7ML1: RNA polymerase II pre-initiation complex

Name: PDB 7ML1: RNA polymerase II pre-initiation complex (PIC2)
Published: 2022-02-02
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: transcription

RNA polymerase II pre-initiation complex (PIC2). Determined by electron microscopy at 4.0 Å resolution. Released 2 Feb 2022.

Method: Electron microscopy
Resolution: 4.0 Å
Organism: Saccharomyces cerevisiae
Chains: 30
Atoms: 64,538
Mol. weight: 1321.2 kDa
Ligands: ZN, SF4, MG
Released: 2 Feb 2022

Explore 7ML1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7ML1 contains 376 α-helices and 400 β-strands across 28 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 0: 41 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	2-4	3	6
β-strand	9-11	3	6
α-helix	19-33	15
β-strand	40-41	2	7
α-helix	48-62	15
β-strand	69-73	5	7
α-helix	76-97	22
β-strand	105-108	4	7
α-helix	118-122	5
α-helix	126-136	11
α-helix	139-146	8
α-helix	158-161	4
α-helix	162-166	5
α-helix	178-187	10
α-helix	192-198	7
α-helix	199-201	3
β-strand	205-209	5	7
α-helix	210-214	5
α-helix	224-227	4
β-strand	231-235	5	7
α-helix	237-240	4
α-helix	241-247	7
β-strand	250	1	8
α-helix	254-278	25
α-helix	280-291	12
α-helix	295-298	4
α-helix	323-326	4
α-helix	328-346	19
β-strand	352-354	3	8
α-helix	356-366	11
α-helix	371-374	4
α-helix	376-388	13
α-helix	394-411	18
β-strand	416-421	6	8
α-helix	425-427	3
β-strand	434-439	6	8
α-helix	443-452	10
β-strand	456-460	5	7
α-helix	468-473	6
β-strand	481-482	2	7
β-strand	494-496	3	9
β-strand	499	1	10
β-strand	505	1	10
α-helix	516-532	17
β-strand	537-541	5	9
α-helix	544-556	13
α-helix	559-566	8
β-strand	568-570	3	11
α-helix	576-591	16
β-strand	596-598	3	11
β-strand	600-601	2	9
α-helix	606-609	4
β-strand	619-623	5	9
α-helix	634-645	12
α-helix	650-666	17
α-helix	667-669	3
β-strand	678-682	5	9
α-helix	684-690	7
α-helix	695-700	6
α-helix	703-705	3
α-helix	710-725	16
α-helix	734-738	5
α-helix	744-751	8

Chain 1: 18 helices, 0 β-strands

Element	Residues	Length
α-helix	171-176	6
α-helix	178-187	10
α-helix	189-195	7
α-helix	196-200	5
α-helix	206-224	19
α-helix	227-229	3
α-helix	232-235	4
α-helix	252-262	11
α-helix	264-272	9
α-helix	280-294	15
α-helix	310-328	19
α-helix	339-342	4
α-helix	372-387	16
α-helix	468-482	15
α-helix	497-515	19
α-helix	541-566	26
α-helix	576-603	28
α-helix	607-638	32

Chain 2: 27 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	10-16	7
α-helix	19-26	8
α-helix	29-36	8
α-helix	41-52	12
β-strand	57-58	2	24
α-helix	59-65	7
β-strand	66	1	3
α-helix	71-84	14
β-strand	87-88	2	25
β-strand	97-98	2	24
β-strand	99-100	2	25
α-helix	102-112	11
α-helix	118-121	4
β-strand	124	1	26
α-helix	137-151	15
α-helix	161-170	10
α-helix	186-193	8
α-helix	197-210	14
α-helix	218-230	13
β-strand	234	1	27
β-strand	235	1	26
α-helix	244-255	12
α-helix	261-262	2
α-helix	263-265	3
β-strand	269	1	27
α-helix	273-280	8
α-helix	354-360	7
α-helix	361-363	3
β-strand	365-369	5	28
β-strand	374-377	4	28
α-helix	384-388	5
α-helix	395-402	8
α-helix	405-407	3
α-helix	409-416	8
α-helix	435-442	8
α-helix	443-447	5
β-strand	457-458	2	29
α-helix	465-478	14
β-strand	492-493	2	29
α-helix	496-502	7

Chain 3: 5 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	30	1	44
α-helix	40-47	8
β-strand	52-53	2	45
α-helix	61	1
β-strand	62-63	2	45
β-strand	69	1	44
α-helix	76-91	16
α-helix	103-122	20
α-helix	128-144	17

Chain 4: 10 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	26-31	6	2
α-helix	34-42	9
α-helix	50-67	18
β-strand	73-79	7	2
β-strand	82-85	4	2
α-helix	117-134	18
α-helix	138-142	5
α-helix	149-166	18
β-strand	176-181	6	2
α-helix	193-206	14
β-strand	210-215	6	2
α-helix	222-230	9
β-strand	234-238	5	2
α-helix	245-251	7
β-strand	261	1	3
β-strand	275	1	4
β-strand	282	1	4
β-strand	287-288	2	5
β-strand	295	1	5
α-helix	311-313	3
α-helix	314-320	7

Chain 5: 3 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	10-11	2	30
α-helix	15-26	12
β-strand	31	1	31
β-strand	39-40	2	30
β-strand	42	1	31
α-helix	44-46	3
α-helix	48-59	12

Chain 6: 11 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	124-129	6	16
α-helix	134-137	4
α-helix	145-163	19
β-strand	168-175	8	16
β-strand	178-186	9	16
α-helix	189-201	13
α-helix	210-220	11
β-strand	229-231	3	16
β-strand	234	1	16
β-strand	235	1	17
α-helix	247-256	10
β-strand	264	1	17
α-helix	271-280	10
α-helix	294-304	11
β-strand	320-321	2	5
β-strand	323	1	18
β-strand	326-327	2	19
β-strand	347-348	2	19
β-strand	355-356	2	19
β-strand	362	1	20
β-strand	369	1	20
β-strand	370	1	18
α-helix	374-383	10
β-strand	390-391	2	21
α-helix	419-422	4
β-strand	427-428	2	21
β-strand	429	1	22
β-strand	434	1	22
α-helix	438-446	9
α-helix	452-455	4

Chain 7: 31 helices, 32 β-strands

Element	Residues	Length	Sheet
β-strand	110	1	32
α-helix	125-127	3
β-strand	132	1	33
β-strand	133-135	3	34
β-strand	140-142	3	34
α-helix	150-160	11
β-strand	162	1	35
β-strand	174	1	35
β-strand	176	1	32
α-helix	177-186	10
α-helix	190-200	11
β-strand	201	1	33
α-helix	204-206	3
α-helix	207-214	8
α-helix	215-219	5
β-strand	226-227	2	36
β-strand	232-233	2	36
α-helix	239-246	8
α-helix	252-254	3
β-strand	255	1	37
α-helix	263-267	5
β-strand	309	1	38
β-strand	318	1	37
α-helix	323-333	11
β-strand	339	1	38
α-helix	343-345	3
α-helix	366-374	9
β-strand	383-384	2	39
α-helix	392-403	12
β-strand	407-411	5	40
α-helix	414-425	12
β-strand	436	1	40
β-strand	453-456	4	40
α-helix	457-460	4
α-helix	471-479	9
β-strand	484-485	2	40
β-strand	487-488	2	39
α-helix	490-492	3
α-helix	495-501	7
β-strand	512-513	2	39
α-helix	527-529	3
β-strand	534-536	3	39
β-strand	552	1	41
β-strand	554-555	2	42
β-strand	558-559	2	43
α-helix	560-561	2
α-helix	563-571	9
α-helix	577-581	5
α-helix	585-601	17
β-strand	605-608	4	42
α-helix	613-622	10
α-helix	625-627	3
α-helix	633-641	9
β-strand	654	1	42
β-strand	669-672	4	42
α-helix	680-690	11
β-strand	703	1	41
β-strand	704-707	4	42
β-strand	709-710	2	43
α-helix	714-728	15
β-strand	733-734	2	42
α-helix	755-758	4
α-helix	760-763	4

20 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
Tfb1	1	protein	542	Saccharomyces cerevisiae	P32776 (AlphaFold model)
General transcription and DNA repair factor IIH subunit TFB4	4	protein	338	Saccharomyces cerevisiae	Q12004 (AlphaFold model)
General transcription and DNA repair factor IIH helicase subunit XPD	0	protein	778	Saccharomyces cerevisiae	P06839 (AlphaFold model)
General transcription and DNA repair factor IIH subunit SSL1	6	protein	461	Saccharomyces cerevisiae	Q04673 (AlphaFold model)
RNA polymerase II transcription factor B subunit 2	2	protein	513	Saccharomyces cerevisiae	Q02939
General transcription and DNA repair factor IIH subunit TFB5	5	protein	72	Saccharomyces cerevisiae	Q3E7C1
General transcription and DNA repair factor IIH helicase subunit XPB	7	protein	843	Saccharomyces cerevisiae	Q00578
BJ4_G0050160.mRNA.1.CDS.1	3	protein	321	Saccharomyces cerevisiae	Q03290
TATA-box-binding protein	O	protein	240	Saccharomyces cerevisiae	P13393
non-template strand DNA	N	DNA	57	Saccharomyces cerevisiae
template strand DNA	T	DNA	57	Saccharomyces cerevisiae
DNA-directed RNA polymerase subunit	A	protein	1733	Saccharomyces cerevisiae	P04050

18 more molecules are not listed.

Sequence of entity 1 (1), FASTA

>7ML1_1 Tfb1 (chains 1)
MSHSGAAIFEKVSGIIAINEDVSPAELTWRSTDGDKVHTVVLSTIDKLQATPASSEKMML
RLIGKVDESKKRKDNEGNEVVPKPQRHMFSFNNRTVMDNIKMTLQQIISRYKDADIYEEK
RRREESAQHTETPMSSSSVTAGTPTPHLDTPQLNNGAPLINTAKLDDSLSKEKLLTNLKL
QQSLLKGNKVLMKVFQETVINAGLPPSEFWSTRIPLLRXFALXXSQKXGPXXVXXXXXPX
XXXXXXXXXNLSREKILNIFENYPIVKKAYTDNVPKNFKEPEFWARFFSSKLFRKLXXXX
XXXXXXXXXXXXXXLXXXXXFXXKXXXXLLHPVKKIIXLDGNIXDDPVVRGXXXXXXXXV
DILKGMNRLSEKMIMXLKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRV
ITXIKINAKQAXHXXXEVKSTLPIDLLESCRMLHTTCCEFLKHFAIHXXXXXQKQASTVK
KLYNHLKDCIEKLNELFQDVLNGDGESMSNTCTAYLKPVLNSITLATHKYDEYFNEYNNN
SN

Sequence of entity 2 (4), FASTA

>7ML1_2 General transcription and DNA repair factor IIH subunit TFB4 (chains 4)
MDAISDPTFKHARSRKQVTEESPSLLTVIIEIAPKLWTTFDEEGNEKGSIIKVLEALIVF
LNAHLAFNSANKVAVIAAYSQGIKYLYPESTSALKASESENKTRSDLKIINSXXYRRFRN
VDETLVEEIYKLFELEKKQIEQNSQRSTLAGAMSAGLTYVNRISKESVTTSLKSRLLVLT
CGSGSSKDEIFQYIPIMNCIFSATKMKCPIDVVKIGGSKESTFLQQTTDATNGVYLHVES
TEGLIQYLATAMFIDPSLRPIIVKPNHGSVDFRTSCYLTGRVVAVGFICSVCLCVLSIIP
PGNKCPACDSQFDEHVIAKLKRKPVVPRLKAKKKVTKP

Sequence of entity 3 (0), FASTA

>7ML1_3 General transcription and DNA repair factor IIH helicase subunit XPD (chains 0)
MKFYIDDLPVLFPYPKIYPEQYNYMCDIKKTLDVGGNSILEMPSGTGKTVSLLSLTIAYQ
MHYPEHRKIIYCSRTMSEIEKALVELENLMDYRTKELGYQEDFRGLGLTSRKNLCLHPEV
SKERKGTVVDEKCRRMTNGQAKRKLEEDPEANVELCEYHENLYNIEVEDYLPKGVFSFEK
LLKYCEEKTLCPYFIVRRMISLCNIIIYSYHYLLDPKIAERVSNEVSKDSIVIFDEAHNI
DNVCIESLSLDLTTDALRRATRGANALDERISEVRKVDSQKLQDEYEKLVQGLHSADILT
DQEEPFVETPVLPQDLLTEAIPGNIRRAEHFVSFLKRLIEYLKTRMKVLHVISETPKSFL
QHLKQLTFIERKPLRFCSERLSLLVRTLEVTEVEDFTALKDIATFATLISTYEEGFLLII
EPYEIENAAVPNPIMRFTCLDASIAIKPVFERFSSVIITSGTISPLDMYPRMLNFKTVLQ
KSYAMTLAKKSFLPMIITKGSDQVAISSRFEIRNDPSIVRNYGSMLVEFAKITPDGMVVF
FPSYLYMESIVSMWQTMGILDEVWKHKLILVETPDAQETSLALETYRKACSNGRGAILLS
VARGKVSEGIDFDHQYGRTVLMIGIPFQYTESRILKARLEFMRENYRIRENDFLSFDAMR
HAAQCLGRVLRGKDDYGVMVLADRRFSRKRSQLPKWIAQGLSDADLNLSTDMAISNTKQF
LRTMAQPTDPKDQEGVSVWSYEDLIKHQNSRKDQGGFIENENKEGEQDEDEDEDIEMQ

Sequence of entity 4 (6), FASTA

>7ML1_4 General transcription and DNA repair factor IIH subunit SSL1 (chains 6)
MAPVVISESEEDEDRVAITRRTKRQVHFDGEGDDRVDQQQQQHSSSHRDRDKHVQRKKKK
RLSNRNLQGSNGGYAWEDEIKRSWDLVKVDDEGDMASLVASIVEARKKRTAKKNITPYQR
GIIRSLILTLDCSEAMLEKDLRPNRHAMIIQYAIDFVHEFFDQNPISQMGIIIMRNGLAQ
LVSQVSGNPQDHIDALKSIRKQEPKGNPSLQNALEMARGLLLPVPAHCTREVLIVFGSLS
TTDPGDIHQTIDSLVSEKIRVKVLGLSAQVAICKELCKATNYGDESFYKILLDETHLKEL
FNEAVTPLPVNKINKGFTLVKMGFPTRIFEDTPTFCSCHSKLVYGGYFCPNCHSKVCSLP
TVCPCCDLMLILSTHLARSYHHLMPLKTFAEVPTTEKFRSEDCFSCQSRFPXXXXXXXXX
XXXXSRYRCEDCKQEFCVDCDVFIHEILHNCPGCESKPVIT

Sequence of entity 5 (2), FASTA

>7ML1_5 RNA polymerase II transcription factor B subunit 2 (chains 2)
MSDYSLKHSVTQYLEEIPQQVQNRLYTSPATCLAIYRILPPLAKFFIMAMVFNENEVPLL
DLDKWVNSNGKLQFQNAIKSMKSLHLLIPNKSSGTLMINLNPTFKISLRNALTGGEVQNS
FGVVVEENVVSLDLLDEYSANKWETILHFMVGTPLAKIPSEKVLNLLKHSKLMEEVNSTG
EFKITNEGFQFLLQEINSQLWTLLLQYLKMIETSKMDLVDVLHFIFMLGALEVGKAYKID
ALSETQRIMLQDMRDYGLVFQKHSNDSIFYPTKLALMLTSDTKTIRSASNAMDSVLRQNR
EEPSVNEDGANGKSTTDITTSDDLNKAGLKNQDIPDGSLIVETNFKIYSYSNSPLQIAVL
SLFVHLKARFVNMVLGQITRESIRRALTNGITADQIIAYLETHAHPQMRRLAEEKLEKKL
ELDPNCKEPLQVLPPTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGV
LLWKDDKKKKFFISKEGNSQVLDFAKRKLKKKQ

Sequence of entity 6 (5), FASTA

>7ML1_6 General transcription and DNA repair factor IIH subunit TFB5 (chains 5)
MARARKGALVQCDPSIKALILQIDAKMSDIVLEELDDTHLLVNPSKVEFVKHELNRLLSK
NIYNPMDEEENQ

Sequence of entity 7 (7), FASTA

>7ML1_7 General transcription and DNA repair factor IIH helicase subunit XPB (chains 7)
MTDVEGYQPKSKGKIFPDMGESFFSSDEDSPATDAEIDENYDDNRETSEGRGERDTGAMV
TGLKKPRKKTKSSRHTAADSSMNQMDAKDKALLQDTNSDIPADFVPDSVSGMFRSHDFSY
LRLRPDHASRPLWISPSDGRIILESFSPLAEQAQDFLVTIAEPISRPSHIHEYKITAYSL
YAAVSVGLETDDIISVLDRLSKVPVAESIINFIKGATISYGKVKLVIKHNRYFVETTQAD
ILQMLLNDSVIGPLRIDSDHQVQPPEDVLQQQLQQTAGKPATNVNPNDVEAVFSAVIGGD
NEREEEDDDIDAVHSFEIANESVEVVKKRCQEIDYPVLEEYDFRNDHRNPDLDIDLKPST
QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGITAACTIKKSVIVLCTSSVSVMQW
RQQFLQWCTLQPENCAVFTSDNKEMFQTESGLVVSTYSMVANTRNRSHDSQKVMDFLTGR
EWGFIILDEVHVVPAAMFRRVVSTIAAHAKLGLTATLVREDDKIGDLNFLIGPKLYEANW
MELSQKGHIANVQCAEVWCPMTAEFYQEYLRETARKRMLLYIMNPTKFQACQFLIQYHER
RGDKIIVFSDNVYALQEYALKMGKPFIYGSTPQQERMNILQNFQYNDQINTIFLSKVGDT
SIDLPEATCLIQISSHYGSRRQEAQRLGRILRAKRRNDEGFNAFFYSLVSKDTQEMYYST
KRQAFLVDQGYAFKVITHLHGMENIPNLAYASPRERRELLQEVLLKNEEAAGIEVGDDAD
NSVGRGSNGHKRFKSKAVRGEGSLSGLAGGEDMAYMEYSTNKNKELKEHHPLIRKMYYKN
LKK

Sequence of entity 8 (3), FASTA

>7ML1_8 BJ4_G0050160.mRNA.1.CDS.1 (chains 3)
MLMDEYEENKDMCPICKTDRYLSPDVKFLVNPECYHRICESCVDRIFSLGPAQCPYKGCD
KILRKNKFKTQIFDDVEVEKEVDIRKRVFNVFNKTIDDFNGDLVEYNKYLEEVEDIIYKL
DHGIDVAKTEEKLRTYEELNKQLIMNNLERSRTEIESFEQRQKFEKEMKLKKRLLERQIE
EEERMNKEWTKKEIVNRLSTTTQDINETIEGVKNTVKLKKSSARRKLEELNRVLKNNPYF
NSNVNVQNSRLKDAVPFTPFNGDREAHPRFTLKGSVYNDPFIKDLEHRKEFIASGFNTNY
AYERVLTEAFMGLGCVISEEL

Sequence of entity 9 (O), FASTA

>7ML1_9 TATA-box-binding protein (chains O)
MADEERLKEFKEANKIVFDPNTRQVWENQNRDGTKPATTFQSEEDIKRAAPESEKDTSAT
SGIVPTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGK
MVVTGAKSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHG
TFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRKM

Sequence of entity 10 (N), FASTA

>7ML1_10 non-template strand DNA (chains N)
AAAAAAAAAAGGCGCGTATATAAAAGTTTCAATGTCGCGAATTCGGTTGTACATACA

Sequence of entity 11 (T), FASTA

>7ML1_11 template strand DNA (chains T)
TGTATGTACAACCGAATTCGCGACATTGAAACTTTTATATACGCGCCTTTTTTTTTT

Sequence of entity 12 (A), FASTA

>7ML1_12 DNA-directed RNA polymerase subunit (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

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	19
SF4	Iron/sulfur cluster	Fe4 S4	1
MG	Magnesium ion	Mg	1

Primary citation

Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II. Yang, C., Fujiwara, R., Kim, H.J. et al. Mol Cell (2022) 82:660-676.e9. DOI 10.1016/j.molcel.2021.12.020 · PubMed

Other PDB entries of the same protein (UniProt P32776 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7O4J 2.9 Å, Yeast RNA polymerase II transcription pre-initiation complex (consensus)
7ML0 3.0 Å, RNA polymerase II pre-initiation complex (PIC1)
8CEN 3.0 Å, Yeast RNA polymerase II transcription pre-initiation complex with core Mediator
7ML4 3.1 Å, RNA polymerase II initially transcribing complex (ITC)
7ZS9 3.1 Å, Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome…
7O4I 3.2 Å, Yeast RNA polymerase II transcription pre-initiation complex with initial transcription…
7O75 3.2 Å, Yeast RNA polymerase II transcription pre-initiation complex with open promoter DNA
7ML2 3.4 Å, RNA polymerase II pre-initiation complex (PIC3)
7O4L 3.4 Å, Yeast TFIIH in the expanded state within the pre-initiation complex
7O72 3.4 Å, Yeast RNA polymerase II transcription pre-initiation complex with closed promoter DNA
7O73 3.4 Å, Yeast RNA polymerase II transcription pre-initiation complex with closed distorted…
7O4K 3.6 Å, Yeast TFIIH in the contracted state within the pre-initiation complex

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