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- EMDB-38851: Cryo-EM structure of human dopamine transporter in complex with d... -
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Open data
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Basic information
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Title | Cryo-EM structure of human dopamine transporter in complex with dopamine | |||||||||
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![]() | human dopamine transporter in complex with dopamine / MEMBRANE PROTEIN | |||||||||
Function / homology | ![]() Defective SLC6A3 causes Parkinsonism-dystonia infantile (PKDYS) / Defective SLC6A3 causes Parkinsonism-dystonia infantile (PKDYS) / Dopamine clearance from the synaptic cleft / amine binding / adenohypophysis development / dopamine uptake / hyaloid vascular plexus regression / dopamine binding / norepinephrine:sodium symporter activity / dopamine:sodium symporter activity ...Defective SLC6A3 causes Parkinsonism-dystonia infantile (PKDYS) / Defective SLC6A3 causes Parkinsonism-dystonia infantile (PKDYS) / Dopamine clearance from the synaptic cleft / amine binding / adenohypophysis development / dopamine uptake / hyaloid vascular plexus regression / dopamine binding / norepinephrine:sodium symporter activity / dopamine:sodium symporter activity / norepinephrine transport / regulation of dopamine metabolic process / dopaminergic synapse / neurotransmitter transmembrane transporter activity / dopamine transport / flotillin complex / monoamine transmembrane transporter activity / Na+/Cl- dependent neurotransmitter transporters / monoamine transport / dopamine catabolic process / positive regulation of multicellular organism growth / neurotransmitter transport / response to iron ion / dopamine biosynthetic process / dopamine uptake involved in synaptic transmission / amino acid transport / heterocyclic compound binding / neuronal cell body membrane / sodium ion transmembrane transport / prepulse inhibition / axon terminus / response to cAMP / lactation / protein phosphatase 2A binding / response to cocaine / locomotory behavior / response to nicotine / cognition / sensory perception of smell / presynaptic membrane / protease binding / postsynaptic membrane / response to ethanol / neuron projection / response to xenobiotic stimulus / membrane raft / axon / signaling receptor binding / neuronal cell body / protein-containing complex binding / cell surface / membrane / metal ion binding / plasma membrane / cytoplasm Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.8 Å | |||||||||
![]() | Zhao Y / Li Y | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Dopamine reuptake and inhibitory mechanisms in human dopamine transporter Authors: Zhao Y / Li Y | |||||||||
History |
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Structure visualization
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Downloads & links
-EMDB archive
Map data | ![]() | |||
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Header (meta data) | ![]() | |||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8y2dMC ![]() 38850 ![]() 38852 ![]() 38853 ![]() 38854 ![]() 8y2cC ![]() 8y2eC ![]() 8y2fC ![]() 8y2gC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Voxel size | X=Y=Z: 0.85 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
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Sample components
-Entire : human dopamine transporter in complex with dopamine
Entire | Name: human dopamine transporter in complex with dopamine |
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Components |
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-Supramolecule #1: human dopamine transporter in complex with dopamine
Supramolecule | Name: human dopamine transporter in complex with dopamine / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: Sodium-dependent dopamine transporter
Macromolecule | Name: Sodium-dependent dopamine transporter / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 61.348172 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: DFLLSVIGFA VDLANVWRFP YLCYKNGGGA FLVPYLLFMV IAGMPLFYME LALGQFNREG AAGVWKICPI LKGVGFTVIL ISLYVGFFY NVIIAWALHY LFSSFTTELP WIHCNNSWNS PNCSDAHPGD SSGDSSGLND TFGTTPAAEY FERGVLHLHQ S HGIDDLGP ...String: DFLLSVIGFA VDLANVWRFP YLCYKNGGGA FLVPYLLFMV IAGMPLFYME LALGQFNREG AAGVWKICPI LKGVGFTVIL ISLYVGFFY NVIIAWALHY LFSSFTTELP WIHCNNSWNS PNCSDAHPGD SSGDSSGLND TFGTTPAAEY FERGVLHLHQ S HGIDDLGP PRWQLTACLV LVIVLLYFSL WKGVKTSGKV VWITATMPYV VLTALLLRGV TLPGAIDGIR AYLSVDFYRL CE ASVWIDA ATQVCFSLGV GFGVLIAFSS YNKFTNNCYR DAIVTTSINS LTSFSSGFVV FSFLGYMAQK HSVPIGDVAK DGP GLIFII YPEAIATLPL SSAWAVVFFI MLLTLGIDSA MGGMESVITG LIDEFQLLHR HRELFTLFIV LATFLLSLFC VTNG GIYVF TLLDHFAAGT SILFGVLIEA IGVAWFYGVG QFSDDIQQMT GQRPSLYWRL CWKLVSPCFL LFVVVVSIVT FRPPH YGAY IFPDWANALG WVIATSSMAM VPIYAAYKFC SLPGSFREKL AYAIAPEKDR ELVDRGEVRQ FTLRHWLKV UniProtKB: Sodium-dependent dopamine transporter |
-Macromolecule #2: L-DOPAMINE
Macromolecule | Name: L-DOPAMINE / type: ligand / ID: 2 / Number of copies: 1 / Formula: LDP |
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Molecular weight | Theoretical: 153.178 Da |
Chemical component information | ![]() ChemComp-LDP: |
-Macromolecule #3: SODIUM ION
Macromolecule | Name: SODIUM ION / type: ligand / ID: 3 / Number of copies: 2 |
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Molecular weight | Theoretical: 22.99 Da |
-Macromolecule #4: CHLORIDE ION
Macromolecule | Name: CHLORIDE ION / type: ligand / ID: 4 / Number of copies: 1 / Formula: CL |
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Molecular weight | Theoretical: 35.453 Da |
-Macromolecule #5: water
Macromolecule | Name: water / type: ligand / ID: 5 / Number of copies: 4 / Formula: HOH |
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Molecular weight | Theoretical: 18.015 Da |
Chemical component information | ![]() ChemComp-HOH: |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.2 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Startup model | Type of model: INSILICO MODEL |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.8 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 213969 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |