9PC8: Core Mediator of PIC-Med-SWI/SNF
Core Mediator of PIC-Med-SWI/SNF. Determined by electron microscopy at 3.4 Å resolution. Released 30 Sept 2026.
- Method
- Electron microscopy
- Resolution
- 3.4 Å
- Organism
- Saccharomyces cerevisiae
- Chains
- 17
- Atoms
- 29,298
- Mol. weight
- 749.71 kDa
- Released
- 30 Sept 2026
Explore 9PC8 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
9PC8 contains 159 α-helices and 106 β-strands across 17 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: 8 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 6-8 | 3 | |
| β-strand | 10-11 | 2 | 8 |
| α-helix | 14-19 | 6 | |
| α-helix | 24-26 | 3 | |
| α-helix | 27-31 | 5 | |
| α-helix | 42-55 | 14 | |
| α-helix | 89-96 | 8 | |
| α-helix | 100-107 | 8 | |
| β-strand | 112-121 | 10 | 8 |
| β-strand | 125-133 | 9 | 8 |
| β-strand | 148-156 | 9 | 8 |
| β-strand | 159-160 | 2 | 8 |
| α-helix | 166-188 | 23 | |
| β-strand | 193-195 | 3 | 18 |
| β-strand | 199-201 | 3 | 18 |
Chain A: 2 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 1582-1583 | 2 | |
| β-strand | 1586-1587 | 2 | 8 |
| α-helix | 1603-1605 | 3 | |
Chain b: 9 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 32-55 | 24 | |
| α-helix | 63-85 | 23 | |
| α-helix | 87-90 | 4 | |
| β-strand | 93-94 | 2 | 4 |
| α-helix | 107-113 | 7 | |
| α-helix | 117-119 | 3 | |
| α-helix | 120-133 | 14 | |
| α-helix | 145-169 | 25 | |
| α-helix | 198-206 | 9 | |
| α-helix | 209-211 | 3 | |
Chain c: 3 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 4-39 | 36 | |
| α-helix | 44-76 | 33 | |
| α-helix | 93-108 | 16 | |
Chain d: 24 helices, 16 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 18 | 1 | 2 |
| α-helix | 90-94 | 5 | |
| α-helix | 99-110 | 12 | |
| α-helix | 116-118 | 3 | |
| α-helix | 121-131 | 11 | |
| α-helix | 200-225 | 26 | |
| α-helix | 229-232 | 4 | |
| α-helix | 234-237 | 4 | |
| α-helix | 238-240 | 3 | |
| α-helix | 243-248 | 6 | |
| β-strand | 257-258 | 2 | 4 |
| α-helix | 263-265 | 3 | |
| α-helix | 266-282 | 17 | |
| α-helix | 284-311 | 28 | |
| β-strand | 322-326 | 5 | 5 |
| β-strand | 333-338 | 6 | 5 |
| α-helix | 342-344 | 3 | |
| β-strand | 354-360 | 7 | 5 |
| β-strand | 365-370 | 6 | 5 |
| α-helix | 381-385 | 5 | |
| β-strand | 387-396 | 10 | 6 |
| β-strand | 403-408 | 6 | 6 |
| α-helix | 418-421 | 4 | |
| α-helix | 426-448 | 23 | |
| α-helix | 449-455 | 7 | |
| β-strand | 457-461 | 5 | 6 |
| β-strand | 464-468 | 5 | 6 |
| β-strand | 472-480 | 9 | 6 |
| α-helix | 498-524 | 27 | |
| α-helix | 543-562 | 20 | |
| α-helix | 563-567 | 5 | |
| β-strand | 574-578 | 5 | 7 |
| α-helix | 594-604 | 11 | |
| α-helix | 607-610 | 4 | |
| α-helix | 612-613 | 2 | |
| β-strand | 614-620 | 7 | 7 |
| β-strand | 631-636 | 6 | 7 |
| β-strand | 644-649 | 6 | 7 |
| β-strand | 660-664 | 5 | 7 |
| α-helix | 667-682 | 16 | |
Chain e: 8 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 2-12 | 11 | 1 |
| α-helix | 16-27 | 12 | |
| β-strand | 32-43 | 12 | 1 |
| β-strand | 52 | 1 | 19 |
| β-strand | 58 | 1 | 19 |
| β-strand | 64-68 | 5 | 1 |
| α-helix | 72-74 | 3 | |
| α-helix | 87-92 | 6 | |
| α-helix | 102-108 | 7 | |
| β-strand | 165-169 | 5 | 1 |
| β-strand | 181-195 | 15 | 1 |
| α-helix | 200-206 | 7 | |
| β-strand | 209-223 | 15 | 1 |
| α-helix | 225-227 | 3 | |
| β-strand | 229-237 | 9 | 1 |
| β-strand | 244-245 | 2 | 1 |
| β-strand | 250-259 | 10 | 1 |
| α-helix | 265-281 | 17 | |
| β-strand | 289 | 1 | 1 |
| α-helix | 294-296 | 3 | |
Chain f: 5 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 3-9 | 7 | 1 |
| α-helix | 16-23 | 8 | |
| β-strand | 31 | 1 | 1 |
| β-strand | 37-44 | 8 | 1 |
| β-strand | 56-62 | 7 | 1 |
| β-strand | 69-72 | 4 | 1 |
| β-strand | 76-81 | 6 | 1 |
| α-helix | 89-94 | 6 | |
| α-helix | 104-110 | 7 | |
| β-strand | 116-124 | 9 | 1 |
| β-strand | 128-132 | 5 | 1 |
| β-strand | 135-143 | 9 | 1 |
| β-strand | 148-157 | 10 | 1 |
| α-helix | 163-176 | 14 | |
| β-strand | 182-185 | 4 | 1 |
| α-helix | 196-208 | 13 | |
Chain g: 5 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 7-19 | 13 | |
| α-helix | 23-29 | 7 | |
| α-helix | 47-59 | 13 | |
| α-helix | 63-85 | 23 | |
| α-helix | 101-117 | 17 | |
9 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 |
|---|
| Mediator of RNA polymerase II transcription subunit 20 | f | protein | 210 | Saccharomyces cerevisiae | P34162 (AlphaFold model) |
| Mediator of RNA polymerase II transcription subunit 4 | h | protein | 284 | Saccharomyces cerevisiae | Q12343 (AlphaFold model) |
| Mediator of RNA polymerase II transcription subunit 21 | n | protein | 140 | Saccharomyces cerevisiae | P47822 (AlphaFold model) |
| Mediator of RNA polymerase II transcription subunit 31 | o | protein | 127 | Saccharomyces cerevisiae | P38633 (AlphaFold model) |
| Mediator of RNA polymerase II transcription subunit 9 | j | protein | 149 | Saccharomyces cerevisiae | P33308 |
| Mediator of RNA polymerase II transcription subunit 17 | d | protein | 687 | Saccharomyces cerevisiae | P32569 |
| DNA-directed RNA polymerase II subunit RPB1 | A | protein | 1733 | Saccharomyces cerevisiae | P04050 |
| Mediator of RNA polymerase II transcription subunit 1 | p | protein | 566 | Saccharomyces cerevisiae | Q12321 |
| Mediator of RNA polymerase II transcription subunit 6 | a | protein | 295 | Saccharomyces cerevisiae | P38782 |
| Mediator of RNA polymerase II transcription subunit 8 | b | protein | 223 | Saccharomyces cerevisiae | P38304 |
| Mediator of RNA polymerase II transcription subunit 11 | c | protein | 115 | Saccharomyces cerevisiae | Q99278 |
| Mediator of RNA polymerase II transcription subunit 18 | e | protein | 307 | Saccharomyces cerevisiae | P32585 |
5 more molecules are not listed.
Sequence of entity 1 (f), FASTA
>9PC8_1 Mediator of RNA polymerase II transcription subunit 20 (chains f)
MGKSAVIFVERATPATLTELKDALSNSILSVRDPWSIDFRTYRCSIKNLPADVSKLMYSI
TFHHHGRQTVLIKDNSAMVTTAAAADIPPALVFNGSSTGVPESIDTILSSKLSNIWMQRQ
LIKGDAGETLILDGLTVRLVNLFSSTGFKGLLIELQADEAGEFETKIAGIEGHLAEIRAK
EYKTSSDSLGPDTSNEICDLAYQYVRALEL
Sequence of entity 2 (h), FASTA
>9PC8_2 Mediator of RNA polymerase II transcription subunit 4 (chains h)
MSVQDTKAVEFSMGHIRSSSVSLVAEATSNTNSEDKLSKVQLYEDLCRYEDTLSKLVESV
DRFKPNLDIAKDLIRTDEALFENVKLLAEYDNIYRNLQKIDKDSEELDSKTRKILEILNE
CHDELKALPMLEQVEFEKNTILQQRSKINSTELLDYATKLSKFTKIPPTFDKGAVGPNNF
IWPAEDALRRGMLAMASLHSKELTRIPGEEVEETEVPTVPPSQSEEQKGQMAKKEGTPKT
DSFIFDGTAKEVGDEADNTKDKEKEENNDDALDLDLDLFDPDDF
Sequence of entity 3 (n), FASTA
>9PC8_3 Mediator of RNA polymerase II transcription subunit 21 (chains n)
MTDRLTQLQICLDQMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTID
ELSTDIILKTRQINKLIDSLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLLR
HVDSLIEDFVDGIANSKKST
Sequence of entity 4 (o), FASTA
>9PC8_4 Mediator of RNA polymerase II transcription subunit 31 (chains o)
MSSTNGNAPATPSSDQNPLPTRFEVELEFIQSLANIQYVTYLLTQQQIWKSPNFKNYLKY
LEYWCNPPYSQCIVYPNCLFILKLLNGFMESAIVNEDGLLEGLDELPKIIQLQGPQWMNE
MVERWAN
Sequence of entity 5 (j), FASTA
>9PC8_5 Mediator of RNA polymerase II transcription subunit 9 (chains j)
MNLQNNVLNQIHQILLPTNPTLDKPNAEATKEEFSSAENRDEKDYLTNQQPKNLSTPSTS
SNGEFIPHIFYSLHQIRKDPNNLSNQLETLTGSIRHRLKLCKSLISENEDTKDLLSKSPS
EWQDIIHQREQELQIKRDVLDDLYRKLQR
Sequence of entity 6 (d), FASTA
>9PC8_6 Mediator of RNA polymerase II transcription subunit 17 (chains d)
MTTEDPDSNHLSSETGIKLALDPNLITLALSSNPNSSLHSPTSDEPVPESAGKADTSIRL
EGDELENKTKKDNDKNLKFLKNKDSLVSNPHEIYGSMPLEQLIPIILRQRGPGFKFVDLN
EKELQNEIKQLGSDSSDGHNSEKKDTDGADENVQIGEDFMEVDYEDKDNPVDSRNETDHK
TNENGETDDNIETVMTQEQFVKRRRDMLEHINLAMNESSLALEFVSLLLSSVKESTGMSS
MSPFLRKVVKPSSLNSDKIPYVAPTKKEYIELDILNKGWKLQSLNESKDLLRASFNKLSS
ILQNEHDYWNKIMQSISNKDVIFKIRDRTSGQKLLAIKYGYEDSGSTYKHDRGIANIRNN
IESQNLDLIPHSSSVFKGTDFVHSVKKFLRVRIFTKIESEDDYILSGESVMDRDSESEEA
ETKDIRKQIQLLKKIIFEKELMYQIKKECALLISYGVSIENENKVIIELPNEKFEIELLS
LDDDSIVNHEQDLPKINDKRANLMLVMLRLLLVVIFKKTLRSRISSPHGLINLNVDDDIL
IIRPILGKVRFANYKLLLKKIIKDYVLDIVPGSSITETEVEREQPQENKNIDDENITKLN
KEIRAFDKLLNIPRRELKINLPLTEHKSPNLSLMLESPNYCNALIHIKFSAGTEANAVSF
DTTFSDFKEVEDFLHFIVAEYIQQKKV
Sequence of entity 7 (A), FASTA
>9PC8_7 DNA-directed RNA polymerase II subunit RPB1 (chains A)
MVGQQYSSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGS
IDRNLKCQTCQEGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNE
LMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRKDGLK
LVGSWKKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLP
VPPPPVRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLLQFHV
ATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLE
LDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKR
AGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNA
DFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTF
IELDQVLNMLYWVPDWDGVIPTPAIIKPKPLWSGKQILSVAIPNGIHLQRFDEGTTLLSP
KDNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHN
GFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFEDNVVR
FLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQSVEGKRIAFGFV
DRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRR
LVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVD
LLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNI
RRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCC
LLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMT
LNTFHFAGVASKKVTSGVPRLKEILNVAKNMKTPSLTVYLEPGHAADQEQAKLIRSAIEH
TTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELDRA
AMNDKDLTMGQVGERIKQTFKNDLFVIWSEDNDEKLIIRCRVVRPKSLDAETEAEEDHML
KKIENTMLENITLRGVENIERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTVP
GIDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGG
LTSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTGA
FDVMIDEESLVKYMPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVDSGS
NDAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTS
PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS
PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSP
SYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKHNENENSR
Sequence of entity 8 (p), FASTA
>9PC8_8 Mediator of RNA polymerase II transcription subunit 1 (chains p)
MVEGDSYVETLDSMIELFKDYKPGSITLENITRLCQTLGLESFTEELSNELSRLSTASKI
IVIDVDYNKKQDRIQDVKLVLASNFDNFDYFNQRDGEHEKSNILLNSLTKYPDLKAFHNN
LKFLYLLDAYSHIESDSTSHNNGSSDKSLDSSNASFNNQGKLDLFKYFTELSHYIRQCFQ
DNCCDFKVRTNLNDKFGIYILTQGINGKEVPLAKIYLEENKSDSQYRFYEYIYSQETKSW
INESAENFSNGISLVMEIVANAKESNYTDLIWFPEDFISPELIIDKVTCSSNSSSSPPII
DLFSNNNYNSRIQLMNDFTTKLINIKKFDISNDNLDLISEILKWVQWSRIVLQNVFKLVS
TPSSNSNSSELEPDYQAPFSTSTKDKNSSTSNTEPIPRSNRHGSVVEASRRRRSSTNKSK
RPSITEAMMLKEEGLQQFNLHEILSEPAIEEENGDSIKEHSTTMDGANDLGFTASVSNQE
NAGTDIVMEDHGVLQGTSQNYGTATADDADIEMKDVSSKPSKPESSVLQLIVSEDHIILD
TISECNLYDDVKCWSKFIEKFQDIVS
Sequence of entity 9 (a), FASTA
>9PC8_9 Mediator of RNA polymerase II transcription subunit 6 (chains a)
MNVTPLDELQWKSPEWIQVFGLRTENVLDYFAESPFFDKTSNNQVIKMQRQFSQLNDPNA
AVNMTQNIMTLPDGKNGNLEEEFAYVDPARRQILFKYPMYMQLEEELMKLDGTEYVLSSV
REPDFWVIRKQRRTNNSGVGSAKGPEIIPLQDYYIIGANIYQSPTIFKIVQSRLMSTSYH
LNSTLESLYDLIEFQPSQGVHYKVPTDTSTTATAATNGNNAGGGSNKSSVRPTGGANMAT
VPSTTNVNMTVNTMGTGGQTIDNGTGRTGNGNMGITTEMLDKLMVTSIRSTPNYI
Sequence of entity 10 (b), FASTA
>9PC8_10 Mediator of RNA polymerase II transcription subunit 8 (chains b)
MSQSTASLVPEGNQGSLQEDVSFDFNGVPGQALDAVRMRLAQLTHSLRRIRDEMSKAELP
QWYTLQSQLNVTLSQLVSVTSTLQHFQETLDSTVVYPLPKFPTTSHESLVTTLLRKKNIP
EVDEWMKYVRETSGVTTALLKDEEIEKLLQQDREITNWARTTFRNEYGKHDFKNEESLSE
EHASLLVRDSKPSKPFNVDDVLKFTFTGEKPIITGSTSTSSSN
Sequence of entity 11 (c), FASTA
>9PC8_11 Mediator of RNA polymerase II transcription subunit 11 (chains c)
MQPPYIQERLKSLNDIETQLCSMLQEASQVTFIFGELKRGNESVKPQFENHVKQFYERLD
KSTTQLRKEIQLLDENVGTRLLPINVNKKALGQDTEKMEEQLDLLSAILDPSKSK
Sequence of entity 12 (e), FASTA
>9PC8_12 Mediator of RNA polymerase II transcription subunit 18 (chains e)
MVQQLSLFGSIGDDGYDLLISTLTTISGNPPLLYNSLCTVWKPNPSYDVENVNSRNQLVE
PNRIKLSKEVPFSYLIDETMMDKPLNFRILKSFTNDKIPLNYAMTRNILHNTVPQVTNFN
STNEDQNNSKHTEDTVNESRNSDDIIDVDMDASPAPSNESCSPWSLQISDIPAAGNNRSV
SMQTIAETIILSSAGKNSSVSSLMNGLGYVFEFQYLTIGVKFFMKHGLILELQKIWQIEE
AGNSQITSGGFLLKAYINVSRGTDIDRINYTETALMNLKKELQGYIELSVPDRQSMDSRV
AHGNILI
Primary citation
Structure of Core Mediator of PIC-Med-SWI/SNF. Yang, C., Nagai, S., Chen, D.-H. To be published.
Other PDB entries of the same protein (UniProt P34162 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 2HZM 2.4 Å, Structure of the Mediator head subcomplex Med18/20
- 2HZS 2.7 Å, Structure of the Mediator head submodule Med8C/18/20
- 8CEN 3.0 Å, Yeast RNA polymerase II transcription pre-initiation complex with core Mediator
- 7UI9 3.3 Å, Core Mediator-PICearly (Copy A)
- 7UIO 3.3 Å, Mediator-PIC Early (Composite Model)
- 8CEO 3.6 Å, Yeast RNA polymerase II transcription pre-initiation complex with core Mediator and the…
- 4GWP 4.2 Å, Structure of the Mediator Head Module from S. cerevisiae
- 3RJ1 4.3 Å, Architecture of the Mediator Head module
- 7UIG 4.3 Å, Mediator-PIC Early (Mediator A)
- 4GWQ 4.5 Å, Structure of the Mediator Head Module from S. cerevisiae in complex with the…
- 7UIF 4.6 Å, Mediator-PIC Early (Core B)
- 5OQM 5.8 Å, Structure of yeast transcription pre-initiation complex with tfiih and core mediator
Browse structure collections
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