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Yorodumi- EMDB-36756: CryoEM structure of the transketolase ANIP from Streptomyces hygr... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-36756 | |||||||||
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Title | CryoEM structure of the transketolase ANIP from Streptomyces hygrospinosus | |||||||||
Map data | ||||||||||
Sample |
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Keywords | transketolase / apo form / TRANSFERASE | |||||||||
Function / homology | 1-deoxy-D-xylulose-5-phosphate synthase activity / Deoxyxylulose-5-phosphate synthase / 1-deoxy-D-xylulose-5-phosphate synthase / terpenoid biosynthetic process / Thiamin diphosphate-binding fold / magnesium ion binding / Putative transketolase Function and homology information | |||||||||
Biological species | Salmonella (bacteria) / Streptomyces hygrospinosus (bacteria) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.84 Å | |||||||||
Authors | Jiang WX / Ma LX / Xing Q | |||||||||
Funding support | China, 1 items
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Citation | Journal: To Be Published Title: CryoEM structure of the transketolase ANIP from Streptomyces hygrospinosus Authors: Jiang WX / Cheng XQ / Wu M / Ma LX / Xing Q | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_36756.map.gz | 229.6 MB | EMDB map data format | |
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Header (meta data) | emd-36756-v30.xml emd-36756.xml | 12.8 KB 12.8 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_36756_fsc.xml | 13.2 KB | Display | FSC data file |
Images | emd_36756.png | 32.9 KB | ||
Filedesc metadata | emd-36756.cif.gz | 5.3 KB | ||
Others | emd_36756_half_map_1.map.gz emd_36756_half_map_2.map.gz | 226.3 MB 226.2 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-36756 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-36756 | HTTPS FTP |
-Validation report
Summary document | emd_36756_validation.pdf.gz | 1 MB | Display | EMDB validaton report |
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Full document | emd_36756_full_validation.pdf.gz | 1 MB | Display | |
Data in XML | emd_36756_validation.xml.gz | 22.1 KB | Display | |
Data in CIF | emd_36756_validation.cif.gz | 28.5 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-36756 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-36756 | HTTPS FTP |
-Related structure data
Related structure data | 8k03MC 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_36756.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.5667 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_36756_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_36756_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Dimer of the transketolase ANIP
Entire | Name: Dimer of the transketolase ANIP |
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Components |
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-Supramolecule #1: Dimer of the transketolase ANIP
Supramolecule | Name: Dimer of the transketolase ANIP / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Salmonella (bacteria) |
-Macromolecule #1: Putative transketolase
Macromolecule | Name: Putative transketolase / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Streptomyces hygrospinosus (bacteria) |
Molecular weight | Theoretical: 62.158332 KDa |
Recombinant expression | Organism: Escherichia coli 'BL21-Gold(DE3)pLysS AG' (bacteria) |
Sequence | String: MSALHALVQG PATAAAPRLT EPERAVVQRE LDELARGGYT GPLLESLRKL AAAVPERLYD DSARVLLRMH EIAGSGNYQS NLSSLPLVR ACFDLGLVPE DGPGPAELIV GRGHIAPAFY AEHYVRGTFP FAPLATLHQG GLTGVVHQDL GFTNTMRYSL G VGVAQAVS ...String: MSALHALVQG PATAAAPRLT EPERAVVQRE LDELARGGYT GPLLESLRKL AAAVPERLYD DSARVLLRMH EIAGSGNYQS NLSSLPLVR ACFDLGLVPE DGPGPAELIV GRGHIAPAFY AEHYVRGTFP FAPLATLHQG GLTGVVHQDL GFTNTMRYSL G VGVAQAVS LAWELTRRGE DRKVVCLAGD GELQEGVVFE CLRFAHEADL KNLILVVDTN DKGIEPLLKP LSRGYLASYL DR VEEVDGL DTATVRDSLG ALLAAPTSAA LVCRTRKGDH SFKPATTAPA TAPRPAKVSF ANTSGAALAA YRERTGRELA VFT ADMAAR FGLRDKVPYT NTGLAETLSL GLTLSLPEET VKVVATDAMY YMDSLSMLTE ATTSVRNLLV LAGRSWGAWG GAHN ATNLL GQLLHTRVYE PVTAAEFAAC LDRLDRHPDT THVVSTVDAK FDPPPADCAG DVDGGTWLTP PGDGPPRAAV VTFGY AGVL VAEANRDLGV PHLHCAALEP DLDARTLAQL GACEDLLTVE YNGVHGGFGE RLRTTYLLPA RVHGVRQDIA NRVHDR QLR LHGMGPEQLD ALLRGLTG UniProtKB: Putative transketolase |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.2 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 39.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: DIFFRACTION / Nominal defocus max: 1.5 µm / Nominal defocus min: 1.0 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |