidation / ClpP/crotonase-like domain superfamily / lyase activity / Enoyl-CoA hydratase EchA21![]() | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.85 Å | |||||||||
![]() | Shek R / Quispe J / Staker B / Seattle Structural Genomics Center for Infectious Disease (SSGCID) | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Cryo-EM structure of Enoyl-CoA hydratase from Mycobacterium smegmatis Authors: Shek R / Quispe J / Staker B / Phan IQ / Barrett LQ / Van Voorhis WC | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 9.5 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 15 KB 15 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 9.8 KB | Display | ![]() |
Images | ![]() | 33.6 KB | ||
Filedesc metadata | ![]() | 5.6 KB | ||
Others | ![]() ![]() | 74.3 MB 74.3 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 695 KB | Display | ![]() |
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Full document | ![]() | 694.6 KB | Display | |
Data in XML | ![]() | 17.2 KB | Display | |
Data in CIF | ![]() | 22.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8soyMC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.86 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_40671_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_40671_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Enoyl-CoA Hydratase hexamer
Entire | Name: Enoyl-CoA Hydratase hexamer |
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Components |
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-Supramolecule #1: Enoyl-CoA Hydratase hexamer
Supramolecule | Name: Enoyl-CoA Hydratase hexamer / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: Enoyl-CoA hydratase EchA21
Macromolecule | Name: Enoyl-CoA hydratase EchA21 / type: protein_or_peptide / ID: 1 / Number of copies: 6 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 26.379848 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: YESVTVEVKD HVAQVTLIGP GKGNAMGPAF WEEMPDVFGT LDDDPDVRAI VLTGSGKNFS YGLDLPAMGA SLPALDAGAK SRSDFHKRL QKMQGAITAV ADCRTPTIAS VHGWCIGGGV DLISAVDIRY ASADAKFSVR EVKLAIVADV GSLARLPLIL S DGHLRELA ...String: YESVTVEVKD HVAQVTLIGP GKGNAMGPAF WEEMPDVFGT LDDDPDVRAI VLTGSGKNFS YGLDLPAMGA SLPALDAGAK SRSDFHKRL QKMQGAITAV ADCRTPTIAS VHGWCIGGGV DLISAVDIRY ASADAKFSVR EVKLAIVADV GSLARLPLIL S DGHLRELA LTGKDIDAAR AEKIGLVNDV YDDAEASLAA AHATAAEIAA NPPLTVAGVK DVLDAQRTAQ VAESLRYVAA WN SAFLPSK DLAEA UniProtKB: Enoyl-CoA hydratase EchA21 |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 2 mg/mL |
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Buffer | pH: 7 |
Grid | Model: C-flat-2/2 / Material: COPPER / Mesh: 300 / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 296 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | TFS KRIOS |
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Specialist optics | Energy filter - Name: GIF Bioquantum / Energy filter - Slit width: 20 eV |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 50.6 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.8 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
-Atomic model buiding 1
Initial model | Chain - Source name: AlphaFold / Chain - Initial model type: in silico model |
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Refinement | Space: REAL / Protocol: AB INITIO MODEL |
Output model | ![]() PDB-8soy: |