8RAM: DNA-directed RNA polymerase II subunit RPB1

Structure of Sen1 bound RNA Polymerase II pre-termination complex. Determined by electron microscopy at 2.8 Å resolution. Released 30 Oct 2024.

Method: Electron microscopy
Resolution: 2.8 Å
Organisms: Saccharomyces cerevisiae, Human immunodeficiency virus 2
Chains: 19
Atoms: 42,965
Mol. weight: 957.84 kDa
Ligands: MG, ZN
Released: 30 Oct 2024

Explore 8RAM in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8RAM contains 251 α-helices and 294 β-strands across 16 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: 82 helices, 71 β-strands

Element	Residues	Length	Sheet
α-helix	10	1
β-strand	11	1	1
β-strand	16-21	6	2
α-helix	24-30	7
β-strand	33-34	2	3
β-strand	37	1	4
α-helix	43-45	3
α-helix	48-49	2
β-strand	52	1	4
β-strand	82-83	2	3
β-strand	90	1	5
α-helix	96-105	10
β-strand	106	1	6
β-strand	113	1	6
α-helix	120-126	7
α-helix	131-144	14
β-strand	147	1	7
β-strand	151-153	3	8
β-strand	161-163	3	8
β-strand	170	1	7
β-strand	173-174	2	9
β-strand	182-184	3	9
β-strand	199-201	3	9
α-helix	202-203	2
α-helix	204-213	10
α-helix	216-222	7
α-helix	231-234	4
β-strand	236	1	5
β-strand	241	1	3
α-helix	244-246	3
β-strand	250	1	10
β-strand	258	1	10
α-helix	261-281	21
α-helix	288-304	17
α-helix	312-314	3
β-strand	315	1	11
α-helix	316	1
β-strand	321	1	11
α-helix	322-323	2
α-helix	325-328	4
α-helix	335	1
α-helix	336-340	5
β-strand	344-345	2	12
β-strand	348-355	8	13
β-strand	363-367	5	13
α-helix	368-373	6
β-strand	375-379	5	14
α-helix	380	1
α-helix	385-394	10
β-strand	402-406	5	14
β-strand	412-414	3	14
α-helix	421-423	3
α-helix	424-426	3
β-strand	431-435	5	14
α-helix	436	1
β-strand	441-446	6	13
α-helix	452-454	3
β-strand	455-463	9	13
β-strand	468-470	3	13
α-helix	475-478	4
β-strand	486-490	5	13
α-helix	495-503	9
β-strand	506	1	13
α-helix	507-510	4
β-strand	512-513	2	15
β-strand	518-519	2	15
α-helix	525-534	10
β-strand	540-541	2	16
α-helix	543-552	10
α-helix	559-563	5
β-strand	565	1	17
β-strand	571	1	17
β-strand	572-573	2	16
α-helix	574-579	6
α-helix	583	1
β-strand	588-590	3	18
β-strand	605-608	4	18
β-strand	611-615	5	18
α-helix	619-622	4
α-helix	629-636	8
α-helix	639-660	22
β-strand	663	1	19
α-helix	666-669	4
α-helix	673-698	26
α-helix	703-705	3
α-helix	710-736	27
α-helix	742-749	8
α-helix	755-758	4
α-helix	759-763	5
β-strand	766-767	2	20
β-strand	770	1	21
β-strand	773	1	21
α-helix	775-776	2
α-helix	794-796	3
β-strand	799-800	2	20
α-helix	810-845	36
β-strand	849-850	2	22
β-strand	856-857	2	22
β-strand	863-865	3	22
α-helix	868-870	3
β-strand	873	1	23
β-strand	879-882	4	24
α-helix	890-897	8
α-helix	907-909	3
α-helix	910-912	3
β-strand	913	1	25
α-helix	916-919	4
α-helix	923-946	24
β-strand	953-956	4	24
α-helix	960-971	12
α-helix	978	1
β-strand	979	1	25
α-helix	983-996	14
α-helix	1005-1014	10
α-helix	1016-1025	10
α-helix	1028-1029	2
α-helix	1030-1034	5
α-helix	1039-1056	18
β-strand	1057	1	23
α-helix	1058-1059	2
α-helix	1064-1078	15
α-helix	1098-1105	8
β-strand	1116-1119	4	26
β-strand	1120	1	27
α-helix	1128-1138	11
β-strand	1141-1142	2	28
α-helix	1143-1146	4
β-strand	1147-1151	5	29
α-helix	1164-1166	3
α-helix	1167-1174	8
β-strand	1193-1197	5	29
α-helix	1199-1205	7
α-helix	1209-1219	11
β-strand	1224-1228	5	29
β-strand	1237-1242	6	29
α-helix	1260-1269	10
β-strand	1272-1274	3	28
β-strand	1282-1292	11	26
β-strand	1298-1308	11	26
α-helix	1313-1316	4
β-strand	1322	1	27
β-strand	1328-1329	2	26
α-helix	1332-1338	7
α-helix	1341-1358	18
α-helix	1365-1376	12
α-helix	1389-1391	3
α-helix	1396-1400	5
α-helix	1406-1415	10
β-strand	1418-1419	2	2
α-helix	1424-1430	7
α-helix	1437-1439	3
β-strand	1442-1445	4	30
α-helix	1447-1453	7

Chain B: 49 helices, 74 β-strands

Element	Residues	Length	Sheet
α-helix	27-40	14
α-helix	45-53	9
α-helix	54-58	5
α-helix	59-65	7
β-strand	91-97	7	31
β-strand	101-102	2	32
β-strand	110-111	2	32
α-helix	114-120	7
β-strand	125-133	9	31
β-strand	165-171	7	31
α-helix	180-183	4
α-helix	186-191	6
β-strand	203-205	3	33
β-strand	208-212	5	33
α-helix	213	1
β-strand	214-218	5	34
β-strand	223-227	5	35
β-strand	234-242	9	35
β-strand	252-259	8	35
β-strand	268-272	5	35
β-strand	280-281	2	35
α-helix	282-289	8
α-helix	294-301	8
α-helix	308-321	14
α-helix	327-336	10
β-strand	343	1	36
β-strand	346	1	36
α-helix	349-358	10
α-helix	372-390	19
α-helix	394-396	3
α-helix	401-403	3
β-strand	404-407	4	34
α-helix	409-434	26
α-helix	451-463	13
β-strand	480-482	3	33
α-helix	483-484	2
α-helix	488-495	8
β-strand	497-499	3	34
α-helix	509-512	4
α-helix	514-515	2
α-helix	516-518	3
β-strand	522	1	37
β-strand	537-538	2	34
β-strand	539	1	37
β-strand	544-545	2	38
α-helix	552-561	10
β-strand	564-565	2	39
α-helix	566-568	3
α-helix	571-573	3
β-strand	578-582	5	39
β-strand	585-590	6	39
α-helix	593-606	14
β-strand	614-618	5	39
β-strand	623-627	5	39
β-strand	633-639	7	38
β-strand	640-641	2	40
β-strand	650-651	2	40
α-helix	655-667	13
α-helix	681-687	7
β-strand	690-694	5	38
α-helix	697-700	4
β-strand	703-704	2	38
α-helix	728-729	2
β-strand	740-741	2	38
α-helix	745-748	4
α-helix	751-755	5
β-strand	762	1	41
α-helix	764-774	11
β-strand	777	1	42
β-strand	792-796	5	43
β-strand	800	1	44
β-strand	804-805	2	45
α-helix	807-812	6
β-strand	821-827	7	46
β-strand	828	1	19
β-strand	839-842	4	46
α-helix	843-848	6
β-strand	853-862	10	43
β-strand	873-874	2	47
β-strand	898	1	48
α-helix	899-900	2
β-strand	904-905	2	43
β-strand	910-912	3	48
β-strand	914-917	4	47
β-strand	934-936	3	47
β-strand	939-940	2	48
α-helix	941-942	2
β-strand	947-956	10	43
β-strand	962-972	11	43
β-strand	979-982	4	46
β-strand	987-994	8	46
β-strand	1001-1002	2	49
β-strand	1010-1012	3	46
α-helix	1016-1020	5
β-strand	1022	1	41
α-helix	1023-1038	16
α-helix	1041	1
β-strand	1042-1043	2	45
α-helix	1052-1061	10
β-strand	1069-1070	2	46
β-strand	1072-1073	2	49
α-helix	1079	1
β-strand	1080	1	49
α-helix	1081	1
β-strand	1083	1	50
β-strand	1085-1094	10	46
β-strand	1095	1	42
α-helix	1099-1101	3
β-strand	1104-1106	3	13
β-strand	1111	1	51
β-strand	1118	1	51
α-helix	1119	1
β-strand	1128-1129	2	12
α-helix	1132-1141	10
α-helix	1144-1152	9
β-strand	1158-1163	6	1
β-strand	1172-1174	3	52
β-strand	1179-1181	3	52
β-strand	1182	1	53
β-strand	1187	1	53
β-strand	1191-1196	6	1
α-helix	1198-1209	12
β-strand	1212-1217	6	2

Chain C: 12 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	7-13	7	54
β-strand	17-23	7	54
α-helix	27-35	9
α-helix	36-40	5
β-strand	42-54	13	55
α-helix	60-68	9
β-strand	72-74	3	56
β-strand	96-104	9	55
α-helix	110	1
β-strand	111-113	3	57
α-helix	115-117	3
β-strand	119-120	2	55
β-strand	129-132	4	56
α-helix	133	1
β-strand	145-147	3	57
β-strand	152-163	12	55
α-helix	168-170	3
β-strand	173-179	7	54
β-strand	190	1	50
α-helix	197-200	4
α-helix	202-204	3
α-helix	205-209	5
α-helix	211-213	3
β-strand	228-234	7	54
α-helix	240-266	27

Chain D: 8 helices, 3 β-strands

Element	Residues	Length	Sheet
β-strand	36-38	3	58
β-strand	44-46	3	58
β-strand	49	1	59
α-helix	52-75	24
α-helix	122-132	11
α-helix	140-150	11
α-helix	157-170	14
α-helix	174-182	9
α-helix	188-194	7
α-helix	196-198	3
α-helix	204-217	14

Chain E: 13 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	3-26	24
β-strand	28	1	60
α-helix	32-35	4
α-helix	39-45	7
α-helix	55-58	4
β-strand	60-62	3	61
β-strand	64	1	60
α-helix	66-71	6
β-strand	78-82	5	61
α-helix	90-103	14
β-strand	107-112	6	61
α-helix	118-123	6
α-helix	124-126	3
β-strand	131-136	6	61
α-helix	139-141	3
β-strand	152-155	4	62
α-helix	158-168	11
α-helix	176	1
β-strand	177-178	2	62
α-helix	183-188	6
α-helix	190-191	2
β-strand	195-200	6	62
β-strand	208-214	7	62

Chain F: 4 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	74-75	2
β-strand	84	1	63
α-helix	85-86	2
α-helix	87-102	16
α-helix	117-127	11
β-strand	132-137	6	30
β-strand	143-147	5	30
β-strand	152	1	63

Chain G: 4 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	3-13	11	59
α-helix	22-34	13
β-strand	38-39	2	59
β-strand	43-48	6	59
β-strand	55-56	2	59
α-helix	57-59	3
β-strand	60-61	2	59
α-helix	62	1
β-strand	68-79	12	59
β-strand	86-95	10	64
β-strand	98-103	6	64
β-strand	106-110	5	64
α-helix	112-114	3
β-strand	120-122	3	65
β-strand	129-131	3	65
β-strand	136-137	2	65
β-strand	142-152	11	64
β-strand	157-162	6	64
β-strand	169-170	2	64

Chain H: 1 helix, 9 β-strands

Element	Residues	Length	Sheet
β-strand	4-16	13	17
β-strand	24-30	7	17
β-strand	37-42	6	17
β-strand	54-60	7	17
β-strand	95-98	4	17
β-strand	100-107	8	17
β-strand	111-118	8	17
β-strand	121-127	7	17
α-helix	129-133	5
β-strand	141-145	5	17

8 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
DNA-directed RNA polymerase II subunit RPB1	A	protein	1733	Saccharomyces cerevisiae	P04050 (AlphaFold model)
DNA-directed RNA polymerase II subunit RPB2	B	protein	1224	Saccharomyces cerevisiae	P08518 (AlphaFold model)
DNA-directed RNA polymerase II subunit RPB3	C	protein	318	Saccharomyces cerevisiae	P16370 (AlphaFold model)
DNA-directed RNA polymerase II subunit RPB4	D	protein	221	Saccharomyces cerevisiae	P20433 (AlphaFold model)
DNA-directed RNA polymerases I, II, and III subunit RPABC1	E	protein	215	Saccharomyces cerevisiae	P20434
DNA-directed RNA polymerases I, II, and III subunit RPABC2	F	protein	155	Saccharomyces cerevisiae	P20435
DNA-directed RNA polymerase II subunit RPB7	G	protein	171	Saccharomyces cerevisiae	P34087
DNA-directed RNA polymerases I, II, and III subunit RPABC3	H	protein	146	Saccharomyces cerevisiae	P20436
DNA-directed RNA polymerase II subunit RPB9	I	protein	122	Saccharomyces cerevisiae	P27999
DNA-directed RNA polymerases I, II, and III subunit RPABC5	J	protein	70	Saccharomyces cerevisiae	P22139
DNA-directed RNA polymerase II subunit RPB11	K	protein	120	Saccharomyces cerevisiae	P38902
DNA-directed RNA polymerases I, II, and III subunit RPABC4	L	protein	70	Saccharomyces cerevisiae	P40422

7 more molecules are not listed.

Sequence of entity 1 (A), FASTA

>8RAM_1 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 2 (B), FASTA

>8RAM_2 DNA-directed RNA polymerase II subunit RPB2 (chains B)
MSDLANSEKYYDEDPYGFEDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQ
DIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESDGVTHALYPQEARLR
NLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCY
LSEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEI
RSALEKGSRFISTLQVKLYGREGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEH
ICYDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRGTALGIKKEKRIQYAKDILQKEF
LPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTL
FKKLTKDIFRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVS
QVLNRYTYSSTLSHLRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLS
LMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSPDATRVFVNGVWHGVHRNPARLMETL
RTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIAK
LMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEEND
LDVDPAKRIRVSHHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGV
FLTNYNVRMDTMANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDSMI
MNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLDDDGLIA
PGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDG
LKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSR
MTVAHLIECLLSKVAALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKK
LMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIA
HGAASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAA
KLLFQELMAMNITPRLYTDRSRDF

Sequence of entity 3 (C), FASTA

>8RAM_3 DNA-directed RNA polymerase II subunit RPB3 (chains C)
MSEEGPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLAD
EFIAHRLGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVI
VSNLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEY
DPWNKLKHTDYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPV
DQVVVRGIDTLQKKVASILLALTQMDQDKVNFASGDNNTASNMLGSNEDVMMTGAEQDPY
SNASQMGNTGSGGYDNAW

Sequence of entity 4 (D), FASTA

>8RAM_4 DNA-directed RNA polymerase II subunit RPB4 (chains D)
MNVSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIK
EALVERRRAFKRSQKKHKKKHLKHENANDETTAVEDEDDDLDEDDVNADDDDFMHSETRE
KELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQL
GSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY

Sequence of entity 5 (E), FASTA

>8RAM_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSF
QANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSA
MKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQR
ADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM

Sequence of entity 6 (F), FASTA

>8RAM_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDYEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQQ
HEQIRRKTLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRI
AMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL

Sequence of entity 7 (G), FASTA

>8RAM_7 DNA-directed RNA polymerase II subunit RPB7 (chains G)
MFFIKDLSLNITLHPSFFGPRMKQYLKTKLLEEVEGSCTGKFGYILCVLDYDNIDIQRGR
ILPTDGSAEFNVKYRAVVFKPFKGEVVDGTVVSCSQHGFEVQVGPMKVFVTKHLMPQDLT
FNAGSNPPSYQSSEDVITIKSRIRVKIEGCISQVSSIHAIGSIKEDYLGAI

Sequence of entity 8 (H), FASTA

>8RAM_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MSNTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLDINVELFPVAAQDSLTVTIA
SSLNLEDTPANDSSATRSWRPPQAGDRSLADDYDYVMYGTAYKFEEVSKDLIAVYYSFGG
LLMRLEGNYRNLNNLKQENAYLLIRR

Sequence of entity 9 (I), FASTA

>8RAM_9 DNA-directed RNA polymerase II subunit RPB9 (chains I)
MTTFRFCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSPLVYRHELITNIGETAGVVQ
DIGSDPTLPRSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQKNKRTQ
FS

Sequence of entity 10 (J), FASTA

>8RAM_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLGLKRYCCRRMILTHVDLIEKF
LRYNPLEKRD

Sequence of entity 11 (K), FASTA

>8RAM_11 DNA-directed RNA polymerase II subunit RPB11 (chains K)
MNAPDRFELFLLGEGESKLKIDPDTKAPNAVVITFEKEDHTLGNLIRAELLNDRKVLFAA
YKVEHPFFARFKLRIQTTEGYDPKDALKNACNSIINKLGALKTNFETEWNLQTLAADDAF

Sequence of entity 12 (L), FASTA

>8RAM_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR
TKRLVQFEAR

Ligands and cofactors

ID	Name	Formula	Copies
MG	Magnesium ion	Mg	1
ZN	Zinc ion	Zn	9

Primary citation

Mechanism of polyadenylation-independent RNA polymerase II termination. Rengachari, S., Hainthaler, T., Oberthuer, C. et al. Nat Struct Mol Biol (2025) 32:339-345. DOI 10.1038/s41594-024-01409-0 · PubMed

Other PDB entries of the same protein (UniProt P04050 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5VKO 1.8 Å, SPT6 tSH2-RPB1 1468-1500 pT1471, pS1493
9SV6 1.96 Å, CryoEM structure of transcribing RNA polymerase II elongation complex with ATP and Elf1
5VKL 2.2 Å, SPT6 tSH2-RPB1 1476-1500 pS1493
9W8V 2.23 Å, Structure of post-translocation state of yeast Pol II complexed with a cisplatin-induced…
9QEB 2.26 Å, CryoEM structure of transcribing RNA polymerase II elongation complex
1TWF 2.3 Å, RNA polymerase II complexed with UTP at 2.3 A resolution
9RYB 2.33 Å, CryoEM structure of transcribing RNA polymerase II elongation complex in post-catalysis…
9KD8 2.46 Å, The structure of RNA polymerase II elongation complex paused at N-2 state by actinomycin…
6NPW 2.49 Å, SSu72/Sympk in complex with Ser2/Ser5 phosphorylated peptide
9K7F 2.5 Å, RNA polymerase II elongation complex apo structure.
30ES 2.54 Å, Cryo-EM structure of the yeast RNA polymerase II elongation complex with 19-mer RNA in…
30EP 2.55 Å, Cryo-EM structure of the yeast RNA polymerase II elongation complex with 19-mer RNA in…

Browse structure collections

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