5IP9: RNA Polymerase II-TFIIF complex

Name: PDB 5IP9: Structure of RNA Polymerase II-TFIIF complex
Published: 2016-05-11
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: transcription

Structure of RNA Polymerase II-TFIIF complex. Determined by X-ray diffraction at 3.9 Å resolution. Released 11 May 2016.

Method: X-ray diffraction
Resolution: 3.9 Å
Organism: Saccharomyces cerevisiae
Chains: 13
Atoms: 31,339
Mol. weight: 498.98 kDa
Ligands: MG, ZN
Released: 11 May 2016

Explore 5IP9 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5IP9 contains 182 α-helices and 226 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: 71 helices, 67 β-strands

Element	Residues	Length	Sheet
β-strand	11	1	1
β-strand	16-21	6	2
α-helix	24-30	7
β-strand	34	1	3
α-helix	55-58	4
β-strand	82-91	10	3
α-helix	93-95	3
α-helix	96-105	10
β-strand	106	1	4
β-strand	113	1	4
α-helix	120-127	8
α-helix	131-142	12
β-strand	147	1	5
β-strand	152	1	6
β-strand	162	1	6
β-strand	170	1	5
β-strand	175-177	3	7
β-strand	180-185	6	7
β-strand	198-202	5	7
α-helix	204-212	9
α-helix	216-221	6
β-strand	225	1	8
β-strand	229	1	8
α-helix	231-234	4
β-strand	235-241	7	3
α-helix	244-246	3
α-helix	261-281	21
α-helix	289-304	16
α-helix	325-329	5
α-helix	335-340	6
β-strand	343-345	3	9
β-strand	348-356	9	10
β-strand	363-367	5	10
α-helix	368-371	4
β-strand	375-379	5	11
α-helix	382-394	13
β-strand	402-407	6	11
β-strand	411-414	4	11
β-strand	431-435	5	11
α-helix	436	1
β-strand	441-445	5	10
β-strand	455-463	9	10
β-strand	468-471	4	10
α-helix	472-474	3
α-helix	475-478	4
β-strand	486-490	5	10
α-helix	495-504	10
β-strand	506	1	10
α-helix	507-510	4
β-strand	512-513	2	12
β-strand	518-519	2	12
α-helix	526-534	9
β-strand	540-542	3	13
α-helix	543-552	10
α-helix	560-563	4
β-strand	565	1	13
β-strand	571-573	3	13
α-helix	574-578	5
β-strand	588-590	3	14
β-strand	605-608	4	14
β-strand	611-614	4	14
α-helix	619-622	4
α-helix	629-637	9
α-helix	639-660	22
β-strand	662-663	2	15
α-helix	666-668	3
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	16
β-strand	770	1	17
β-strand	773	1	17
α-helix	794-797	4
β-strand	799-800	2	16
α-helix	810-845	36
β-strand	849-850	2	18
β-strand	856-857	2	18
β-strand	863	1	18
α-helix	868-870	3
β-strand	873	1	19
α-helix	875-877	3
β-strand	879-882	4	20
α-helix	890-897	8
β-strand	913	1	21
α-helix	916-919	4
α-helix	923-946	24
β-strand	953-956	4	20
α-helix	960-971	12
α-helix	978	1
β-strand	979	1	21
α-helix	983-996	14
α-helix	1005-1014	10
α-helix	1016-1025	10
α-helix	1028-1033	6
α-helix	1039-1056	18
β-strand	1057	1	19
α-helix	1064-1077	14
α-helix	1098-1106	9
β-strand	1116-1119	4	22
β-strand	1120	1	23
α-helix	1121	1
α-helix	1122-1124	3
α-helix	1128-1138	11
β-strand	1141-1142	2	24
α-helix	1143-1146	4
β-strand	1147-1154	8	25
α-helix	1167-1172	6
β-strand	1188-1197	10	25
α-helix	1199-1204	6
α-helix	1209-1220	12
α-helix	1221-1223	3
β-strand	1224-1228	5	25
β-strand	1236-1243	8	25
α-helix	1257-1265	9
α-helix	1266-1270	5
β-strand	1272-1274	3	24
β-strand	1283-1287	5	22
β-strand	1290-1292	3	26
β-strand	1298-1300	3	26
β-strand	1303-1307	5	22
α-helix	1313-1316	4
β-strand	1322	1	23
β-strand	1328-1329	2	22
α-helix	1332-1339	8
α-helix	1341-1356	16
α-helix	1365-1377	13
β-strand	1378	1	27
α-helix	1389-1391	3
α-helix	1396-1400	5
α-helix	1406-1414	9
β-strand	1418-1419	2	2
α-helix	1424-1430	7
α-helix	1437-1439	3
β-strand	1441-1445	5	28
α-helix	1447-1453	7

