6R7N: COP9 signalosome complex subunit 1
Structural basis of Cullin-2 RING E3 ligase regulation by the COP9 signalosome. Determined by electron microscopy at 6.5 Å resolution. Released 28 Aug 2019.
- Method
- Electron microscopy
- Resolution
- 6.5 Å
- Organism
- Homo sapiens
- Chains
- 10
- Atoms
- 24,672
- Mol. weight
- 367.02 kDa
- Ligands
- ZN
- Released
- 28 Aug 2019
Explore 6R7N in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
6R7N contains 163 α-helices and 31 β-strands across 10 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: 22 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 84-89 | 6 | |
| α-helix | 94-105 | 12 | |
| α-helix | 112-122 | 11 | |
| α-helix | 129-144 | 20 | |
| α-helix | 164-191 | 28 | |
| α-helix | 194-211 | 18 | |
| α-helix | 214-222 | 9 | |
| α-helix | 231-248 | 18 | |
| α-helix | 254-262 | 9 | |
| α-helix | 266-270 | 5 | |
| α-helix | 282-295 | 14 | |
| α-helix | 299-306 | 8 | |
| α-helix | 322-336 | 15 | |
| α-helix | 339-341 | 3 | |
| α-helix | 342-346 | 5 | |
| α-helix | 353-357 | 5 | |
| α-helix | 360-370 | 11 | |
| α-helix | 374-389 | 16 | |
| α-helix | 395-414 | 20 | |
| α-helix | 422-428 | 7 | |
| α-helix | 434-446 | 13 | |
| β-strand | 451-454 | 4 | 1 |
| β-strand | 459-462 | 4 | 1 |
| α-helix | 467-496 | 30 | |
Chain B: 25 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 2-4 | 3 | |
| α-helix | 5-24 | 20 | |
| α-helix | 34-41 | 8 | |
| α-helix | 51-57 | 7 | |
| α-helix | 68-81 | 14 | |
| α-helix | 86-96 | 11 | |
| α-helix | 105-122 | 18 | |
| α-helix | 128-138 | 11 | |
| α-helix | 147-162 | 16 | |
| α-helix | 165-176 | 12 | |
| α-helix | 180-182 | 3 | |
| α-helix | 196-208 | 13 | |
| α-helix | 211-220 | 10 | |
| α-helix | 221-225 | 5 | |
| α-helix | 234-248 | 15 | |
| α-helix | 251-268 | 18 | |
| α-helix | 273-287 | 15 | |
| α-helix | 299-302 | 4 | |
| α-helix | 309-319 | 11 | |
| α-helix | 323-332 | 10 | |
| α-helix | 334-338 | 5 | |
| α-helix | 341-363 | 23 | |
| β-strand | 366 | 1 | 2 |
| β-strand | 368-370 | 3 | 13 |
| α-helix | 371-378 | 8 | |
| α-helix | 382-395 | 14 | |
| β-strand | 400-403 | 4 | 13 |
| β-strand | 408-411 | 4 | 13 |
| α-helix | 420-441 | 22 | |
Chain C: 23 helices, 3 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-15 | 11 | |
| α-helix | 22-30 | 9 | |
| α-helix | 38-42 | 5 | |
| α-helix | 54-64 | 11 | |
| α-helix | 74-85 | 12 | |
| α-helix | 97-113 | 17 | |
| α-helix | 119-131 | 13 | |
| α-helix | 141-151 | 11 | |
| α-helix | 156-161 | 6 | |
| α-helix | 178-194 | 17 | |
| α-helix | 198-209 | 12 | |
| α-helix | 218-234 | 17 | |
| α-helix | 238-242 | 5 | |
| α-helix | 247-248 | 2 | |
| α-helix | 249-253 | 5 | |
| α-helix | 254-256 | 3 | |
| α-helix | 258-267 | 10 | |
| α-helix | 272-281 | 10 | |
| α-helix | 283-288 | 6 | |
| α-helix | 294-308 | 15 | |
| β-strand | 316-318 | 3 | 8 |
| α-helix | 319-326 | 8 | |
| α-helix | 331-343 | 13 | |
| β-strand | 349-352 | 4 | 8 |
| β-strand | 357-360 | 4 | 8 |
| α-helix | 370-398 | 29 | |
Chain D: 25 helices, 3 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 4-13 | 10 | |
| α-helix | 19-34 | 16 | |
| α-helix | 39-51 | 13 | |
| α-helix | 59-72 | 14 | |
| α-helix | 73-75 | 3 | |
| α-helix | 78-92 | 15 | |
| α-helix | 100-116 | 17 | |
| α-helix | 120-126 | 7 | |
| α-helix | 141-157 | 17 | |
| α-helix | 161-174 | 14 | |
| α-helix | 181-198 | 18 | |
| α-helix | 201-212 | 12 | |
| α-helix | 219-234 | 16 | |
| α-helix | 240-250 | 11 | |
| α-helix | 253-256 | 4 | |
| α-helix | 261-268 | 8 | |
| α-helix | 271-274 | 4 | |
| α-helix | 275-283 | 9 | |
| α-helix | 287-290 | 4 | |
| α-helix | 299-314 | 16 | |
| β-strand | 318-320 | 3 | 2 |
| α-helix | 321-327 | 7 | |
| α-helix | 332-344 | 13 | |
| β-strand | 350-353 | 4 | 2 |
| β-strand | 358-361 | 4 | 2 |
| α-helix | 367-390 | 24 | |
| α-helix | 393-399 | 7 | |
| α-helix | 400-405 | 6 | |
Chain G: 9 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 11-21 | 11 | |
| α-helix | 25-34 | 10 | |
| α-helix | 50-55 | 6 | |
| α-helix | 61-71 | 11 | |
| α-helix | 75-80 | 6 | |
| α-helix | 90-107 | 18 | |
| α-helix | 113-119 | 7 | |
| α-helix | 125-137 | 13 | |
| β-strand | 141 | 1 | 9 |
| β-strand | 145-146 | 2 | 10 |
| β-strand | 151-152 | 2 | 10 |
| β-strand | 157 | 1 | 9 |
| α-helix | 167-214 | 48 | |
Chain H: 12 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 13-24 | 12 | |
| α-helix | 34-45 | 12 | |
| α-helix | 50-59 | 10 | |
| α-helix | 62-67 | 6 | |
| α-helix | 70-82 | 13 | |
| α-helix | 86-91 | 6 | |
| α-helix | 103-124 | 22 | |
| β-strand | 128-129 | 2 | 3 |
| α-helix | 130-137 | 8 | |
| α-helix | 141-151 | 11 | |
| α-helix | 153 | 1 | |
| β-strand | 154 | 1 | 4 |
| α-helix | 155 | 1 | |
| β-strand | 161-162 | 2 | 3 |
| β-strand | 163 | 1 | 4 |
| α-helix | 198-206 | 9 | |
Chain O: 36 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 11-22 | 12 | |
| α-helix | 32-47 | 16 | |
| α-helix | 50-75 | 26 | |
| α-helix | 82-109 | 28 | |
| α-helix | 110-114 | 5 | |
| α-helix | 139-148 | 10 | |
| α-helix | 153-154 | 2 | |
| α-helix | 155-159 | 5 | |
| α-helix | 160-171 | 12 | |
| α-helix | 178-190 | 13 | |
| α-helix | 201-202 | 2 | |
| α-helix | 203-207 | 5 | |
| α-helix | 208-229 | 22 | |
| α-helix | 232-252 | 21 | |
| α-helix | 258-271 | 14 | |
| α-helix | 276-287 | 12 | |
| α-helix | 291-303 | 13 | |
| α-helix | 308-322 | 15 | |
| α-helix | 323-329 | 7 | |
| α-helix | 336-355 | 20 | |
| α-helix | 362-376 | 15 | |
| α-helix | 386-398 | 13 | |
| α-helix | 410-422 | 13 | |
| α-helix | 428 | 1 | |
| α-helix | 429-434 | 6 | |
| α-helix | 435-445 | 11 | |
| α-helix | 452-464 | 13 | |
| α-helix | 467-492 | 26 | |
| α-helix | 531-547 | 17 | |
| β-strand | 564-566 | 3 | 11 |
| β-strand | 573-575 | 3 | 11 |
| α-helix | 580-590 | 11 | |
| β-strand | 595 | 1 | 12 |
| α-helix | 596-603 | 8 | |
| α-helix | 610-620 | 11 | |
| β-strand | 635 | 1 | 12 |
| α-helix | 660-688 | 29 | |
| α-helix | 696-699 | 4 | |
| α-helix | 703-707 | 5 | |
| α-helix | 718-725 | 8 | |
Chain P: 4 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 3-4 | 2 | 5 |
| β-strand | 7-8 | 2 | 6 |
| β-strand | 13-14 | 2 | 6 |
| β-strand | 17-18 | 2 | 5 |
| α-helix | 25-35 | 11 | |
| α-helix | 57-60 | 4 | |
| α-helix | 76-78 | 3 | |
| α-helix | 90-92 | 3 | |
2 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| COP9 signalosome complex subunit 1 | A | protein | 491 | Homo sapiens | Q13098 (AlphaFold model) |
| COP9 signalosome complex subunit 4 | D | protein | 406 | Homo sapiens | Q9BT78 (AlphaFold model) |
| COP9 signalosome complex subunit 8 | H | protein | 199 | Homo sapiens | Q99627 (AlphaFold model) |
| Elongin-B | P | protein | 104 | Homo sapiens | Q15370 (AlphaFold model) |
| Elongin-C | Q | protein | 112 | Homo sapiens | Q15369 |
| RBX1 E3 ubiquitin-protein ligase | R | protein | 86 | Homo sapiens | P62877 |
| COP9 signalosome complex subunit 3 | C | protein | 401 | Homo sapiens | Q9UNS2 |
| CSN7B_HUMAN | G | protein | 215 | Homo sapiens | Q9H9Q2 |
| Cullin-2 | O | protein | 745 | Homo sapiens | Q13617 |
| COP9 signalosome complex subunit 2 | B | protein | 443 | Homo sapiens | P61201 |
Sequence of entity 1 (A), FASTA
>6R7N_1 COP9 signalosome complex subunit 1 (chains A)
MPLPVQVFNLQGAVEPMQIDVDPQEDPQNAPDVNYVVENPSLDLEQYAASYSGLMRIERL
QFIADHCPTLRVEALKMALSFVQRTFNVDMYEEIHRKLSEATRSSLRELQNAPDAIPESG
VEPPALDTAWVEATRKKALLKLEKLDTDLKNYKGNSIKESIRRGHDDLGDHYLDCGDLSN
ALKCYSRARDYCTSAKHVINMCLNVIKVSVYLQNWSHVLSYVSKAESTPEIAEQRGERDS
QTQAILTKLKCAAGLAELAARKYKQAAKCLLLASFDHCDFPELLSPSNVAIYGGLCALAT
FDRQELQRNVISSSSFKLFLELEPQVRDIIFKFYESKYASCLKMLDEMKDNLLLDMYLAP
HVRTLYTQIRNRALIQYFSPYVSADMHRMAAAFNTTVAALEDELTQLILEGLISARVDSH
SKILYARDVDQRSTTFEKSLLMGKEFQRRAKAMMLRAAVLRNQIHVKSPPREGSQGELTP
ANSQSRMSTNM
Sequence of entity 2 (D), FASTA
>6R7N_2 COP9 signalosome complex subunit 4 (chains D)
MAAAVRQDLAQLMNSSGSHKDLAGKYRQILEKAIQLSGAEQLEALKAFVEAMVNENVSLV
ISRQLLTDFCTHLPNLPDSTAKEIYHFTLEKIQPRVISFEEQVASIRQHLASIYEKEEDW
RNAAQVLVGIPLETGQKQYNVDYKLETYLKIARLYLEDDDPVQAEAYINRASLLQNESTN
EQLQIHYKVCYARVLDYRRKFIEAAQRYNELSYKTIVHESERLEALKHALHCTILASAGQ
QRSRMLATLFKDERCQQLAAYGILEKMYLDRIIRGNQLQEFAAMLMPHQKATTADGSSIL
DRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVH
FETREALPTWDKQIQSLCFQVNNLLEKISQTAPEWTAQAMEAQMAQ
Sequence of entity 3 (H), FASTA
>6R7N_3 COP9 signalosome complex subunit 8 (chains H)
FSFKKLLDQCENQELEAPGGIATPPVYGQLLALYLLHNDMNNARYLWKRIPPAIKSANSE
LGGIWSVGQRIWQRDFPGIYTTINAHQWSETVQPIMEALRDATRRRAFALVSQAYTSIIA
DDFAAFVGLPVEEAVKGILEQGWQADSTTRMVLPRKPVAGALDVSFNKFIPLSEPAPVPP
IPNEQQLARLTDYVAFLEN
Sequence of entity 4 (P), FASTA
>6R7N_4 Elongin-B (chains P)
MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGEC
GFTSQTARPQAPATVGLAFRADDTFEALCIEPFSSPPELPDVMK
Sequence of entity 5 (Q), FASTA
>6R7N_5 Elongin-C (chains Q)
MDGEEKTYGGCEGPDAMYVKLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEV
NFREIPSHVLSKVCMYFTYKVRYTNSSTEIPEFPIAPEIALELLMAANFLDC
Sequence of entity 6 (R), FASTA
>6R7N_6 RBX1 E3 ubiquitin-protein ligase (chains R)
AKKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCN
HAFHFHCISRWLKTRQVCPLDNREWE
Sequence of entity 7 (C), FASTA
>6R7N_7 COP9 signalosome complex subunit 3 (chains C)
SALEQFVNSVRQLSAQGQMTQLCELINKSGELLAKNLSHLDTVLGALDVQEHSLGVLAVL
FVKFSMPSVPDFETLFSQVQLFISTCNGEHIRYATDTFAGLCHQLTNALVERKQPLRGIG
ILKQAIDKMQMNTNQLTSIHADLCQLCLLAKCFKPALPYLDVDMMDICKENGAYDAKHFL
CYYYYGGMIYTGLKNFERALYFYEQAITTPAMAVSHIMLESYKKYILVSLILLGKVQQLP
KYTSQIVGRFIKPLSNAYHELAQVYSTNNPSELRNLVNKHSETFTRDNNMGLVKQCLSSL
YKKNIQRLTKTFLTLSLQDMASRVQLSGPQEAEKYVLHMIEDGEIFASINQKDGMVSFHD
NPEKYNNPAMLHNIDQEMLKCIELDERLKAMDQEITVNPQF
Sequence of entity 8 (G), FASTA
>6R7N_8 CSN7B_HUMAN (chains G)
MAGEQKPSSNLLEQFILLAKGTSGSALTALISQVLEAPGVYVFGELLELANVQELAEGAN
AAYLQLLNLFAYGTYPDYIANKESLPELSTAQQNKLKHLTIVSLASRMKCIPYSVLLKDL
EMRNLRELEDLIIEAVYTDIIQGKLDQRNQLLEVDFCIGRDIRKKDLSAIARTLQEWCVG
CEVVLSGIEEQVSRANQHKEQQLGLKQQIESEVAN
Sequence of entity 9 (O), FASTA
>6R7N_9 Cullin-2 (chains O)
MSLKPRVVDFDETWNKLLTTIKAVVMLEYVERATWNDRFSDIYALCVAYPEPLGERLYTE
TKIFLENHVRHLHKRVLESEEQVLVMYHRYWEEYSKGADYMDCLYRYLNTQFIKKNKLTE
ADLQYGYGGVDMNEPLMEIGELALDMWRKLMVEPLQAILIRMLLREIKNDRGGEDPNQKV
IHGVINSFVHVEQYKKKFPLKFYQEIFESPFLTETGEYYKQEASNLLQESNCSQYMEKVL
GRLKDEEIRCRKYLHPSSYTKVIHECQQRMVADHLQFLHAECHNIIRQEKKNDMANMYVL
LRAVSTGLPHMIQELQNHIHDEGLRATSNLTQENMPTLFVESVLEVHGKFVQLINTVLNG
DQHFMSALDKALTSVVNYREPKSVCKAPELLAKYCDNLLKKSAKGMTENEVEDRLTSFIT
VFKYIDDKDVFQKFYARMLAKRLIHGLSMSMDSEEAMINKLKQACGYEFTSKLHRMYTDM
SVSADLNNKFNNFIKNQDTVIDLGISFQIYVLQAGAWPLTQAPSSTFAIPQELEKSVQMF
ELFYSQHFSGRKLTWLHYLCTGEVKMNYLGKPYVAMVTTYQMAVLLAFNNSETVSYKELQ
DSTQMNEKELTKTIKSLLDVKMINHDSEKEDIDAESSFSLNMNFSSKRTKFKITTSMQKD
TPQEMEQTRSAVDEDRKMYLQAAIVRIMKARKVLRHNALIQEVISQSRARFNPSISMIKK
CIEVLIDKQYIERSQASADEYSYVA
Sequence of entity 10 (B), FASTA
>6R7N_10 COP9 signalosome complex subunit 2 (chains B)
MSDMEDDFMCDDEEDYDLEYSEDSNSEPNVDLENQYYNSKALKEDDPKAALSSFQKVLEL
EGEKGEWGFKALKQMIKINFKLTNFPEMMNRYKQLLTYIRSAVTRNYSEKSINSILDYIS
TSKQMDLLQEFYETTLEALKDAKNDRLWFKTNTKLGKLYLEREEYGKLQKILRQLHQSCQ
TDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKALYEQSLHIKSAIPHPLIMGVIREC
GGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKSGINPFDSQEAK
PYKNDPEILAMTNLVSAYQNNDITEFEKILKTNHSNIMDDPFIREHIEELLRNIRTQVLI
KLIKPYTRIHIPFISKELNIDVADVESLLVQCILDNTIHGRIDQVNQLLELDHQKRGGAR
YTALDKWTNQLNSLNQAVVSKLA
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| ZN | Zinc ion | Zn | 3 |
Primary citation
Structural basis of Cullin 2 RING E3 ligase regulation by the COP9 signalosome. Faull, S.V., Lau, A.M.C., Martens, C. et al. Nat Commun (2019) 10:3814-3814. DOI 10.1038/s41467-019-11772-y · PubMed
Other PDB entries of the same protein (UniProt Q13098 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 9QO4 2.95 Å, Dissociation-state-3 of 9-subunit CSN and SCF (SKP1-SKP2-CKS1) complex
- 9EFQ 2.96 Å, Cryo-EM structure of COP9 signalosome precatalytic state with neddylated cullin-2
- 9PH4 3.0 Å, Cryo-EM structure of COP9 signalosome in complex with CSN5i-1a
- 9QO6 3.0 Å, 9-subunit COP9 signalosome complex
- 9EFV 3.03 Å, Cryo-EM structure of CSN-N8CUL1 in complex with CSN5i-3
- 9EFM 3.16 Å, Cryo-EM structure of COP9 signalosome precatalytic state with neddylated cullin-1
- 9QO1 3.23 Å, Activated 9-subunit COP9 signalosome and neddylated SCF (SKP1-SKP2-CKS1) complex structure
- 9QO0 3.26 Å, Pre-activated 9-subunit COP9 signalosome and neddylated SCF (Skp1-Skp2-Cks1) complex…
- 9E77 3.3 Å, Cryo-EM structure of CSN-N8 in complex with CSN5i-3
- 9E81 3.3 Å, Cryo-EM structure of COP9 signalosome in complex with CSN5i-3
- 9EG8 3.39 Å, Cryo-EM structure of COP9 signalosome precatalytic state with neddylated cullin-4A
- 9E5Z 3.4 Å, Cryo-EM structure of COP9 signalosome
Browse structure collections
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