3F3G: Nucleoporin pair Nup85-Seh1, space group P212121
Crystal structure of the nucleoporin pair Nup85-Seh1, space group P212121. Determined by X-ray diffraction at 3.75 Å resolution. Released 7 Apr 2009.
- Method
- X-ray diffraction
- Resolution
- 3.75 Å
- Organism
- Saccharomyces cerevisiae
- Chains
- 8
- Atoms
- 25,114
- Mol. weight
- 417.34 kDa
- Released
- 7 Apr 2009
Explore 3F3G in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
3F3G contains 132 α-helices and 138 β-strands across 8 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.
Chains A and E: 3 helices, 29 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 5 | 1 | 1 |
| β-strand | 12 | 1 | 2 |
| β-strand | 16-17 | 2 | 3 |
| β-strand | 23-27 | 5 | 3 |
| β-strand | 28 | 1 | 2 |
| β-strand | 32-38 | 7 | 3 |
| β-strand | 45-52 | 8 | 3 |
| β-strand | 58-62 | 5 | 4 |
| α-helix | 66-68 | 3 | |
| β-strand | 71-76 | 6 | 4 |
| β-strand | 81-86 | 6 | 4 |
| β-strand | 98-104 | 7 | 4 |
| β-strand | 111-116 | 6 | 5 |
| α-helix | 117-118 | 2 | |
| α-helix | 119-121 | 3 | |
| β-strand | 124-129 | 6 | 5 |
| β-strand | 133 | 1 | 6 |
| β-strand | 134-138 | 5 | 5 |
| β-strand | 149-150 | 2 | 5 |
| β-strand | 155 | 1 | 6 |
| β-strand | 169-173 | 5 | 7 |
| β-strand | 182-187 | 6 | 7 |
| β-strand | 192-196 | 5 | 7 |
| β-strand | 202-207 | 6 | 7 |
| β-strand | 217-220 | 4 | 8 |
| β-strand | 229-234 | 6 | 8 |
| β-strand | 240-247 | 8 | 8 |
| β-strand | 292-300 | 9 | 8 |
| β-strand | 307-312 | 6 | 9 |
| β-strand | 319-323 | 5 | 9 |
| β-strand | 328-333 | 6 | 9 |
| β-strand | 339-345 | 7 | 9 |
Chains B and F: 3 helices, 29 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 5 | 1 | 10 |
| β-strand | 12 | 1 | 11 |
| β-strand | 16-17 | 2 | 12 |
| β-strand | 23-27 | 5 | 12 |
| β-strand | 28 | 1 | 11 |
| β-strand | 32-38 | 7 | 12 |
| β-strand | 45-52 | 8 | 12 |
| β-strand | 58-62 | 5 | 13 |
| α-helix | 66-68 | 3 | |
| β-strand | 71-76 | 6 | 13 |
| β-strand | 81-86 | 6 | 13 |
| β-strand | 98-104 | 7 | 13 |
| β-strand | 111-116 | 6 | 14 |
| α-helix | 117-118 | 2 | |
| α-helix | 119-121 | 3 | |
| β-strand | 124-129 | 6 | 14 |
| β-strand | 133 | 1 | 15 |
| β-strand | 134-138 | 5 | 14 |
| β-strand | 149-150 | 2 | 14 |
| β-strand | 155 | 1 | 15 |
| β-strand | 169-173 | 5 | 16 |
| β-strand | 182-187 | 6 | 16 |
| β-strand | 192-196 | 5 | 16 |
| β-strand | 202-207 | 6 | 16 |
| β-strand | 215-220 | 6 | 17 |
| β-strand | 229-235 | 7 | 17 |
| β-strand | 240-247 | 8 | 17 |
| β-strand | 292-300 | 9 | 17 |
| β-strand | 307-312 | 6 | 18 |
| β-strand | 319-323 | 5 | 18 |
| β-strand | 328-333 | 6 | 18 |
| β-strand | 339-345 | 7 | 18 |
Chain C: 30 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 41-42 | 2 | 9 |
| β-strand | 47-49 | 3 | 9 |
| β-strand | 67-74 | 8 | 19 |
| β-strand | 77-82 | 6 | 19 |
| β-strand | 89 | 1 | 1 |
| β-strand | 91 | 1 | 19 |
| α-helix | 104-117 | 14 | |
| α-helix | 139-166 | 28 | |
| α-helix | 170-189 | 20 | |
| α-helix | 201-213 | 13 | |
| α-helix | 218 | 1 | |
| α-helix | 220 | 1 | |
| α-helix | 221-224 | 4 | |
| α-helix | 225-228 | 4 | |
| α-helix | 232-235 | 4 | |
| α-helix | 239-241 | 3 | |
| α-helix | 243-254 | 12 | |
| α-helix | 258-265 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 279-292 | 14 | |
| α-helix | 300-318 | 19 | |
| α-helix | 326-339 | 14 | |
| α-helix | 343-348 | 6 | |
| α-helix | 353-359 | 7 | |
| α-helix | 360-364 | 5 | |
| α-helix | 371-379 | 9 | |
| α-helix | 383-385 | 3 | |
| α-helix | 391-399 | 9 | |
| α-helix | 406-410 | 5 | |
| α-helix | 414-426 | 13 | |
| α-helix | 461-474 | 14 | |
| α-helix | 482-490 | 9 | |
| α-helix | 497-507 | 11 | |
| α-helix | 508-510 | 3 | |
| α-helix | 516-528 | 13 | |
| α-helix | 532-560 | 29 | |
Chain D: 29 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 48-49 | 2 | 18 |
| β-strand | 67-74 | 8 | 20 |
| β-strand | 77-82 | 6 | 20 |
| β-strand | 89 | 1 | 10 |
| β-strand | 91 | 1 | 20 |
| α-helix | 104-117 | 14 | |
| α-helix | 139-166 | 28 | |
| α-helix | 170-189 | 20 | |
| α-helix | 201-213 | 13 | |
| α-helix | 218 | 1 | |
| α-helix | 220 | 1 | |
| α-helix | 221-224 | 4 | |
| α-helix | 225-228 | 4 | |
| α-helix | 239-241 | 3 | |
| α-helix | 243-254 | 12 | |
| α-helix | 258-265 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 279-292 | 14 | |
| α-helix | 300-318 | 19 | |
| α-helix | 326-339 | 14 | |
| α-helix | 343-348 | 6 | |
| α-helix | 353-359 | 7 | |
| α-helix | 360-364 | 5 | |
| α-helix | 371-379 | 9 | |
| α-helix | 383-385 | 3 | |
| α-helix | 391-399 | 9 | |
| α-helix | 406-410 | 5 | |
| α-helix | 414-426 | 13 | |
| α-helix | 461-473 | 13 | |
| α-helix | 481-490 | 10 | |
| α-helix | 497-507 | 11 | |
| α-helix | 508-510 | 3 | |
| α-helix | 516-528 | 13 | |
| α-helix | 532-550 | 19 | |
Chain G: 29 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 47-49 | 3 | 29 |
| β-strand | 67-74 | 8 | 39 |
| β-strand | 77-82 | 6 | 39 |
| β-strand | 89 | 1 | 21 |
| β-strand | 91 | 1 | 39 |
| α-helix | 104-117 | 14 | |
| α-helix | 139-166 | 28 | |
| α-helix | 170-189 | 20 | |
| α-helix | 201-213 | 13 | |
| α-helix | 218 | 1 | |
| α-helix | 220 | 1 | |
| α-helix | 221-224 | 4 | |
| α-helix | 225-228 | 4 | |
| α-helix | 239-241 | 3 | |
| α-helix | 243-254 | 12 | |
| α-helix | 258-265 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 279-292 | 14 | |
| α-helix | 300-318 | 19 | |
| α-helix | 326-339 | 14 | |
| α-helix | 343-348 | 6 | |
| α-helix | 353-359 | 7 | |
| α-helix | 360-364 | 5 | |
| α-helix | 371-379 | 9 | |
| α-helix | 383-385 | 3 | |
| α-helix | 391-399 | 9 | |
| α-helix | 403-405 | 3 | |
| α-helix | 406-410 | 5 | |
| α-helix | 414-426 | 13 | |
| α-helix | 461-474 | 14 | |
| α-helix | 481-490 | 10 | |
| α-helix | 497-507 | 11 | |
| α-helix | 516-528 | 13 | |
| α-helix | 532-548 | 17 | |
Chain H: 32 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 40 | 1 | 38 |
| β-strand | 47-49 | 3 | 38 |
| β-strand | 67-74 | 8 | 40 |
| β-strand | 77-82 | 6 | 40 |
| β-strand | 89 | 1 | 30 |
| β-strand | 91 | 1 | 40 |
| α-helix | 104-117 | 14 | |
| α-helix | 139-166 | 28 | |
| α-helix | 170-189 | 20 | |
| α-helix | 201-213 | 13 | |
| α-helix | 218 | 1 | |
| α-helix | 220 | 1 | |
| α-helix | 221-224 | 4 | |
| α-helix | 225-228 | 4 | |
| α-helix | 232-235 | 4 | |
| α-helix | 239-241 | 3 | |
| α-helix | 243-254 | 12 | |
| α-helix | 258-265 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 279-292 | 14 | |
| α-helix | 300-318 | 19 | |
| α-helix | 326-339 | 14 | |
| α-helix | 343-348 | 6 | |
| α-helix | 353-359 | 7 | |
| α-helix | 360-364 | 5 | |
| α-helix | 371-379 | 9 | |
| α-helix | 383-385 | 3 | |
| α-helix | 391-399 | 9 | |
| α-helix | 403-405 | 3 | |
| α-helix | 406-410 | 5 | |
| α-helix | 414-426 | 13 | |
| α-helix | 461-466 | 6 | |
| α-helix | 469-474 | 6 | |
| α-helix | 482-490 | 9 | |
| α-helix | 497-507 | 11 | |
| α-helix | 508-510 | 3 | |
| α-helix | 516-529 | 14 | |
| α-helix | 532-560 | 29 | |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Nucleoporin SEH1 | A, B, E, F | protein | 351 | Saccharomyces cerevisiae | P53011 (AlphaFold model) |
| Nucleoporin NUP85 | C, D, G, H | protein | 570 | Saccharomyces cerevisiae | P46673 (AlphaFold model) |
Sequence of entity 1 (A, B, E, F), FASTA
>3F3G_1 Nucleoporin SEH1 (chains A, B, E, F)
PHMQPFDSGHDDLVHDVVYDFYGRHVATCSSDQHIKVFKLDKDTSNWELSDSWRAHDSSI
VAIDWASPEYGRIIASASYDKTVKLWEEDPDQEECSGRRWNKLCTLNDSKGSLYSVKFAP
AHLGLKLACLGNDGILRLYDALEPSDLRSWTLTSEMKVLSIPPANHLQSDFCLSWCPSRF
SPEKLAVSALEQAIIYQRGKDGKLHVAAKLPGHKSLIRSISWAPSIGRWYQLIATGCKDG
RIRIFKITEKLSPLASEESLTNSNMFDNSADVDMDAQGRSDSNTEEKAELQSNLQVELLS
EHDDHNGEVWSVSWNLTGTILSSAGDDGKVRLWKATYSNEFKCMSVITAQQ
Sequence of entity 2 (C, D, G, H), FASTA
>3F3G_2 Nucleoporin NUP85 (chains C, D, G, H)
MTIDDSNRLLMDVDQFDFLDDGTAQLSNNKTDEEEQLYKRDPVSGAILVPMTVNDQPIEK
NGDKMPLKFKLGPLSYQNMAFITAKDKYKLYPVRIPRLDTSKEFSAYVSGLFEIYRDLGD
DRVFNVPTIGVVNSNFAKEHNATVNLAMEAILNELEVFIGRVKDQDGRVNRFYELEESLT
VLNCLRTMYFILDGQDVEENRSEFIESLLNWINRSDGEPDEEYIEQVFSVKDSTAGKKVF
ETQYFWKLLNQLVLRGLLSQAIGCIERSDLLPYLSDTCAVSFDAVSDSIELLKQYPKDSS
STFREWKNLVLKLSQAFGSSATDISGELRDYIEDFLLVIGGNQRKILQYSRTWYESFCGF
LLYYIPSLELSAEYLQMSLEANVVDITNDWEQPCVDIISGKIHSILPVMESLDSCTAAFT
AMICEAKGLIENIFEGEKNSDDYSNEDNEMLEDLFSYRNGMASYMLNSFAFELCSLGDKE
LWPVAIGLIALSATGTRSAKKMVIAELLPHYPFVTNDDIEWMLSICVEWRLPEIAKEIYT
TLGNQMLSAHNIIESIANFSRAGKYELVKS
Primary citation
A fence-like coat for the nuclear pore membrane. Debler, E.W., Ma, Y., Seo, H.S. et al. Mol Cell (2008) 32:815-826. DOI 10.1016/j.molcel.2008.12.001 · PubMed
Other PDB entries of the same protein (UniProt P53011 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 3F3F 2.9 Å, Crystal structure of the nucleoporin pair Nup85-Seh1, space group P21
- 8ADL 2.95 Å, Cryo-EM structure of the SEA complex
- 3F3P 3.2 Å, Crystal structure of the nucleoporin pair Nup85-Seh1, space group P21212
- 9H5K 3.2 Å, Cryo-EM structure of the SEAC-EGOC supercomplex
- 3EWE 3.5 Å, Crystal Structure of the Nup85/Seh1 Complex
- 6X08 4.19 Å, Nup85-Seh1 from S. cerevisiae bound by VHH-SAN2
- 4XMM 7.38 Å, Structure of the yeast coat nucleoporin complex, space group C2
- 8TIE 8.1 Å, Double nuclear outer ring of Nup84-complexes from the yeast NPC
- 7N84 11.6 Å, Double nuclear outer ring from the isolated yeast NPC
- 7N9F 37.0 Å, Structure of the in situ yeast NPC
- 8ZZ1 Structure of the Nup84 sub-complex of the Nuclear Pore Complex
- 8ZZA Integrative structure and functional anatomy of a single spoke of a nuclear pore complex
Browse structure collections
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