+
Open data
-
Basic information
Entry | Database: EMDB / ID: EMD-30058 | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Title | KCC3 bound with DIOA | ||||||||||||
![]() | cryo_EM map of KCC3 bound with DIOA | ||||||||||||
![]() |
| ||||||||||||
Function / homology | ![]() 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 | ![]() | ||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.7 Å | ||||||||||||
![]() | Chi XM / Li XR / Chen Y / Zhang YY / Su Q / Zhou Q | ||||||||||||
Funding support | ![]()
| ||||||||||||
![]() | ![]() Title: Cryo-EM structures of the full-length human KCC2 and KCC3 cation-chloride cotransporters. Authors: Ximin Chi / Xiaorong Li / Yun Chen / Yuanyuan Zhang / Qiang Su / Qiang Zhou / ![]() | ||||||||||||
History |
|
-
Structure visualization
Movie |
![]() |
---|---|
Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
-
Downloads & links
-EMDB archive
Map data | ![]() | 115.1 MB | ![]() | |
---|---|---|---|---|
Header (meta data) | ![]() ![]() | 12.7 KB 12.7 KB | Display Display | ![]() |
Images | ![]() | 68.5 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6m22MC ![]() 6m1yC ![]() 6m23C M: atomic model generated by this map C: citing same article ( |
---|---|
Similar structure data |
-
Links
EMDB pages | ![]() ![]() |
---|
-
Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | cryo_EM map of KCC3 bound with DIOA | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.087 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
|
-Supplemental data
-
Sample components
-Entire : KCC3 bound with DIOA
Entire | Name: KCC3 bound with DIOA |
---|---|
Components |
|
-Supramolecule #1: KCC3 bound with DIOA
Supramolecule | Name: KCC3 bound with DIOA / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
---|---|
Source (natural) | Organism: ![]() |
Recombinant expression | Organism: ![]() |
-Macromolecule #1: Solute carrier family 12 member 6
Macromolecule | Name: Solute carrier family 12 member 6 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 123.717906 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MADYKDDDDK SGRMPHFTVT KVEDPEEGAA ASISQEPSLA DIKARIQDSD EPDLSQNSIT GEHSQLLDDG HKKARNAYLN NSNYEEGDE YFDKNLALFE EEMDTRPKVS SLLNRMANYT NLTQGAKEHE EAENITEGKK KPTKTPQMGT FMGVYLPCLQ N IFGVILFL ...String: MADYKDDDDK SGRMPHFTVT KVEDPEEGAA ASISQEPSLA DIKARIQDSD EPDLSQNSIT GEHSQLLDDG HKKARNAYLN NSNYEEGDE YFDKNLALFE EEMDTRPKVS SLLNRMANYT NLTQGAKEHE EAENITEGKK KPTKTPQMGT FMGVYLPCLQ N IFGVILFL RLTWVVGTAG VLQAFAIVLI CCCCTMLTAI SMSAIATNGV VPAGGSYFMI SRALGPEFGG AVGLCFYLGT TF AAAMYIL GAIEIFLVYI VPRAAIFHSD DALKESAAML NNMRVYGTAF LVLMVLVVFI GVRYVNKFAS LFLACVIVSI LAI YAGAIK SSFAPPHFPV CMLGNRTLSS RHIDVCSKTK EINNMTVPSK LWGFFCNSSQ FFNATCDEYF VHNNVTSIQG IPGL ASGII TENLWSNYLP KGEIIEKPSA KSSDVLGSLN HEYVLVDITT SFTLLVGIFF PSVTGIMAGS NRSGDLKDAQ KSIPI GTIL AILTTSFVYL SNVVLFGACI EGVVLRDKFG DAVKGNLVVG TLSWPSPWVI VIGSFFSTCG AGLQSLTGAP RLLQAI AKD NIIPFLRVFG HSKANGEPTW ALLLTAAIAE LGILIASLDL VAPILSMFFL MCYLFVNLAC ALQTLLRTPN WRPRFRY YH WALSFMGMSI CLALMFISSW YYAIVAMVIA GMIYKYIEYQ GAEKEWGDGI RGLSLSAARF ALLRLEEGPP HTKNWRPQ L LVLLKLDEDL HVKHPRLLTF ASQLKAGKGL TIVGSVIVGN FLENYGEALA AEQTIKHLME AEKVKGFCQL VVAAKLREG ISHLIQSCGL GGMKHNTVVM GWPNGWRQSE DARAWKTFIG TVRVTTAAHL ALLVAKNISF FPSNVEQFSE GNIDVWWIVH DGGMLMLLP FLLKQHKVWR KCSIRIFTVA QLEDNSIQMK KDLATFLYHL RIEAEVEVVE MHDSDISAYT YERTLMMEQR S QMLRHMRL SKTERDREAQ LVKDRNSMLR LTSIGSDEDE ETETYQEKVH MTWTKDKYMA SRGQKAKSME GFQDLLNMRP DQ SNVRRMH TAVKLNEVIV NKSHEAKLVL LNMPGPPRNP EGDENYMEFL EVLTEGLERV LLVRGGGSEV ITIYS |
-Macromolecule #3: POTASSIUM ION
Macromolecule | Name: POTASSIUM ION / type: ligand / ID: 3 / Number of copies: 2 / Formula: K |
---|---|
Molecular weight | Theoretical: 39.098 Da |
-Macromolecule #4: CHLORIDE ION
Macromolecule | Name: CHLORIDE ION / type: ligand / ID: 4 / Number of copies: 4 / Formula: CL |
---|---|
Molecular weight | Theoretical: 35.453 Da |
-Macromolecule #5: 2-acetamido-2-deoxy-beta-D-glucopyranose
Macromolecule | Name: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 5 / Number of copies: 4 / Formula: NAG |
---|---|
Molecular weight | Theoretical: 221.208 Da |
Chemical component information | ![]() ChemComp-NAG: |
-Macromolecule #6: 2-[[(2~{R})-2-butyl-6,7-bis(chloranyl)-2-cyclopentyl-1-oxidanylid...
Macromolecule | Name: 2-[[(2~{R})-2-butyl-6,7-bis(chloranyl)-2-cyclopentyl-1-oxidanylidene-3~{H}-inden-5-yl]oxy]ethanoic acid type: ligand / ID: 6 / Number of copies: 2 / Formula: EZC |
---|---|
Molecular weight | Theoretical: 399.308 Da |
Chemical component information | ![]() ChemComp-EZC: |
-Macromolecule #7: water
Macromolecule | Name: water / type: ligand / ID: 7 / Number of copies: 40 / Formula: HOH |
---|---|
Molecular weight | Theoretical: 18.015 Da |
Chemical component information | ![]() ChemComp-HOH: |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
![]() | single particle reconstruction |
Aggregation state | particle |
-
Sample preparation
Buffer | pH: 7.4 |
---|---|
Vitrification | Cryogen name: ETHANE |
-
Electron microscopy
Microscope | FEI TITAN KRIOS |
---|---|
Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
-
Image processing
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.7 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.0.6) / Number images used: 364959 |
---|---|
Initial angle assignment | Type: OTHER |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |