3PO3: DNA-directed RNA polymerase II subunit RPB1

Arrested RNA Polymerase II reactivation intermediate. Determined by X-ray diffraction at 3.3 Å resolution. Released 2 Mar 2011.

Method: X-ray diffraction
Resolution: 3.3 Å
Organism: Saccharomyces cerevisiae
Chains: 16
Atoms: 33,008
Mol. weight: 549.5 kDa
Ligands: MG, ZN
Released: 2 Mar 2011

Explore 3PO3 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3PO3 contains 200 α-helices and 224 β-strands across 13 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: 78 helices, 72 β-strands

Element	Residues	Length	Sheet
α-helix	10	1
β-strand	11	1	1
β-strand	16-21	6	2
α-helix	24-29	6
β-strand	43	1	3
β-strand	46	1	3
β-strand	82-91	10	4
α-helix	93-95	3
α-helix	96-105	10
β-strand	106	1	5
β-strand	113	1	5
α-helix	120-126	7
α-helix	131-142	12
β-strand	147	1	6
β-strand	151-153	3	7
β-strand	161-163	3	7
α-helix	169	1
β-strand	170	1	6
α-helix	171	1
β-strand	175-177	3	8
β-strand	180-185	6	8
β-strand	198-202	5	8
α-helix	203	1
α-helix	204-212	9
α-helix	216-221	6
β-strand	225	1	9
β-strand	229	1	9
α-helix	231-234	4
β-strand	235-241	7	4
α-helix	242-243	2
α-helix	244-246	3
β-strand	250-251	2	10
β-strand	257-258	2	10
α-helix	261-281	21
α-helix	289-304	16
α-helix	325-329	5
α-helix	335	1
α-helix	336-340	5
β-strand	343-345	3	11
β-strand	348-355	8	12
β-strand	363-367	5	12
α-helix	368-371	4
β-strand	375-379	5	13
α-helix	385-394	10
β-strand	402-406	5	13
α-helix	411	1
β-strand	412-414	3	13
α-helix	419-422	4
β-strand	431-435	5	13
α-helix	436	1
β-strand	441-445	5	12
α-helix	452-454	3
β-strand	455-463	9	12
β-strand	468-470	3	12
α-helix	472-474	3
α-helix	475-478	4
β-strand	486-490	5	12
α-helix	495-500	6
α-helix	501-505	5
β-strand	506	1	12
α-helix	507-510	4
β-strand	512-513	2	14
β-strand	518-519	2	14
α-helix	525-534	10
β-strand	540-542	3	15
α-helix	543-552	10
α-helix	561-563	3
β-strand	565	1	15
β-strand	571-573	3	15
α-helix	574-578	5
α-helix	583	1
β-strand	588-589	2	16
β-strand	606-607	2	16
β-strand	612-614	3	16
α-helix	619-622	4
α-helix	629-637	9
α-helix	639-660	22
α-helix	666-668	3
α-helix	673-698	26
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	17
β-strand	769-770	2	18
β-strand	773-774	2	18
β-strand	779	1	19
β-strand	782	1	19
β-strand	799-800	2	17
α-helix	810-845	36
β-strand	849-850	2	20
β-strand	856-857	2	20
β-strand	863-865	3	20
α-helix	868-870	3
β-strand	873	1	21
α-helix	875-877	3
β-strand	878-882	5	22
α-helix	884-886	3
α-helix	890-897	8
β-strand	913	1	23
α-helix	916-919	4
α-helix	923-946	24
β-strand	953-957	5	22
α-helix	960-971	12
β-strand	979	1	23
α-helix	983-994	12
α-helix	1005-1014	10
α-helix	1016-1025	10
α-helix	1028-1030	3
α-helix	1031-1035	5
α-helix	1039-1056	18
β-strand	1057	1	21
α-helix	1058-1059	2
α-helix	1064-1077	14
α-helix	1098-1105	8
β-strand	1115	1	24
β-strand	1116-1119	4	25
β-strand	1120	1	26
α-helix	1121	1
α-helix	1122-1124	3
α-helix	1128-1138	11
β-strand	1141-1142	2	27
β-strand	1147-1154	8	28
α-helix	1167-1172	6
β-strand	1191-1197	7	28
α-helix	1199-1204	6
α-helix	1209-1220	12
β-strand	1224-1228	5	28
β-strand	1236-1242	7	28
α-helix	1259-1269	11
β-strand	1272-1274	3	27
β-strand	1281-1287	7	25
β-strand	1290-1292	3	29
β-strand	1298-1300	3	29
β-strand	1303-1309	7	25
β-strand	1310	1	24
α-helix	1313-1317	5
β-strand	1322	1	26
β-strand	1328-1329	2	25
α-helix	1332-1339	8
α-helix	1341-1358	18
α-helix	1365-1374	10
α-helix	1389-1391	3
α-helix	1396-1400	5
α-helix	1405-1414	10
β-strand	1418-1419	2	2
α-helix	1424-1429	6
α-helix	1437-1439	3
β-strand	1441-1445	5	30
α-helix	1447-1452	6

Chain B: 55 helices, 71 β-strands

Element	Residues	Length	Sheet
α-helix	23-25	3
α-helix	29-40	12
α-helix	45-53	9
α-helix	54-58	5
α-helix	59-63	5
β-strand	92-97	6	31
β-strand	101	1	32
β-strand	111	1	32
α-helix	114-119	6
β-strand	125-132	8	31
α-helix	133	1
β-strand	165-171	7	31
α-helix	172	1
β-strand	173	1	33
α-helix	180-183	4
α-helix	186-191	6
β-strand	203-205	3	33
β-strand	208-211	4	33
β-strand	214-218	5	34
α-helix	219	1
β-strand	223-227	5	35
β-strand	234-242	9	35
β-strand	252-260	9	35
β-strand	269-272	4	35
β-strand	279-281	3	35
α-helix	282-288	7
α-helix	296-301	6
α-helix	308-320	13
α-helix	327-332	6
α-helix	347-354	8
α-helix	355-359	5
α-helix	372-389	18
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	465	1	36
β-strand	477	1	36
β-strand	481-482	2	33
α-helix	483-484	2
α-helix	488-494	7
β-strand	497	1	37
β-strand	498-499	2	34
α-helix	516-518	3
β-strand	522	1	38
α-helix	530-532	3
β-strand	538	1	37
β-strand	539	1	38
β-strand	544-545	2	39
α-helix	552-560	9
β-strand	563-565	3	40
α-helix	571-573	3
β-strand	578-582	5	40
β-strand	585-590	6	40
α-helix	593-606	14
β-strand	614-618	5	40
β-strand	623-627	5	40
β-strand	633-639	7	39
β-strand	640-641	2	41
β-strand	650-651	2	41
α-helix	655-666	12
α-helix	681-686	6
β-strand	690-694	5	39
α-helix	695-698	4
β-strand	703-704	2	39
α-helix	707-710	4
α-helix	728-729	2
β-strand	740-741	2	39
α-helix	745-748	4
α-helix	751-755	5
α-helix	759-761	3
α-helix	764-773	10
β-strand	779	1	42
α-helix	783-786	4
β-strand	793-796	4	42
β-strand	800	1	43
β-strand	804-805	2	44
α-helix	807-810	4
β-strand	820-827	8	43
β-strand	838-842	5	43
α-helix	843-847	5
β-strand	853-862	10	42
β-strand	865-866	2	45
β-strand	870-871	2	45
β-strand	873-874	2	46
β-strand	893	1	47
β-strand	898	1	48
β-strand	899	1	47
α-helix	900	1
β-strand	904-905	2	42
β-strand	910-912	3	48
β-strand	914-916	3	46
β-strand	935-936	2	46
β-strand	939-940	2	48
β-strand	947-956	10	42
β-strand	962-972	11	42
β-strand	979-982	4	43
β-strand	987-994	8	43
β-strand	1001	1	43
β-strand	1010-1012	3	43
α-helix	1014-1016	3
α-helix	1017-1020	4
α-helix	1023-1038	16
β-strand	1042-1043	2	44
α-helix	1052-1061	10
β-strand	1069-1073	5	43
β-strand	1080-1094	15	43
α-helix	1095	1
α-helix	1099-1101	3
β-strand	1104-1106	3	12
β-strand	1111	1	49
β-strand	1118	1	49
α-helix	1119	1
α-helix	1122-1124	3
α-helix	1126-1127	2
β-strand	1128-1130	3	11
α-helix	1132-1141	10
α-helix	1144-1151	8
α-helix	1152-1156	5
β-strand	1157-1163	7	1
β-strand	1174	1	50
β-strand	1179	1	50
β-strand	1191-1197	7	1
α-helix	1198-1209	12
β-strand	1212-1217	6	2

Chain C: 15 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	7-13	7	51
β-strand	17-23	7	51
α-helix	27-39	13
β-strand	43-54	12	52
α-helix	60-69	10
β-strand	72	1	53
α-helix	77-79	3
α-helix	81-82	2
α-helix	83-85	3
β-strand	96-104	9	52
β-strand	111-114	4	54
α-helix	115-117	3
β-strand	118-120	3	52
α-helix	131	1
β-strand	132	1	53
α-helix	133	1
β-strand	143-147	5	54
β-strand	152-162	11	52
β-strand	176-180	5	51
α-helix	197-200	4
α-helix	202-204	3
α-helix	205-209	5
α-helix	217-219	3
β-strand	228-233	6	51
α-helix	234	1
α-helix	240-261	22
α-helix	263-266	4

Chain D: 9 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	6	1	30
α-helix	10-11	2
β-strand	36-38	3	55
β-strand	44-46	3	55
β-strand	48-49	2	30
α-helix	54-72	19
α-helix	121-133	13
α-helix	139-151	13
α-helix	157-169	13
α-helix	174-182	9
α-helix	188-194	7
α-helix	196-198	3
α-helix	204-217	14

Chain E: 15 helices, 14 β-strands

Element	Residues	Length	Sheet
α-helix	4-26	23
β-strand	28	1	56
α-helix	32-36	5
α-helix	39-46	8
β-strand	47	1	57
β-strand	53	1	57
α-helix	55-58	4
β-strand	60-62	3	58
β-strand	64	1	56
α-helix	66-71	6
β-strand	78-82	5	58
β-strand	87-88	2	59
α-helix	90-102	13
β-strand	107-112	6	58
β-strand	115-116	2	59
α-helix	118-121	4
α-helix	124-126	3
β-strand	131-136	6	58
α-helix	137-140	4
α-helix	144-146	3
β-strand	152-155	4	60
α-helix	156-157	2
α-helix	158-168	11
α-helix	172-174	3
β-strand	177-178	2	60
α-helix	183-188	6
α-helix	190-191	2
β-strand	195-201	7	60
β-strand	207-214	8	60

Chain F: 6 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	76-78	3
β-strand	84	1	61
α-helix	85-86	2
α-helix	87-102	16
α-helix	105-107	3
α-helix	117-126	10
β-strand	132-137	6	30
α-helix	138	1
β-strand	143-147	5	30
β-strand	152	1	61

Chain G: 4 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	3-13	11	30
α-helix	15-17	3
α-helix	22-34	13
β-strand	37-39	3	30
β-strand	43-49	7	30
α-helix	51-53	3
β-strand	55	1	30
β-strand	59-61	3	30
β-strand	68-79	12	30
β-strand	86-95	10	62
β-strand	98-103	6	62
β-strand	106-111	6	62
α-helix	112-114	3
β-strand	120-122	3	63
β-strand	129-132	4	63
β-strand	135-137	3	63
β-strand	142-152	11	62
β-strand	157-162	6	62
β-strand	169-170	2	62

Chain H: 0 helices, 8 β-strands

Element	Residues	Length	Sheet
β-strand	7-16	10	15
β-strand	23-30	8	15
β-strand	37-43	7	15
β-strand	54-58	5	15
β-strand	95-107	13	15
β-strand	111-118	8	15
β-strand	121-127	7	15
β-strand	140-145	6	15

5 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

4 more molecules are not listed.

Sequence of entity 1 (A), FASTA

>3PO3_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

>3PO3_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

>3PO3_3 DNA-directed RNA polymerase II subunit RPB3 (chains C)
MSEEGPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLAD
EFIAHRLGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVI
VSNLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEY
DPWNKLKHTDYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPV
DQVVVRGIDTLQKKVASILLALTQMDQDKVNFASGDNNTASNMLGSNEDVMMTGAEQDPY
SNASQMGNTGSGGYDNAW

Sequence of entity 4 (D), FASTA

>3PO3_4 DNA-directed RNA polymerase II subunit RPB4 (chains D)
MNVSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIK
EALVERRRAFKRSQKKHKKKHLKHENANDETTAVEDEDDDLDEDDVNADDDDFMHSETRE
KELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQL
GSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY

Sequence of entity 5 (E), FASTA

>3PO3_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSF
QANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSA
MKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQR
ADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM

Sequence of entity 6 (F), FASTA

>3PO3_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDYEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQQ
HEQIRRKTLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRI
AMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL

Sequence of entity 7 (G), FASTA

>3PO3_7 DNA-directed RNA polymerase II subunit RPB7 (chains G)
MFFIKDLSLNITLHPSFFGPRMKQYLKTKLLEEVEGSCTGKFGYILCVLDYDNIDIQRGR
ILPTDGSAEFNVKYRAVVFKPFKGEVVDGTVVSCSQHGFEVQVGPMKVFVTKHLMPQDLT
FNAGSNPPSYQSSEDVITIKSRIRVKIEGCISQVSSIHAIGSIKEDYLGAI

Sequence of entity 8 (H), FASTA

>3PO3_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MSNTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLDINVELFPVAAQDSLTVTIA
SSLNLEDTPANDSSATRSWRPPQAGDRSLADDYDYVMYGTAYKFEEVSKDLIAVYYSFGG
LLMRLEGNYRNLNNLKQENAYLLIRR

Sequence of entity 9 (I), FASTA

>3PO3_9 DNA-directed RNA polymerase II subunit RPB9 (chains I)
MTTFRFCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSPLVYRHELITNIGETAGVVQ
DIGSDPTLPRSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQKNKRTQ
FS

Sequence of entity 10 (J), FASTA

>3PO3_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLGLKRYCCRRMILTHVDLIEKF
LRYNPLEKRD

Sequence of entity 11 (K), FASTA

>3PO3_11 DNA-directed RNA polymerase II subunit RPB11 (chains K)
MNAPDRFELFLLGEGESKLKIDPDTKAPNAVVITFEKEDHTLGNLIRAELLNDRKVLFAA
YKVEHPFFARFKLRIQTTEGYDPKDALKNACNSIINKLGALKTNFETEWNLQTLAADDAF

Sequence of entity 12 (L), FASTA

>3PO3_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

Water and common crystallization additives (PGE, EPE, ACT) are not listed.

Primary citation

Structural basis of RNA polymerase II backtracking, arrest and reactivation. Cheung, A.C., Cramer, P. Nature (2011) 471:249-253. DOI 10.1038/nature09785 · 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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