8YF1: Human SV2A

Cryo-EM structure of human SV2A in complex with Brivaracetam. Determined by electron microscopy at 3.38 Å resolution. Released 12 Jun 2024.

Method
Electron microscopy
Resolution
3.38 Å
Organism
Homo sapiens
Chains
2
Atoms
9,187
Mol. weight
169.21 kDa
Ligands
VLX
Released
12 Jun 2024

Explore 8YF1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8YF1 contains 56 α-helices and 16 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 28 helices, 9 β-strands

ElementResiduesLengthSheet
α-helix134-15926
α-helix163-18826
α-helix193-1953
α-helix203-22927
α-helix231-25020
α-helix255-27016
α-helix273-2808
α-helix281-2833
α-helix286-2938
α-helix294-2963
α-helix297-31418
α-helix332-3409
α-helix342-35110
α-helix355-3573
α-helix358-3636
α-helix368-38215
α-helix387-3904
α-helix393-4019
α-helix420-43718
α-helix446-46217
α-helix463-4675
α-helix468-48215
β-strand48614
β-strand50514
β-strand50715
β-strand521-52226
β-strand52715
β-strand53017
β-strand541-54226
β-strand54715
β-strand55017
α-helix592-5943
α-helix595-61925
α-helix627-64216
α-helix649-67628
α-helix682-70625
α-helix714-72613
Chain B: 28 helices, 7 β-strands
ElementResiduesLengthSheet
α-helix134-15926
α-helix164-18421
α-helix185-1895
α-helix203-22523
α-helix232-25019
α-helix255-27016
α-helix273-2819
α-helix290-2934
α-helix296-31419
α-helix319-3213
α-helix333-3408
α-helix342-3509
α-helix355-3573
α-helix358-3647
α-helix368-38114
α-helix389-39810
α-helix416-43823
α-helix444-45613
α-helix459-4624
α-helix463-4675
α-helix468-48316
β-strand50411
β-strand52411
β-strand53212
β-strand535-53623
β-strand55212
β-strand555-55623
α-helix563-5653
β-strand57513
α-helix597-60812
α-helix610-62112
α-helix626-64318
α-helix650-67627
α-helix679-6813
α-helix682-70726

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Synaptic vesicle glycoprotein 2AA, Bprotein755Homo sapiensQ7L0J3 (AlphaFold model)
Sequence of entity 1 (A, B), FASTA
>8YF1_1 Synaptic vesicle glycoprotein 2A (chains A, B)
MEEGFRDRAAFIRGAKDIAKEVKKHAAKKVVKGLDRVQDEYSRRSYSRFEEEDDDDDFPA
PSDGYYRGEGTQDEEEGGASSDATEGHDEDDEIYEGEYQGIPRAESGGKGERMADGAPLA
GVRGGLSDGEGPPGGRGEAQRRKEREELAQQYEAILRECGHGRFQWTLYFVLGLALMADG
VEVFVVGFVLPSAEKDMCLSDSNKGMLGLIVYLGMMVGAFLWGGLADRLGRRQCLLISLS
VNSVFAFFSSFVQGYGTFLFCRLLSGVGIGGSIPIVFSYFSEFLAQEKRGEHLSWLCMFW
MIGGVYAAAMAWAIIPHYGWSFQMGSAYQFHSWRVFVLVCAFPSVFAIGALTTQPESPRF
FLENGKHDEAWMVLKQVHDTNMRAKGHPERVFSVTHIKTIHQEDELIEIQSDTGTWYQRW
GVRALSLGGQVWGNFLSCFGPEYRRITLMMMGVWFTMSFSYYGLTVWFPDMIRHLQAVDY
ASRTKVFPGERVEHVTFNFTLENQIHRGGQYFNDKFIGLRLKSVSFEDSLFEECYFEDVT
SSNTFFRNCTFINTVFYNTDLFEYKFVNSRLINSTFLHNKEGCPLDVTGTGEGAYMVYFV
SFLGTLAVLPGNIVSALLMDKIGRLRMLAGSSVMSCVSCFFLSFGNSESAMIALLCLFGG
VSIASWNALDVLTVELYPSDKRTTAFGFLNALCKLAAVLGISIFTSFVGITKAAPILFAS
AALALGSSLALKLPSRLEEELRRRTEPGSLEVLFQ

Ligands and cofactors

IDNameFormulaCopies
VLX(2S)-2-[(4R)-2-oxidanylidene-4-propyl-pyrrolidin-1-yl]butanamideC11 H20 N2 O22

Primary citation

Recognition of antiepileptic brivaracetam by synaptic vesicle protein 2A. Liu, S., Chao, Y., Zhou, Z. et al. Cell Discov (2024) 10:56-56. DOI 10.1038/s41421-024-00686-9 · PubMed

Other PDB entries of the same protein (UniProt Q7L0J3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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