5SVA: DNA-directed RNA polymerase II subunit RPB1

Mediator-RNA Polymerase II Pre-Initiation Complex. Determined by electron microscopy at 15.3 Å resolution. Released 28 Sept 2016.

Method: Electron microscopy
Resolution: 15.3 Å
Organism: Saccharomyces cerevisiae
Chains: 40
Atoms: 66,133
Mol. weight: 1522.75 kDa
Ligands: ZN, MG
Released: 28 Sept 2016

Explore 5SVA in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5SVA contains 396 α-helices and 397 β-strands across 36 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: 4 helices, 3 β-strands

Element	Residues	Length	Sheet
α-helix	448-450	3
β-strand	452-460	9	34
α-helix	465-477	13
β-strand	481-485	5	34
β-strand	490-494	5	34
α-helix	495-497	3
α-helix	498-505	8

Chain A: 79 helices, 75 β-strands

Element	Residues	Length	Sheet
α-helix	10	1
β-strand	11-12	2	1
β-strand	16-18	3	2
β-strand	21	1	3
α-helix	24-30	7
β-strand	41	1	4
β-strand	49	1	4
β-strand	82-90	9	5
α-helix	93-95	3
α-helix	96-105	10
β-strand	106	1	6
β-strand	113	1	6
α-helix	120-127	8
α-helix	131-142	12
β-strand	147	1	7
β-strand	151-153	3	8
β-strand	161-163	3	8
β-strand	170	1	7
α-helix	171	1
β-strand	172-176	5	9
β-strand	181-185	5	9
β-strand	198-202	5	9
α-helix	203	1
α-helix	204-213	10
α-helix	216-221	6
β-strand	225	1	10
β-strand	229	1	10
α-helix	231-233	3
β-strand	236-241	6	5
α-helix	242-243	2
α-helix	244-246	3
β-strand	250-251	2	11
β-strand	257-260	4	11
α-helix	261-281	21
α-helix	286-288	3
α-helix	289-304	16
β-strand	310	1	12
α-helix	312-313	2
β-strand	314-316	3	13
β-strand	320-321	2	13
α-helix	322	1
α-helix	325-329	5
α-helix	335-339	5
β-strand	343-345	3	14
β-strand	348-356	9	15
β-strand	363-367	5	15
α-helix	368-373	6
β-strand	375-379	5	16
α-helix	385-394	10
β-strand	402-406	5	16
α-helix	411	1
β-strand	412-414	3	16
β-strand	431-435	5	16
α-helix	436	1
β-strand	441-445	5	15
α-helix	452-454	3
β-strand	455-463	9	15
β-strand	468-471	4	15
α-helix	472-474	3
α-helix	475-478	4
β-strand	486-490	5	15
α-helix	495-504	10
β-strand	506	1	15
α-helix	507-510	4
β-strand	512-513	2	17
β-strand	518-519	2	17
α-helix	525-534	10
β-strand	540-542	3	18
α-helix	543-551	9
α-helix	561-563	3
β-strand	565	1	18
β-strand	571-573	3	18
α-helix	574-578	5
β-strand	588-590	3	19
β-strand	605-607	3	19
β-strand	612-614	3	19
α-helix	619-622	4
α-helix	629-637	9
α-helix	639-660	22
β-strand	663	1	20
α-helix	666-668	3
α-helix	673-698	26
α-helix	704-705	2
α-helix	710-736	27
α-helix	742-749	8
α-helix	755-762	8
β-strand	766-767	2	21
β-strand	769-770	2	22
β-strand	773-774	2	22
α-helix	776	1
β-strand	779	1	23
β-strand	782	1	23
β-strand	799-800	2	21
α-helix	810-845	36
β-strand	849-850	2	24
β-strand	856-857	2	24
β-strand	863-865	3	24
α-helix	868-870	3
β-strand	873	1	25
α-helix	875-877	3
β-strand	878-882	5	26
α-helix	890-897	8
α-helix	908-909	2
β-strand	913	1	27
α-helix	916-919	4
α-helix	923-946	24
β-strand	953-957	5	26
α-helix	960-971	12
α-helix	978	1
β-strand	979	1	27
α-helix	983-995	13
α-helix	1005-1025	21
α-helix	1028-1029	2
α-helix	1030-1034	5
α-helix	1039-1056	18
β-strand	1057	1	25
α-helix	1058-1059	2
α-helix	1064-1077	14
α-helix	1098-1105	8
β-strand	1116-1119	4	28
β-strand	1120	1	29
α-helix	1121	1
α-helix	1128-1138	11
β-strand	1142	1	30
α-helix	1143-1146	4
β-strand	1147-1154	8	31
α-helix	1167-1172	6
β-strand	1191-1197	7	31
α-helix	1199-1204	6
α-helix	1209-1220	12
α-helix	1221-1223	3
β-strand	1224-1228	5	31
β-strand	1236-1242	7	31
α-helix	1257-1270	14
β-strand	1272	1	30
β-strand	1280-1287	8	28
β-strand	1290-1292	3	32
β-strand	1298-1300	3	32
β-strand	1303-1309	7	28
α-helix	1313-1317	5
β-strand	1322	1	29
β-strand	1328-1329	2	28
α-helix	1332-1339	8
α-helix	1341-1358	18
α-helix	1365-1376	12
α-helix	1389-1391	3
α-helix	1396-1399	4
α-helix	1400-1404	5
α-helix	1405-1414	10
β-strand	1418-1419	2	2
α-helix	1424-1429	6
α-helix	1437-1439	3
β-strand	1442-1445	4	33
α-helix	1447-1452	6

Chain b: 3 helices, 3 β-strands

Element	Residues	Length	Sheet
β-strand	3-11	9	34
α-helix	14-27	14
β-strand	31-36	6	34
β-strand	39-42	4	34
α-helix	44-46	3
α-helix	47-59	13

Chain B: 57 helices, 84 β-strands

Element	Residues	Length	Sheet
α-helix	23	1
β-strand	24	1	35
α-helix	25	1
α-helix	30-41	12
α-helix	45-53	9
α-helix	54-58	5
α-helix	59-64	6
β-strand	69-74	6	36
β-strand	85-90	6	36
β-strand	91-100	10	37
β-strand	101-103	3	38
β-strand	109-111	3	38
α-helix	114-119	6
β-strand	125-133	9	37
β-strand	136-139	4	36
β-strand	164-171	8	37
α-helix	172	1
β-strand	173	1	39
α-helix	180-183	4
α-helix	186-191	6
β-strand	203-205	3	39
β-strand	208-212	5	39
α-helix	213	1
β-strand	214-218	5	40
β-strand	223-227	5	41
β-strand	234-241	8	41
β-strand	253-260	8	41
β-strand	269-272	4	41
β-strand	279-281	3	41
α-helix	282-289	8
α-helix	296-301	6
α-helix	308-312	5
α-helix	315-320	6
α-helix	327-336	10
α-helix	345-358	14
α-helix	371-389	19
α-helix	394-396	3
α-helix	401-403	3
β-strand	404-407	4	40
α-helix	409-437	29
α-helix	444-447	4
α-helix	451-463	13
β-strand	480-482	3	39
α-helix	483-484	2
α-helix	488-494	7
β-strand	497-499	3	40
α-helix	516-518	3
β-strand	522	1	42
β-strand	536-538	3	40
β-strand	539	1	42
β-strand	540	1	43
β-strand	544-545	2	44
α-helix	552-559	8
β-strand	563-565	3	45
α-helix	566-568	3
α-helix	577	1
β-strand	578-582	5	45
β-strand	586-590	5	45
α-helix	593-606	14
β-strand	614-618	5	45
β-strand	623-627	5	45
β-strand	633-639	7	44
β-strand	640-641	2	46
β-strand	650-651	2	46
β-strand	654	1	35
α-helix	655-666	12
α-helix	681-686	6
β-strand	690-694	5	44
α-helix	695-698	4
β-strand	703-704	2	44
α-helix	708-710	3
α-helix	713-714	2
α-helix	728-729	2
β-strand	740-741	2	44
α-helix	745-748	4
β-strand	750	1	43
α-helix	753-755	3
α-helix	759-761	3
β-strand	762	1	47
α-helix	764-773	10
α-helix	774-776	3
β-strand	777	1	48
α-helix	785-787	3
β-strand	793-796	4	49
β-strand	800	1	50
β-strand	804-805	2	51
α-helix	807-810	4
β-strand	820-827	8	52
β-strand	828	1	20
β-strand	838-842	5	52
α-helix	843-847	5
β-strand	853-862	10	49
β-strand	865-866	2	53
β-strand	870-871	2	53
β-strand	873-874	2	54
β-strand	882-883	2	54
β-strand	886	1	55
β-strand	898	1	56
α-helix	899-900	2
β-strand	901	1	57
β-strand	903	1	57
β-strand	904	1	49
β-strand	910-912	3	56
β-strand	914-917	4	54
β-strand	934-936	3	54
β-strand	939-940	2	56
α-helix	941-942	2
β-strand	948-956	9	49
β-strand	962-972	11	49
β-strand	979-981	3	52
β-strand	987-994	8	52
β-strand	1001-1002	2	52
β-strand	1010-1012	3	52
α-helix	1017-1020	4
β-strand	1022	1	47
α-helix	1023-1038	16
β-strand	1042-1043	2	51
α-helix	1052-1061	10
β-strand	1069-1073	5	52
α-helix	1079	1
β-strand	1080-1094	15	52
β-strand	1095	1	48
α-helix	1099-1101	3
β-strand	1104-1106	3	15
β-strand	1111	1	58
β-strand	1118	1	58
α-helix	1119-1120	2
α-helix	1121-1124	4
α-helix	1126-1127	2
β-strand	1128-1130	3	14
α-helix	1132-1141	10
α-helix	1144-1151	8
β-strand	1157-1163	7	1
β-strand	1174	1	59
β-strand	1179	1	59
β-strand	1182	1	60
β-strand	1187	1	60
β-strand	1191-1197	7	1
α-helix	1198-1209	12
β-strand	1212	1	3
β-strand	1215-1217	3	2

Chain c: 9 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	34-37	4	55
α-helix	38-40	3
β-strand	42-45	4	55
β-strand	50	1	16
β-strand	51-53	3	55
α-helix	59-63	5
β-strand	80-83	4	11
β-strand	95-96	2	13
β-strand	102	1	12
α-helix	104-112	9
α-helix	126-129	4
α-helix	130-137	8
α-helix	144-155	12
α-helix	175-180	6
α-helix	189-195	7
α-helix	202-209	8

Chain C: 12 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	7-13	7	61
β-strand	17-23	7	61
α-helix	27-39	13
β-strand	43-54	12	62
α-helix	60-69	10
β-strand	72-74	3	63
α-helix	76-79	4
α-helix	81-82	2
β-strand	96-104	9	62
α-helix	110	1
β-strand	111-114	4	64
α-helix	115-117	3
β-strand	119-120	2	62
β-strand	129-132	4	63
α-helix	133	1
β-strand	143-147	5	64
β-strand	152-162	11	62
α-helix	168-170	3
β-strand	173-179	7	61
α-helix	197-200	4
α-helix	202-204	3
α-helix	205-209	5
β-strand	228-234	7	61
α-helix	240-265	26

Chain d: 3 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	4-28	25
α-helix	32-49	18
α-helix	57-60	4
β-strand	230	1	67
β-strand	243-254	12	68
β-strand	257-268	12	68
β-strand	273-284	12	68

Chain D: 8 helices, 6 β-strands

Element	Residues	Length	Sheet
β-strand	6-7	2	33
β-strand	24	1	65
β-strand	28	1	65
β-strand	36-38	3	66
β-strand	44-46	3	66
β-strand	48-49	2	33
α-helix	54-72	19
α-helix	120-133	14
α-helix	139-151	13
α-helix	157-167	11
α-helix	174-182	9
α-helix	188-194	7
α-helix	196-198	3
α-helix	204-215	12

28 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

28 more molecules are not listed.

Sequence of entity 1 (A), FASTA

>5SVA_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

>5SVA_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

>5SVA_3 DNA-directed RNA polymerase II subunit RPB3 (chains C)
MSEEGPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLAD
EFIAHRLGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVI
VSNLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEY
DPWNKLKHTDYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPV
DQVVVRGIDTLQKKVASILLALTQMDQDKVNFASGDNNTASNMLGSNEDVMMTGAEQDPY
SNASQMGNTGSGGYDNAW

Sequence of entity 4 (D), FASTA

>5SVA_4 DNA-directed RNA polymerase II subunit RPB4 (chains D)
MNVSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIK
EALVERRRAFKRSQKKHKKKHLKHENANDETTAVEDEDDDLDEDDVNADDDDFMHSETRE
KELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQL
GSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY

Sequence of entity 5 (E), FASTA

>5SVA_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSF
QANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSA
MKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQR
ADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM

Sequence of entity 6 (F), FASTA

>5SVA_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDYEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQQ
HEQIRRKTLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRI
AMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL

Sequence of entity 7 (G), FASTA

>5SVA_7 DNA-directed RNA polymerase II subunit RPB7 (chains G)
MFFIKDLSLNITLHPSFFGPRMKQYLKTKLLEEVEGSCTGKFGYILCVLDYDNIDIQRGR
ILPTDGSAEFNVKYRAVVFKPFKGEVVDGTVVSCSQHGFEVQVGPMKVFVTKHLMPQDLT
FNAGSNPPSYQSSEDVITIKSRIRVKIEGCISQVSSIHAIGSIKEDYLGAI

Sequence of entity 8 (H), FASTA

>5SVA_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MSNTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLDINVELFPVAAQDSLTVTIA
SSLNLEDTPANDSSATRSWRPPQAGDRSLADDYDYVMYGTAYKFEEVSKDLIAVYYSFGG
LLMRLEGNYRNLNNLKQENAYLLIRR

Sequence of entity 9 (I), FASTA

>5SVA_9 DNA-directed RNA polymerase II subunit RPB9 (chains I)
MTTFRFCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSPLVYRHELITNIGETAGVVQ
DIGSDPTLPRSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQKNKRTQ
FS

Sequence of entity 10 (J), FASTA

>5SVA_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLGLKRYCCRRMILTHVDLIEKF
LRYNPLEKRD

Sequence of entity 11 (K), FASTA

>5SVA_11 DNA-directed RNA polymerase II subunit RPB11 (chains K)
MNAPDRFELFLLGEGESKLKIDPDTKAPNAVVITFEKEDHTLGNLIRAELLNDRKVLFAA
YKVEHPFFARFKLRIQTTEGYDPKDALKNACNSIINKLGALKTNFETEWNLQTLAADDAF

Sequence of entity 12 (L), FASTA

>5SVA_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR
TKRLVQFEAR

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	8
MG	Magnesium ion	Mg	1

Primary citation

Structure of a Complete Mediator-RNA Polymerase II Pre-Initiation Complex. Robinson, P.J., Trnka, M.J., Bushnell, D.A. et al. Cell (2016) 166:1411-1422.e16. DOI 10.1016/j.cell.2016.08.050 · 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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