Cryo-EM structure of the wild-type human serotonin transporter complexed with paroxetine and 8B6 Fab. Determined by electron microscopy at 3.3 Å resolution. Released 11 Mar 2020.
Explore 6VRH in 3D Show helices and sheets RCSB PDB PDBe
6VRH contains 47 α-helices and 31 β-strands across 3 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.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 85-96 | 12 | |
| α-helix | 99-101 | 3 | |
| α-helix | 105-111 | 7 | |
| β-strand | 114 | 1 | 1 |
| α-helix | 115-117 | 3 | |
| α-helix | 118-124 | 7 | |
| α-helix | 125-129 | 5 | |
| α-helix | 130-143 | 14 | |
| α-helix | 150-152 | 3 | |
| α-helix | 156-158 | 3 | |
| α-helix | 160-189 | 30 | |
| α-helix | 196-198 | 3 | |
| β-strand | 209 | 1 | 2 |
| α-helix | 210-212 | 3 | |
| β-strand | 225 | 1 | 2 |
| α-helix | 227-231 | 5 | |
| α-helix | 232-236 | 5 | |
| α-helix | 239-241 | 3 | |
| β-strand | 251 | 1 | 3 |
| α-helix | 253-270 | 18 | |
| α-helix | 274-284 | 11 | |
| α-helix | 287-299 | 13 | |
| α-helix | 305-313 | 9 | |
| β-strand | 315 | 1 | 1 |
| α-helix | 319-321 | 3 | |
| α-helix | 323-337 | 15 | |
| α-helix | 343-349 | 7 | |
| α-helix | 357-389 | 33 | |
| α-helix | 394-397 | 4 | |
| α-helix | 404 | 1 | |
| α-helix | 405-409 | 5 | |
| α-helix | 410-416 | 7 | |
| α-helix | 420-453 | 34 | |
| α-helix | 466-477 | 12 | |
| α-helix | 478-480 | 3 | |
| β-strand | 482 | 1 | 3 |
| α-helix | 485-495 | 11 | |
| α-helix | 498-510 | 13 | |
| α-helix | 511-515 | 5 | |
| α-helix | 518-529 | 12 | |
| α-helix | 532-534 | 3 | |
| α-helix | 535-539 | 5 | |
| α-helix | 540-544 | 5 | |
| α-helix | 545-558 | 14 | |
| β-strand | 564 | 1 | 4 |
| β-strand | 569 | 1 | 4 |
| α-helix | 572-586 | 15 | |
| α-helix | 588-595 | 8 | |
| α-helix | 604-611 | 8 | |
| α-helix | 614-616 | 3 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 23-25 | 3 | 8 |
| β-strand | 30 | 1 | 9 |
| β-strand | 36-43 | 8 | 8 |
| α-helix | 48-50 | 3 | |
| β-strand | 54-58 | 5 | 10 |
| β-strand | 66-68 | 3 | 10 |
| β-strand | 70-71 | 2 | 11 |
| β-strand | 76-77 | 2 | 11 |
| α-helix | 81-83 | 3 | |
| β-strand | 87-92 | 6 | 8 |
| β-strand | 97-103 | 7 | 8 |
| β-strand | 112-117 | 6 | 10 |
| β-strand | 127-128 | 2 | 10 |
| β-strand | 132-133 | 2 | 10 |
| β-strand | 135 | 1 | 9 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 24-26 | 3 | 5 |
| β-strand | 38-49 | 12 | 5 |
| β-strand | 53-57 | 5 | 6 |
| β-strand | 58 | 1 | 7 |
| α-helix | 63-64 | 2 | |
| β-strand | 65-69 | 5 | 6 |
| β-strand | 73-74 | 2 | 6 |
| α-helix | 75 | 1 | |
| β-strand | 83-96 | 14 | 5 |
| β-strand | 105 | 1 | 7 |
| β-strand | 108-110 | 3 | 6 |
| α-helix | 116 | 1 | |
| β-strand | 123 | 1 | 7 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Sodium-dependent serotonin transporter | A | protein | 630 | Homo sapiens | P31645 (AlphaFold model) |
| 8B6 antibody, light chain | C | protein | 214 | Mus musculus | A0A0U5BC76 (AlphaFold model) |
| 8B6 antibody, heavy chain | B | protein | 221 | Mus musculus |
>6VRH_1 Sodium-dependent serotonin transporter (chains A) METTPLNSQKQLSACEDGEDCQENGVLQKVVPTPGDKVESGQISNGYSAVPSPGAGDDTR HSIPATTTTLVAELHQGERETWGKKVDFLLSVIGYAVDLGNVWRFPYICYQNGGGAFLLP YTIMAIFGGIPLFYMELALGQYHRNGCISIWRKICPIFKGIGYAICIIAFYIASYYNTIM AWALYYLISSFTDQLPWTSCKNSWNTGNCTNYFSEDNITWTLHSTSPAEEFYTRHVLQIH RSKGLQDLGGISWQLALCIMLIFTVIYFSIWKGVKTSGKVVWVTATFPYIILSVLLVRGA TLPGAWRGVLFYLKPNWQKLLETGVWIDAAAQIFFSLGPGFGVLLAFASYNKFNNNCYQD ALVTSVVNCMTSFVSGFVIFTVLGYMAEMRNEDVSEVAKDAGPSLLFITYAEAIANMPAS TFFAIIFFLMLITLGLDSTFAGLEGVITAVLDEFPHVWAKRRERFVLAVVITCFFGSLVT LTFGGAYVVKLLEEYATGPAVLTVALIEAVAVSWFYGITQFCRDVKEMLGFSPGWFWRIC WVAISPLFLLFIICSFLMSPPQLRLFQYNYPYWSIILGYCIGTSSFICIPTYIAYRLIIT PGTFKERIIKSITPETPTEIPCGDIRLNAV
>6VRH_2 8B6 antibody, light chain (chains C) DIVMTQSHKFMSTSVGDRVSITCKASQDVSTAVAWYQQKPGQSPKLLIYSASYRYTGVPD RFTGSGSGTDFTFTISSVQAEDLAVYYCQQHYSIPRTFGGGTKLEIKRADAAPTVSIFPP SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLT LTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC
>6VRH_3 8B6 antibody, heavy chain (chains B) EVQLQQSGPELVKPGASVKISCKASGYTFTDYYMNWVKQSHGKSLEWIGNINPNNGGTSY NQKFKGKATLTVDKSSTTAYMELRSLTSEDSAVYYCTRSPVRPYYFDYWGQGTTLTVSSA KTTPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSGSLSSSVHTFPALLQSGL YTMSSSVTVPSSTWPSQTVTCSVAHPASSTTVDKKLEPSGP
| ID | Name | Formula | Copies |
|---|---|---|---|
| 8PR | Paroxetine | C19 H20 F N O3 | 1 |
| LMT | Dodecyl-beta-D-maltoside | C24 H46 O11 | 1 |
| NAG | 2-acetamido-2-deoxy-beta-D-glucopyranose | C8 H15 N O6 | 2 |
Water and common crystallization additives (CL) are not listed.
Chemical and structural investigation of the paroxetine-human serotonin transporter complex. Coleman, J.A., Navratna, V., Antermite, D. et al. Elife (2020) 9. DOI 10.7554/eLife.56427 · PubMed
Other PDB entries of the same protein (UniProt P31645 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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