+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-37376 | |||||||||
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Title | Structure of AtHKT1;1 in NaCl at 2.7 Angstroms resolution | |||||||||
Map data | ||||||||||
Sample |
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Keywords | HKT / salt tolerance / ion selectivity / TRANSPORT PROTEIN | |||||||||
Function / homology | Function and homology information potassium ion transmembrane transporter activity / response to osmotic stress / sodium ion transport / response to salt stress / potassium ion transport / plasma membrane Similarity search - Function | |||||||||
Biological species | Arabidopsis thaliana (thale cress) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.7 Å | |||||||||
Authors | Wang JQ | |||||||||
Funding support | China, 1 items
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Citation | Journal: To Be Published Title: Structure of AtHKT1;1 in NaCl at 2.7 Angstroms resolution Authors: Wang JQ | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_37376.map.gz | 29.5 MB | EMDB map data format | |
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Header (meta data) | emd-37376-v30.xml emd-37376.xml | 12.7 KB 12.7 KB | Display Display | EMDB header |
Images | emd_37376.png | 91.4 KB | ||
Filedesc metadata | emd-37376.cif.gz | 5.2 KB | ||
Others | emd_37376_half_map_1.map.gz emd_37376_half_map_2.map.gz | 28.8 MB 28.8 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-37376 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-37376 | HTTPS FTP |
-Related structure data
Related structure data | 8w9nMC 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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-Map
File | Download / File: emd_37376.map.gz / Format: CCP4 / Size: 35.3 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.93 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_37376_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_37376_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Structure of AtHKT1;1 in NaCl at 2.7 Angstroms resolution
Entire | Name: Structure of AtHKT1;1 in NaCl at 2.7 Angstroms resolution |
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Components |
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-Supramolecule #1: Structure of AtHKT1;1 in NaCl at 2.7 Angstroms resolution
Supramolecule | Name: Structure of AtHKT1;1 in NaCl at 2.7 Angstroms resolution type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Arabidopsis thaliana (thale cress) |
-Macromolecule #1: Sodium transporter HKT1
Macromolecule | Name: Sodium transporter HKT1 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Arabidopsis thaliana (thale cress) |
Molecular weight | Theoretical: 57.504965 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: MDRVVAKIAK IRSQLTKLRS LFFLYFIYFL FFSFLGFLAL KITKPRTTSR PHDFDLFFTS VSAITVSSMS TVDMEVFSNT QLIFLTILM FLGGEIFTSF LNLYVSYFTK FVFPHNKIRH ILGSYNSDSS IEDRCDVETV TDYREGLIKI DERASKCLYS V VLSYHLVT ...String: MDRVVAKIAK IRSQLTKLRS LFFLYFIYFL FFSFLGFLAL KITKPRTTSR PHDFDLFFTS VSAITVSSMS TVDMEVFSNT QLIFLTILM FLGGEIFTSF LNLYVSYFTK FVFPHNKIRH ILGSYNSDSS IEDRCDVETV TDYREGLIKI DERASKCLYS V VLSYHLVT NLVGSVLLLV YVNFVKTARD VLSSKEISPL TFSVFTTVST FANCGFVPTN ENMIIFRKNS GLIWLLIPQV LM GNTLFPC FLVLLIWGLY KITKRDEYGY ILKNHNKMGY SHLLSVRLCV LLGVTVLGFL IIQLLFFCAF EWTSESLEGM SSY EKLVGS LFQVVNSRHT GETIVDLSTL SPAILVLFIL MMYLPPYTLF MPLTEQKTIE KEGGDDDSEN GKKVKKSGLI VSQL SFLTI CIFLISITER QNLQRDPINF NVLNITLEVI SAYGNVGFTT GYSCERRVDI SDGGCKDASY GFAGRWSPMG KFVLI IVMF YGRFKQFTAK SGRAWILYPS SS UniProtKB: Sodium transporter HKT1 |
-Macromolecule #2: SODIUM ION
Macromolecule | Name: SODIUM ION / type: ligand / ID: 2 / Number of copies: 2 |
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Molecular weight | Theoretical: 22.99 Da |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 1.6 µm / Nominal defocus min: 0.8 µm |
Image recording | Film or detector model: GATAN K2 QUANTUM (4k x 4k) / Average electron dose: 52.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: OTHER |
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Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 87784 |