+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-16318 | |||||||||
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Title | Structure of the K/H exchanger KefC | |||||||||
Map data | ||||||||||
Sample |
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Keywords | potassium proton exchanger / KefC / Transporter / CPA / MEMBRANE PROTEIN | |||||||||
Function / homology | Function and homology information glutathione-regulated potassium exporter activity / response to methylglyoxal / antiporter activity / toxic substance binding / proton transmembrane transport / enzyme binding / plasma membrane Similarity search - Function | |||||||||
Biological species | Escherichia coli (E. coli) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.16 Å | |||||||||
Authors | Gulati A / Drew D | |||||||||
Funding support | European Union, Sweden, 2 items
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Citation | Journal: To be published Title: Structure and mechanism of the K+/H+ exchanger KefC Authors: Gulati A / Drew D | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_16318.map.gz | 47.7 MB | EMDB map data format | |
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Header (meta data) | emd-16318-v30.xml emd-16318.xml | 14.1 KB 14.1 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_16318_fsc.xml | 7.9 KB | Display | FSC data file |
Images | emd_16318.png | 176.9 KB | ||
Filedesc metadata | emd-16318.cif.gz | 6.7 KB | ||
Others | emd_16318_half_map_1.map.gz emd_16318_half_map_2.map.gz | 49 MB 49 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-16318 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-16318 | HTTPS FTP |
-Related structure data
Related structure data | 8bxgMC 8by2C 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_16318.map.gz / Format: CCP4 / Size: 52.7 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: 0.99675 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_16318_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_16318_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Kefc protein dimer
Entire | Name: Kefc protein dimer |
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Components |
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-Supramolecule #1: Kefc protein dimer
Supramolecule | Name: Kefc protein dimer / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Escherichia coli (E. coli) |
-Macromolecule #1: Glutathione-regulated potassium-efflux system protein KefC
Macromolecule | Name: Glutathione-regulated potassium-efflux system protein KefC type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Escherichia coli (E. coli) |
Molecular weight | Theoretical: 61.183223 KDa |
Recombinant expression | Organism: Escherichia coli (E. coli) |
Sequence | String: MDSHTLIQAL IYLGSAALIV PIAVRLGLGS VLGYLIAGCI IGPWGLRLVT DAESILHFAE IGVVLMLFII GLELDPQRLW KLRAAVFGG GALQMVICGG LLGLFCMLLG LRWQVAELIG MTLALSSTAI AMQAMNERNL MVTQMGRSAF AVLLFQDIAA I PLVAMIPL ...String: MDSHTLIQAL IYLGSAALIV PIAVRLGLGS VLGYLIAGCI IGPWGLRLVT DAESILHFAE IGVVLMLFII GLELDPQRLW KLRAAVFGG GALQMVICGG LLGLFCMLLG LRWQVAELIG MTLALSSTAI AMQAMNERNL MVTQMGRSAF AVLLFQDIAA I PLVAMIPL LATSSASTTM GAFALSALKV AGALVLVVLL GRYVTRPALR FVARSGLREV FSAVALFLVF GFGLLLEEVG LS MAMGAFL AGVLLASSEY RHALESDIEP FKGLLLGLFF IGVGMSIDFG TLLENPLRIV ILLLGFLIIK IAMLWLIARP LQV PNKQRR WFAVLLGQGS EFAFVVFGAA QMANVLEPEW AKSLTLAVAL SMAATPILLV ILNRLEQSST EEAREADEID EEQP RVIIA GFGRFGQITG RLLLSSGVKM VVLDHDPDHI ETLRKFGMKV FYGDATRMDL LESAGAAKAE VLINAIDDPQ TNLQL TEMV KEHFPHLQII ARARDVDHYI RLRQAGVEKP ERETFEGALK TGRLALESLG LGPYEARERA DVFRRFNIQM VEEMAM V UniProtKB: Glutathione-regulated potassium-efflux system protein KefC |
-Macromolecule #2: POTASSIUM ION
Macromolecule | Name: POTASSIUM ION / type: ligand / ID: 2 / Number of copies: 2 / Formula: K |
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Molecular weight | Theoretical: 39.098 Da |
-Macromolecule #3: ADENOSINE MONOPHOSPHATE
Macromolecule | Name: ADENOSINE MONOPHOSPHATE / type: ligand / ID: 3 / Number of copies: 2 / Formula: AMP |
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Molecular weight | Theoretical: 347.221 Da |
Chemical component information | ChemComp-AMP: |
-Macromolecule #4: (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]o...
Macromolecule | Name: (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate type: ligand / ID: 4 / Number of copies: 2 / Formula: PGW |
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Molecular weight | Theoretical: 749.007 Da |
-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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Grid | Material: COPPER |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Instrument: FEI VITROBOT MARK IV |
-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: 2.0 µm / Nominal defocus min: 0.6 µm |
Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 52.2 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |