+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-30616 | |||||||||
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Title | human potassium-chloride co-transporter KCC3 | |||||||||
Map data | ||||||||||
Sample |
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Function / homology | Function and homology information Defective SLC12A6 causes agenesis of the corpus callosum, with peripheral neuropathy (ACCPN) / ammonium import across plasma membrane / potassium ion transmembrane transporter activity / potassium:chloride symporter activity / Cation-coupled Chloride cotransporters / chloride ion homeostasis / cellular hypotonic response / ammonium channel activity / cellular hypotonic salinity response / potassium ion homeostasis ...Defective SLC12A6 causes agenesis of the corpus callosum, with peripheral neuropathy (ACCPN) / ammonium import across plasma membrane / potassium ion transmembrane transporter activity / potassium:chloride symporter activity / Cation-coupled Chloride cotransporters / chloride ion homeostasis / cellular hypotonic response / ammonium channel activity / cellular hypotonic salinity response / potassium ion homeostasis / cell volume homeostasis / potassium ion import across plasma membrane / monoatomic ion transport / potassium ion transmembrane transport / chloride transmembrane transport / cellular response to glucose stimulus / chemical synaptic transmission / basolateral plasma membrane / angiogenesis / axon / synapse / protein kinase binding / membrane / metal ion binding / plasma membrane Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.6 Å | |||||||||
Authors | Xie Y / Chang S / Zhao C / Ye S / Guo J | |||||||||
Funding support | China, 1 items
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Citation | Journal: Sci Adv / Year: 2020 Title: Structures and an activation mechanism of human potassium-chloride cotransporters. Authors: Yuan Xie / Shenghai Chang / Cheng Zhao / Feng Wang / Si Liu / Jin Wang / Eric Delpire / Sheng Ye / Jiangtao Guo / Abstract: Potassium-chloride cotransporters KCC1 to KCC4 mediate the coupled export of potassium and chloride across the plasma membrane and play important roles in cell volume regulation, auditory system ...Potassium-chloride cotransporters KCC1 to KCC4 mediate the coupled export of potassium and chloride across the plasma membrane and play important roles in cell volume regulation, auditory system function, and γ-aminobutyric acid (GABA) and glycine-mediated inhibitory neurotransmission. Here, we present 2.9- to 3.6-Å resolution structures of full-length human KCC2, KCC3, and KCC4. All three KCCs adopt a similar overall architecture, a domain-swap dimeric assembly, and an inward-facing conformation. The structural and functional studies reveal that one unexpected N-terminal peptide binds at the cytosolic facing cavity and locks KCC2 and KCC4 at an autoinhibition state. The C-terminal domain (CTD) directly interacts with the N-terminal inhibitory peptide, and the relative motions between the CTD and the transmembrane domain (TMD) suggest that CTD regulates KCCs' activities by adjusting the autoinhibitory effect. These structures provide the first glimpse of full-length structures of KCCs and an autoinhibition mechanism among the amino acid-polyamine-organocation transporter superfamily. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_30616.map.gz | 47.7 MB | EMDB map data format | |
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Header (meta data) | emd-30616-v30.xml emd-30616.xml | 10.4 KB 10.4 KB | Display Display | EMDB header |
Images | emd_30616.png | 63.6 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-30616 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-30616 | HTTPS FTP |
-Related structure data
Related structure data | 7d90MC 7d8zC 7d99C M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_30616.map.gz / Format: CCP4 / Size: 52.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Voxel size | X=Y=Z: 1.014 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : potassium-chloride cotransporter 3
Entire | Name: potassium-chloride cotransporter 3 |
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Components |
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-Supramolecule #1: potassium-chloride cotransporter 3
Supramolecule | Name: potassium-chloride cotransporter 3 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Homo sapiens (human) |
Recombinant expression | Organism: Homo sapiens (human) / Recombinant cell: HEK293T |
-Macromolecule #1: potassium-chloride cotransporter 3
Macromolecule | Name: potassium-chloride cotransporter 3 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 129.920758 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: MDYKDDDDKM HPPETTTKMA SVRFMVTPTK IDDIPGLSDT SPDLSSRSSS RVRFSSRESV PETSRSEPMS EMSGATTSLA TVALDPPSD RTSHPQDVIE DLSQNSITGE HSQLLDDGHK KARNAYLNNS NYEEGDEYFD KNLALFEEEM DTRPKVSSLL N RMANYTNL ...String: MDYKDDDDKM HPPETTTKMA SVRFMVTPTK IDDIPGLSDT SPDLSSRSSS RVRFSSRESV PETSRSEPMS EMSGATTSLA TVALDPPSD RTSHPQDVIE DLSQNSITGE HSQLLDDGHK KARNAYLNNS NYEEGDEYFD KNLALFEEEM DTRPKVSSLL N RMANYTNL TQGAKEHEEA ENITEGKKKP TKTPQMGTFM GVYLPCLQNI FGVILFLRLT WVVGTAGVLQ AFAIVLICCC CT MLTAISM SAIATNGVVP AGGSYFMISR ALGPEFGGAV GLCFYLGTTF AAAMYILGAI EIFLVYIVPR AAIFHSDDAL KES AAMLNN MRVYGTAFLV LMVLVVFIGV RYVNKFASLF LACVIVSILA IYAGAIKSSF APPHFPVCML GNRTLSSRHI DVCS KTKEI NNMTVPSKLW GFFCNSSQFF NATCDEYFVH NNVTSIQGIP GLASGIITEN LWSNYLPKGE IIEKPSAKSS DVLGS LNHE YVLVDITTSF TLLVGIFFPS VTGIMAGSNR SGDLKDAQKS IPIGTILAIL TTSFVYLSNV VLFGACIEGV VLRDKF GDA VKGNLVVGTL SWPSPWVIVI GSFFSTCGAG LQSLTGAPRL LQAIAKDNII PFLRVFGHSK ANGEPTWALL LTAAIAE LG ILIASLDLVA PILSMFFLMC YLFVNLACAL QTLLRTPNWR PRFRYYHWAL SFMGMSICLA LMFISSWYYA IVAMVIAG M IYKYIEYQGA EKEWGDGIRG LSLSAARFAL LRLEEGPPHT KNWRPQLLVL LKLDEDLHVK HPRLLTFASQ LKAGKGLTI VGSVIVGNFL ENYGEALAAE QTIKHLMEAE KVKGFCQLVV AAKLREGISH LIQSCGLGGM KHNTVVMGWP NGWRQSEDAR AWKTFIGTV RVTTAAHLAL LVAKNISFFP SNVEQFSEGN IDVWWIVHDG GMLMLLPFLL KQHKVWRKCS IRIFTVAQLE D NSIQMKKD LATFLYHLRI EAEVEVVEMH DSDISAYTYE RTLMMEQRSQ MLRHMRLSKT ERDREAQLVK DRNSMLRLTS IG SDEDEET ETYQEKVHMT WTKDKYMASR GQKAKSMEGF QDLLNMRPDQ SNVRRMHTAV KLNEVIVNKS HEAKLVLLNM PGP PRNPEG DENYMEFLEV LTEGLERVLL VRGGGSEVIT IYSWSHPQFE K |
-Macromolecule #2: 2-acetamido-2-deoxy-beta-D-glucopyranose
Macromolecule | Name: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 2 / Number of copies: 4 / Formula: NAG |
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Molecular weight | Theoretical: 221.208 Da |
Chemical component information | ChemComp-NAG: |
-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 |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 62.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Initial angle assignment | Type: ANGULAR RECONSTITUTION |
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Final angle assignment | Type: ANGULAR RECONSTITUTION |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.6 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 84675 |