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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | The structure of the Clostridium thermocellum AdhE spirosome | |||||||||
![]() | Map of the AdhE spirosome | |||||||||
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![]() | Aldehyde-alcohol dehydrogenase / Complex / Spirosome / OXIDOREDUCTASE | |||||||||
Function / homology | ![]() methylglyoxal reductase (NADPH) (acetol producing) activity / butanol dehydrogenase (NAD+) activity / acetaldehyde dehydrogenase (acetylating) activity / alcohol metabolic process / alcohol dehydrogenase (NADP+) activity / carbon utilization / metal ion binding / cytosol Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.28 Å | |||||||||
![]() | Ziegler SJ / Gruber JN | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates Authors: Ziegler S / Knott B / Gruber J / Hengge N / Xu Q / Olson D / Romero E / Joubert L / Bomble Y | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 249.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 16.2 KB 16.2 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 14.7 KB | Display | ![]() |
Images | ![]() | 74.1 KB | ||
Masks | ![]() | 266.8 MB | ![]() | |
Filedesc metadata | ![]() | 6.3 KB | ||
Others | ![]() ![]() | 212.7 MB 213.1 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8uhwMC 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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Related items in Molecule of the Month |
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Map
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Annotation | Map of the AdhE spirosome | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.82 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
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-Half map: Half map 1
File | emd_42284_half_map_1.map | ||||||||||||
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Annotation | Half map 1 | ||||||||||||
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Density Histograms |
-Half map: Half map 2
File | emd_42284_half_map_2.map | ||||||||||||
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Annotation | Half map 2 | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Homo-oligomer complex of AdhE
Entire | Name: Homo-oligomer complex of AdhE |
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Components |
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-Supramolecule #1: Homo-oligomer complex of AdhE
Supramolecule | Name: Homo-oligomer complex of AdhE / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: Aldehyde-alcohol dehydrogenase
Macromolecule | Name: Aldehyde-alcohol dehydrogenase / type: protein_or_peptide / ID: 1 / Number of copies: 6 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 97.93868 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MHHHHHHENL YFQGMTKIAN KYEVIDNVEK LEKALKRLRE AQSVYATYTQ EQVDKIFFEA AMAANKMRIP LAKMAVEETG MGVVEDKVI KNHYASEYIY NAYKNTKTCG VIEEDPAFGI KKIAEPLGVI AAVIPTTNPT STAIFKTLIA LKTRNAIIIS P HPRAKNST ...String: MHHHHHHENL YFQGMTKIAN KYEVIDNVEK LEKALKRLRE AQSVYATYTQ EQVDKIFFEA AMAANKMRIP LAKMAVEETG MGVVEDKVI KNHYASEYIY NAYKNTKTCG VIEEDPAFGI KKIAEPLGVI AAVIPTTNPT STAIFKTLIA LKTRNAIIIS P HPRAKNST IEAAKIVLEA AVKAGAPEGI IGWIDVPSLE LTNLVMREAD VILATGGPGL VKAAYSSGKP AIGVGAGNTP AI IDDSADI VLAVNSIIHS KTFDNGMICA SEQSVIVLDG VYKEVKKEFE KRGCYFLNED ETEKVRKTII INGALNAKIV GQK AHTIAN LAGFEVPETT KILIGEVTSV DISEEFAHEK LCPVLAMYRA KDFDDALDKA ERLVADGGFG HTSSLYIDTV TQKE KLQKF SERMKTCRIL VNTPSSQGGI GDLYNFKLAP SLTLGCGSWG GNSVSDNVGV KHLLNIKTVA ERRENMLWFR TPEKI YIKR GCLPVALDEL KNVMGKKKAF IVTDNFLYNN GYTKPITDKL DEMGIVHKTF FDVSPDPSLA SAKAGAAEML AFQPDT IIA VGGGSAMDAA KIMWVMYEHP EVDFMDMAMR FMDIRKRVYT FPKMGQKAYF IAIPTSAGTG SEVTPFAVIT DEKTGIK YP LADYELLPDM AIVDADMMMN APKGLTAASG IDALTHALEA YVSMLATDYT DSLALRAIKM IFEYLPRAYE NGASDPVA R EKMANAATIA GMAFANAFLG VCHSMAHKLG AFYHLPHGVA NALMINEVIR FNSSEAPTKM GTFPQYDHPR TLERYAEIA DYIGLKGKNN EEKVENLIKA IDELKEKVGI RKTIKDYDID EKEFLDRLDE MVEQAFDDQC TGTNPRYPLM NEIRQMYLNA YYGGAKK UniProtKB: Aldehyde-alcohol dehydrogenase |
-Macromolecule #2: FE (III) ION
Macromolecule | Name: FE (III) ION / type: ligand / ID: 2 / Number of copies: 5 / Formula: FE |
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Molecular weight | Theoretical: 55.845 Da |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 0.4 mg/mL | |||||||||
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Buffer | pH: 7.5 Component:
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Grid | Model: C-flat-1.2/1.3 / Material: COPPER / Mesh: 400 / Support film - Material: CARBON / Support film - topology: HOLEY / Support film - Film thickness: 20 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 10 sec. | |||||||||
Vitrification | Cryogen name: ETHANE / Instrument: GATAN CRYOPLUNGE 3 |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.5 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
-Atomic model buiding 1
Refinement | Protocol: RIGID BODY FIT |
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Output model | ![]() PDB-8uhw: |