+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-26352 | |||||||||
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Title | Cryo-EM Structure of ALDOA | |||||||||
Map data | ||||||||||
Sample |
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Keywords | ALDOA / fructose-bisphosphate aldolase / aldolase / LYASE | |||||||||
Function / homology | Fructose-bisphosphate aldolase class-I active site / Fructose-bisphosphate aldolase class-I active site. / Fructose-bisphosphate aldolase, class-I / Fructose-bisphosphate aldolase class-I / fructose-bisphosphate aldolase / fructose-bisphosphate aldolase activity / glycolytic process / Aldolase-type TIM barrel / Fructose-bisphosphate aldolase Function and homology information | |||||||||
Biological species | Bos taurus (cattle) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.96 Å | |||||||||
Authors | Morgan CE / Zhang Z / Yu EW | |||||||||
Funding support | United States, 1 items
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Citation | Journal: Cell Rep / Year: 2022 Title: Toward structural-omics of the bovine retinal pigment epithelium. Authors: Christopher E Morgan / Zhemin Zhang / Masaru Miyagi / Marcin Golczak / Edward W Yu / Abstract: The use of an integrated systems biology approach to investigate tissues and organs has been thought to be impracticable in the field of structural biology, where the techniques mainly focus on ...The use of an integrated systems biology approach to investigate tissues and organs has been thought to be impracticable in the field of structural biology, where the techniques mainly focus on determining the structure of a particular biomacromolecule of interest. Here, we report the use of cryoelectron microscopy (cryo-EM) to define the composition of a raw bovine retinal pigment epithelium (RPE) lysate. From this sample, we simultaneously identify and solve cryo-EM structures of seven different RPE enzymes whose functions affect neurotransmitter recycling, iron metabolism, gluconeogenesis, glycolysis, axonal development, and energy homeostasis. Interestingly, dysfunction of these important proteins has been directly linked to several neurodegenerative disorders, including Huntington's disease, amyotrophic lateral sclerosis (ALS), Parkinson's disease, Alzheimer's disease, and schizophrenia. Our work underscores the importance of cryo-EM in facilitating tissue and organ proteomics at the atomic level. | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_26352.map.gz | 4.2 MB | EMDB map data format | |
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Header (meta data) | emd-26352-v30.xml emd-26352.xml | 15.3 KB 15.3 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_26352_fsc.xml | 8.4 KB | Display | FSC data file |
Images | emd_26352.png | 155.1 KB | ||
Filedesc metadata | emd-26352.cif.gz | 5 KB | ||
Others | emd_26352_additional_1.map.gz emd_26352_half_map_1.map.gz emd_26352_half_map_2.map.gz | 32.1 MB 59.1 MB 59.1 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-26352 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-26352 | HTTPS FTP |
-Validation report
Summary document | emd_26352_validation.pdf.gz | 841.2 KB | Display | EMDB validaton report |
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Full document | emd_26352_full_validation.pdf.gz | 840.8 KB | Display | |
Data in XML | emd_26352_validation.xml.gz | 16.4 KB | Display | |
Data in CIF | emd_26352_validation.cif.gz | 21.2 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-26352 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-26352 | HTTPS FTP |
-Related structure data
Related structure data | 7u5jMC 7u5hC 7u5iC 7u5kC 7u5lC 7u5mC 7u5nC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_26352.map.gz / Format: CCP4 / Size: 64 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 1.07 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Additional map: #1
File | emd_26352_additional_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_26352_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_26352_half_map_2.map | ||||||||||||
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Density Histograms |
-Sample components
-Entire : Tetramer of aldolase
Entire | Name: Tetramer of aldolase |
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Components |
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-Supramolecule #1: Tetramer of aldolase
Supramolecule | Name: Tetramer of aldolase / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Bos taurus (cattle) |
-Macromolecule #1: Fructose-bisphosphate aldolase
Macromolecule | Name: Fructose-bisphosphate aldolase / type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO / EC number: fructose-bisphosphate aldolase |
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Source (natural) | Organism: Bos taurus (cattle) |
Molecular weight | Theoretical: 39.488105 KDa |
Sequence | String: MPHQYPALTP EQKKELCDIA HRIVAPGKGI LAADESTGSI AKRLQSIGTE NTEENRRFYR QLLLTADDRV NPCIGGVILF HETLYQKAD DGRPFPQVIK AKGGVVGIKV DKGVVPLAGT NGETTTQGLD GLSERCAQYK KDGADFAKWR CVLKIGEHTP S SLAIMENA ...String: MPHQYPALTP EQKKELCDIA HRIVAPGKGI LAADESTGSI AKRLQSIGTE NTEENRRFYR QLLLTADDRV NPCIGGVILF HETLYQKAD DGRPFPQVIK AKGGVVGIKV DKGVVPLAGT NGETTTQGLD GLSERCAQYK KDGADFAKWR CVLKIGEHTP S SLAIMENA NVLARYASIC QQNGIVPIVE PEILPDGDHD LKRCQYVTEK VLAAVYKALS DHHIYLEGTL LKPNMVTPGH AC TQKYSHE EIAMATVTAL RRTVPPAVPG ITFLSGGQSE EEASINLNAI NKCPLLKPWA LTFSYGRALQ ASALKAWGGK KEN LKAAQE EYVKRALANS LACQGKYTPS GKAGAAASES LFISNHAY UniProtKB: Fructose-bisphosphate aldolase |
-Macromolecule #2: water
Macromolecule | Name: water / type: ligand / ID: 2 / Number of copies: 284 / Formula: HOH |
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Molecular weight | Theoretical: 18.015 Da |
Chemical component information | ChemComp-HOH: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | TFS KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 36.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |