6C24: PRC2
Cryo-EM structure of PRC2 bound to cofactors AEBP2 and JARID2 in the Extended Active State. Determined by electron microscopy at 3.5 Å resolution. Released 24 Jan 2018.
- Method
- Electron microscopy
- Resolution
- 3.5 Å
- Organism
- Homo sapiens
- Chains
- 12
- Atoms
- 13,346
- Mol. weight
- 639.13 kDa
- Released
- 24 Jan 2018
Explore 6C24 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
6C24 contains 38 α-helices and 117 β-strands across 11 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: 2 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 429 | 1 | 1 |
| β-strand | 432-433 | 2 | 2 |
| α-helix | 460-469 | 10 | |
| β-strand | 474-477 | 4 | 2 |
| β-strand | 486 | 1 | 1 |
| β-strand | 488-491 | 4 | 2 |
| β-strand | 528-530 | 3 | 3 |
| α-helix | 544-547 | 4 | |
Chain C: 5 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 15-62 | 48 | |
| β-strand | 82 | 1 | 40 |
| β-strand | 97 | 1 | 40 |
| β-strand | 114-115 | 2 | 10 |
| β-strand | 121 | 1 | 9 |
| α-helix | 168-179 | 12 | |
| α-helix | 220-223 | 4 | |
| α-helix | 225-228 | 4 | |
| α-helix | 237-246 | 10 | |
Chain E: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 144-146 | 3 | |
| α-helix | 147-150 | 4 | |
Chain K: 11 helices, 17 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 275-277 | 3 | |
| α-helix | 279-283 | 5 | |
| β-strand | 285-286 | 2 | 4 |
| β-strand | 291-292 | 2 | 4 |
| α-helix | 426-427 | 2 | |
| α-helix | 436-447 | 12 | |
| α-helix | 453-457 | 5 | |
| α-helix | 463-475 | 13 | |
| β-strand | 524 | 1 | 5 |
| α-helix | 535-538 | 4 | |
| β-strand | 548 | 1 | 5 |
| α-helix | 572-574 | 3 | |
| α-helix | 605-608 | 4 | |
| β-strand | 614-618 | 5 | 6 |
| β-strand | 624-628 | 5 | 6 |
| β-strand | 632 | 1 | 7 |
| β-strand | 637-640 | 4 | 8 |
| β-strand | 645-646 | 2 | 9 |
| α-helix | 648-661 | 14 | |
| β-strand | 666-668 | 3 | 9 |
| β-strand | 674-676 | 3 | 9 |
| β-strand | 680-681 | 2 | 10 |
| α-helix | 683-686 | 4 | |
| β-strand | 688-689 | 2 | 11 |
| β-strand | 695-702 | 8 | 8 |
| β-strand | 705-712 | 8 | 8 |
| β-strand | 716 | 1 | 7 |
| β-strand | 723-724 | 2 | 11 |
Chain L: 3 helices, 36 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 82 | 1 | 12 |
| β-strand | 88 | 1 | 13 |
| β-strand | 99-101 | 3 | 14 |
| β-strand | 112 | 1 | 15 |
| β-strand | 113-116 | 4 | 14 |
| β-strand | 120-122 | 3 | 14 |
| β-strand | 125-127 | 3 | 15 |
| β-strand | 130-133 | 4 | 15 |
| β-strand | 138-139 | 2 | 14 |
| β-strand | 147-154 | 8 | 16 |
| β-strand | 161-167 | 7 | 16 |
| β-strand | 171-176 | 6 | 16 |
| β-strand | 181-186 | 6 | 16 |
| β-strand | 195-197 | 3 | 17 |
| β-strand | 207-209 | 3 | 17 |
| β-strand | 215-219 | 5 | 17 |
| β-strand | 224-227 | 4 | 17 |
| β-strand | 239-244 | 6 | 18 |
| β-strand | 251-255 | 5 | 18 |
| β-strand | 260-263 | 4 | 18 |
| α-helix | 268-278 | 11 | |
| α-helix | 288-290 | 3 | |
| β-strand | 300-301 | 2 | 18 |
| β-strand | 309-315 | 7 | 19 |
| β-strand | 318-323 | 6 | 19 |
| β-strand | 327-333 | 7 | 19 |
| β-strand | 350-357 | 8 | 19 |
| β-strand | 368-370 | 3 | 20 |
| β-strand | 376-379 | 4 | 20 |
| β-strand | 387-390 | 4 | 20 |
| α-helix | 412 | 1 | |
| β-strand | 413-417 | 5 | 21 |
| β-strand | 424-425 | 2 | 22 |
| β-strand | 426-427 | 2 | 21 |
| β-strand | 428 | 1 | 13 |
| β-strand | 429 | 1 | 21 |
| β-strand | 434 | 1 | 13 |
| β-strand | 437-438 | 2 | 22 |
| β-strand | 439 | 1 | 12 |
Chain M: 6 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 565-566 | 2 | 6 |
| β-strand | 573-574 | 2 | 6 |
| α-helix | 576-578 | 3 | |
| α-helix | 592-600 | 9 | |
| α-helix | 608-624 | 17 | |
| α-helix | 630-650 | 21 | |
| α-helix | 653-664 | 12 | |
| α-helix | 671-681 | 11 | |
Chain N: 4 helices, 33 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 6-26 | 21 | |
| α-helix | 28-31 | 4 | |
| β-strand | 32-39 | 8 | 3 |
| β-strand | 50-54 | 5 | 23 |
| β-strand | 61-65 | 5 | 23 |
| β-strand | 77-87 | 11 | 23 |
| β-strand | 116-123 | 8 | 23 |
| β-strand | 132 | 1 | 24 |
| β-strand | 140 | 1 | 24 |
| β-strand | 141-142 | 2 | 25 |
| β-strand | 150-151 | 2 | 25 |
| β-strand | 172 | 1 | 25 |
| β-strand | 183-185 | 3 | 26 |
| β-strand | 193-195 | 3 | 26 |
| β-strand | 197 | 1 | 27 |
| β-strand | 202-205 | 4 | 26 |
| β-strand | 221-223 | 3 | 26 |
| β-strand | 230-235 | 6 | 27 |
| β-strand | 242-247 | 6 | 27 |
| β-strand | 251-256 | 6 | 27 |
| β-strand | 267-270 | 4 | 27 |
| β-strand | 279 | 1 | 28 |
| β-strand | 288-289 | 2 | 29 |
| β-strand | 291 | 1 | 28 |
| β-strand | 298-299 | 2 | 30 |
| β-strand | 301-302 | 2 | 29 |
| β-strand | 305 | 1 | 29 |
| β-strand | 312-313 | 2 | 30 |
| β-strand | 320-325 | 6 | 31 |
| α-helix | 326 | 1 | |
| β-strand | 333-337 | 5 | 31 |
| β-strand | 342-344 | 3 | 31 |
| α-helix | 356-361 | 6 | |
| β-strand | 368-370 | 3 | 31 |
| β-strand | 377-382 | 6 | 3 |
| β-strand | 389-394 | 6 | 3 |
| β-strand | 398-404 | 7 | 3 |
Chain O: 0 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| β-strand | 27 | 1 | 9 |
3 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 |
|---|
| Polycomb protein SUZ12 | A, M, Q | protein | 739 | Homo sapiens | Q15022 (AlphaFold model) |
| Protein Jumonji | B | protein | 345 | Homo sapiens | Q92833 (AlphaFold model) |
| Protein Jumonji | E | protein | 345 | Homo sapiens | Q92833 (AlphaFold model) |
| Histone-lysine N-methyltransferase EZH2 | C, K | protein | 746 | Homo sapiens | Q15910 (AlphaFold model) |
| Polycomb protein EED | L | protein | 441 | Homo sapiens | O75530 (AlphaFold model) |
| Histone-binding protein RBBP4 | N | protein | 425 | Homo sapiens | Q09028 |
| JARID2-substrate | O | protein | 7 | Homo sapiens | |
| Zinc finger protein AEBP2 | P | protein | 295 | Homo sapiens | Q6ZN18 |
| SUZ12 | Z | protein | 135 | Homo sapiens | |
Sequence of entity 1 (A, M, Q), FASTA
>6C24_1 Polycomb protein SUZ12 (chains A, M, Q)
MAPQKHGGGGGGGSGPSAGSGGGGFGGSAAVAAATASGGKSGGGSCGGGGSYSASSSSSA
AAAAGAAVLPVKKPKMEHVQADHELFLQAFEKPTQIYRFLRTRNLIAPIFLHRTLTYMSH
RNSRTNIKRKTFKVDDMLSKVEKMKGEQESHSLSAHLQLTFTGFFHKNDKPSPNSENEQN
SVTLEVLLVKVCHKKRKDVSCPIRQVPTGKKQVPLNPDLNQTKPGNFPSLAVSSNEFEPS
NSHMVKSYSLLFRVTRPGRREFNGMINGETNENIDVNEELPARRKRNREDGEKTFVAQMT
VFDKNRRLQLLDGEYEVAMQEMEECPISKKRATWETILDGKRLPPFETFSQGPTLQFTLR
WTGETNDKSTAPIAKPLATRNSESLHQENKPGSVKPTQTIAVKESLTTDLQTRKEKDTPN
ENRQKLRIFYQFLYNNNTRQQTEARDDLHCPWCTLNCRKLYSLLKHLKLCHSRFIFNYVY
HPKGARIDVSINECYDGSYAGNPQDIHRQPGFAFSRNGPVKRTPITHILVCRPKRTKASM
SEFLESEDGEVEQQRTYSSGHNRLYFHSDTCLPLRPQEMEVDSEDEKDPEWLREKTITQI
EEFSDVNEGEKEVMKLWNLHVMKHGFIADNQMNHACMLFVENYGQKIIKKNLCRNFMLHL
VSMHDFNLISIMSIDKAVTKLREMQQKLEKGESASPANEEITEEQNGTANGFSEINSKEK
ALETDSVSGVSKQSKKQKL
Sequence of entity 2 (B), FASTA
>6C24_2 Protein Jumonji (chains B)
RKRPRLQAQRKFAQSQPNSPSTTPVKIVEPLLPPPATQISDLSKRKPKTEDFLTFLCLRG
SPALPNSMVYFGSSQDEEEVEEEDDETEDVKTATNNASSSCQSTPRKGKTHKHVHNGHVF
NGSSRSTREKEPVQKHKSKEATPAKEKHSDHRADSRREQASANHPAAAPSTGSSAKGLAA
THHHPPLHRSAQDLRKQVSKVNGVTRMSSLGAGVTSAKKMREVRPSPSKTVKYTATVTKG
AVTYTKAKRELVKDTKPNHHKPSSAVNHTISGKTESSNAKTRKQVLSLGGASKSTGPAVN
GLKVSGRLNPKSCTKEVGGRQLREGLQLREGLRNSKRRLEEAHQA
Sequence of entity 3 (E), FASTA
>6C24_3 Protein Jumonji (chains E)
RKRPRLQAQRKFAQSQPNSPSTTPVKIVEPLLPPPATQISDLSKRKPKTEDFLTFLCLRG
SPALPNSMVYFGSSQDEEEVEEEDDETEDVKTATNNASSSCQSTPRKGKTHKHVHNGHVF
NGSSRSTREKEPVQKHKSKEATPAKEKHSDHRADSRREQASANHPAAAPSTGSSAKGLAA
THHHPPLHRSAQDLRKQVSKVNGVTRMSSLGAGVTSAKKMREVRPSPSKTVKYTATVTKG
AVTYTKAKRELVKDTKPNHHKPSSAVNHTISGKTESSNAKTRKQVLSLGGASKSTGPAVN
GLKVSGRLNPKSCTKEVGGRQLREGLQLREGLRNSKRRLEEAHQA
Sequence of entity 4 (C, K), FASTA
>6C24_4 Histone-lysine N-methyltransferase EZH2 (chains C, K)
MGQTGKKSEKGPVCWRKRVKSEYMRLRQLKRFRRADEVKSMFSSNRQKILERTEILNQEW
KQRRIQPVHILTSVSSLRGTRECSVTSDLDFPTQVIPLKTLNAVASVPIMYSWSPLQQNF
MVEDETVLHNIPYMGDEVLDQDGTFIEELIKNYDGKVHGDRECGFINDEIFVELVNALGQ
YNDDDDDDDGDDPEEREEKQKDLEDHRDDKESRPPRKFPSDKIFEAISSMFPDKGTAEEL
KEKYKELTEQQLPGALPPECTPNIDGPNAKSVQREQSLHSFHTLFCRRCFKYDCFLHPFH
ATPNTYKRKNTETALDNKPCGPQCYQHLEGAKEFAAALTAERIKTPPKRPGGRRRGRLPN
NSSRPSTPTINVLESKDTDSDREAGTETGGENNDKEEEEKKDETSSSSEANSRCQTPIKM
KPNIEPPENVEWSGAEASMFRVLIGTYYDNFCAIARLIGTKTCRQVYEFRVKESSIIAPA
PAEDVDTPPRKKKRKHRLWAAHCRKIQLKKDGSSNHVYNYQPCDHPRQPCDSSCPCVIAQ
NFCEKFCQCSSECQNRFPGCRCKAQCNTKQCPCYLAVRECDPDLCLTCGAADHWDSKNVS
CKNCSIQRGSKKHLLLAPSDVAGWGIFIKDPVQKNEFISEYCGEIISQDEADRRGKVYDK
YMCSFLFNLNNDFVVDATRKGNKIRFANHSVNPNCYAKVMMVNGDHRIGIFAKRAIQTGE
ELFFDYRYSQADALKYVGIEREMEIP
Sequence of entity 5 (L), FASTA
>6C24_5 Polycomb protein EED (chains L)
MSEREVSTAPAGTDMPAAKKQKLSSDENSNPDLSGDENDDAVSIESGTNTERPDTPTNTP
NAPGRKSWGKGKWKSKKCKYSFKCVNSLKEDHNQPLFGVQFNWHSKEGDPLVFATVGSNR
VTLYECHSQGEIRLLQSYVDADADENFYTCAWTYDSNTSHPLLAVAGSRGIIRIINPITM
QCIKHYVGHGNAINELKFHPRDPNLLLSVSKDHALRLWNIQTDTLVAIFGGVEGHRDEVL
SADYDLLGEKIMSCGMDHSLKLWRINSKRMMNAIKESYDYNPNKTNRPFISQKIHFPDFS
TRDIHRNYVDCVRWLGDLILSKSCENAIVCWKPGKMEDDIDKIKPSESNVTILGRFDYSQ
CDIWYMRFSMDFWQKMLALGNQVGKLYVWDLEVEDPHKAKCTTLTHHKCGAAIRQTSFSR
DSSILIAVCDDASIWRWDRLR
Sequence of entity 6 (N), FASTA
>6C24_6 Histone-binding protein RBBP4 (chains N)
MADKEAAFDDAVEERVINEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDVTRPEGKD
FSIHRLVLGTHTSDEQNHLVIASVQLPNDDAQFDASHYDSEKGEFGGFGSVSGKIEIEIK
INHEGEVNRARYMPQNPCIIATKTPSSDVLVFDYTKHPSKPDPSGECNPDLRLRGHQKEG
YGLSWNPNLSGHLLSASDDHTICLWDISAVPKEGKVVDAKTIFTGHTAVVEDVSWHLLHE
SLFGSVADDQKLMIWDTRSNNTSKPSHSVDAHTAEVNCLSFNPYSEFILATGSADKTVAL
WDLRNLKLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLNVWDLSKIGEEQSPEDAE
DGPPELLFIHGGHTAKISDFSWNPNEPWVICSVSEDNIMQVWQMAENIYNDEDPEGSVDP
EGQGS
Sequence of entity 7 (O), FASTA
>6C24_7 JARID2-substrate (chains O)
AAARKFA
Sequence of entity 8 (P), FASTA
>6C24_8 Zinc finger protein AEBP2 (chains P)
MSSDGEPLSRMDSEDSISSTIMDVDSTISSGRSTPAMMNGQGSTTSSSKNIAYNCCWDQC
QACFNSSPDLADHIRSIHVDGQRGGVFVCLWKGCKVYNTPSTSQSWLQRHMLTHSGDKPF
KCVVGGCNASFASQGGLARHVPTHFSQQNSSKVSSQPKAKEESPSKAGMNKRRKLKNKRR
RSLPRPHDFFDAQTLDAIRHRAICFNLSAHIESLGKGHSVVFHSTVIAKRKEDSGKIKLL
LHWMPEDILPDVWVNESERHQLKTKVVHLSKLPKDTALLLDPNIYRTMPQKRLKR
Sequence of entity 9 (Z), FASTA
>6C24_9 SUZ12 (chains Z)
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXX
Primary citation
Structures of human PRC2 with its cofactors AEBP2 and JARID2. Kasinath, V., Faini, M., Poepsel, S. et al. Science (2018) 359:940-944. DOI 10.1126/science.aar5700 · PubMed
Other PDB entries of the same protein (UniProt Q15022 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 5IJ7 2.62 Å, Structure of Hs/AcPRC2 in complex with a pyridone inhibitor
- 9XZI 2.69 Å, Crystal Structure of the SUZ12-RBBP4-PHF19-EPOP PRC2.1 Subcomplex
- 4W2R 2.81 Å, Structure of Hs/AcPRC2 in complex with 5,8-dichloro-2-[(4-methoxy-6-methyl-2-oxo-1,2-dihy…
- 6NQ3 2.89 Å, Crystal Structure of a SUZ12-RBBP4-PHF19-JARID2 Heterotetrameric Complex
- 5WAI 2.9 Å, Crystal Structure of a Suz12-Rbbp4-Jarid2-Aebp2 Heterotetrameric Complex
- 5HYN 2.95 Å, Structure of Human Polycomb Repressive Complex 2 (PRC2) with oncogenic histone H3K27M…
- 5IJ8 2.99 Å, Structure of the primary oncogenic mutant Y641N Hs/AcPRC2 in complex with a pyridone…
- 7TD5 2.99 Å, Structure of human PRC2-EZH1 containing phosphorylated SUZ12
- 6B3W 3.05 Å, Structure of Hs/AcPRC2 in complex with 5,8-dichloro-7-(3,5-dimethyl-1,2-oxazol-4-yl)-2-[(…
- 9KOF 3.07 Å, Structure of human PRC2 with SAH and H3K27me3 peptide
- 8VMI 3.1 Å, PRC2_AJ119-450 bound to H3K4me3
- 8VNV 3.1 Å, PRC2_AJ1-450 bound to H3K36me3 with histone H3 tail engaged
Browse structure collections
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