Chain B: 53 helices, 77 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	92-100	9	29
β-strand	101	1	30
β-strand	111	1	30
α-helix	112-113	2
α-helix	114-119	6
β-strand	125-132	8	29
β-strand	165-171	7	29
α-helix	172-173	2
α-helix	186-191	6
β-strand	203-205	3	31
β-strand	208-212	5	31
β-strand	214-218	5	32
α-helix	219	1
β-strand	223-227	5	33
α-helix	228-229	2
β-strand	234-242	9	33
β-strand	252-259	8	33
β-strand	269-271	3	33
β-strand	280-281	2	33
α-helix	282-288	7
α-helix	296-299	4
α-helix	308-312	5
α-helix	315-321	7
α-helix	327-338	12
α-helix	345-349	5
α-helix	350-358	9
α-helix	371-389	19
α-helix	394-395	2
α-helix	401-403	3
β-strand	404-407	4	32
α-helix	409-434	26
α-helix	451-463	13
β-strand	465-466	2	34
β-strand	476-477	2	34
β-strand	480-482	3	31
α-helix	488-495	8
β-strand	497	1	35
β-strand	498-499	2	32
α-helix	516-518	3
β-strand	522	1	36
α-helix	530-532	3
β-strand	538	1	35
β-strand	539	1	36
β-strand	540	1	37
β-strand	544-545	2	38
α-helix	552-559	8
α-helix	563	1
β-strand	564-565	2	39
α-helix	566-568	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	1	40
β-strand	651	1	40
α-helix	655-666	12
α-helix	682-686	5
β-strand	690-694	5	38
α-helix	695-698	4
β-strand	703-704	2	38
α-helix	708-710	3
β-strand	740-741	2	38
α-helix	745-748	4
β-strand	750	1	37
α-helix	751-754	4
α-helix	759-761	3
β-strand	762	1	41
α-helix	764-773	10
α-helix	783-786	4
β-strand	792-796	5	42
β-strand	800	1	43
β-strand	804-805	2	44
α-helix	807-810	4
β-strand	821-827	7	45
β-strand	828-829	2	15
β-strand	838-842	5	45
α-helix	843-847	5
β-strand	853-862	10	42
β-strand	865	1	46
β-strand	871	1	46
β-strand	873-874	2	47
α-helix	890-892	3
β-strand	893	1	48
β-strand	898	1	49
β-strand	899	1	48
β-strand	904-905	2	42
β-strand	910-912	3	49
β-strand	914-917	4	47
β-strand	934-936	3	47
β-strand	939-940	2	49
α-helix	941-942	2
β-strand	947-956	10	42
β-strand	962-972	11	42
β-strand	979-982	4	45
β-strand	987-994	8	45
β-strand	1001-1002	2	50
β-strand	1010-1012	3	45
β-strand	1022	1	41
α-helix	1023-1038	16
β-strand	1042-1043	2	44
α-helix	1052-1062	11
β-strand	1069-1073	5	50
α-helix	1079	1
β-strand	1080-1086	7	50
β-strand	1089-1094	6	45
α-helix	1099-1102	4
β-strand	1104-1106	3	10
β-strand	1111	1	51
β-strand	1118	1	51
α-helix	1119-1120	2
α-helix	1126-1127	2
β-strand	1128-1130	3	9
α-helix	1132-1141	10
α-helix	1144-1151	8
α-helix	1152-1156	5
β-strand	1157-1163	7	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	1191-1197	7	1
α-helix	1198-1208	11
β-strand	1212-1217	6	2

Chain C: 14 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	7-13	7	54
β-strand	17-23	7	54
α-helix	27-39	13
β-strand	43-54	12	55
α-helix	60-69	10
β-strand	72	1	56
α-helix	77-79	3
α-helix	81-82	2
α-helix	83-85	3
β-strand	96-104	9	55
β-strand	111-114	4	57
α-helix	115-117	3
β-strand	118-120	3	55
α-helix	131	1
β-strand	132	1	56
α-helix	133	1
β-strand	143-147	5	57
β-strand	152-162	11	55
α-helix	168-170	3
β-strand	173	1	58
β-strand	177-180	4	54
α-helix	197-200	4
α-helix	202-204	3
α-helix	205-207	3
α-helix	218-219	2
β-strand	228-233	6	54
β-strand	234	1	58
α-helix	240-265	26

Chain D: 7 helices, 6 β-strands

Element	Residues	Length	Sheet
β-strand	5-7	3	28
β-strand	24	1	59
β-strand	28	1	59
β-strand	36-38	3	60
β-strand	44-46	3	60
β-strand	48-49	2	28
α-helix	52-75	24
α-helix	121-133	13
α-helix	139-151	13
α-helix	157-168	12
α-helix	174-182	9
α-helix	188-194	7
α-helix	204-217	14

Chain E: 14 helices, 14 β-strands

Element	Residues	Length	Sheet
α-helix	5-26	22
β-strand	28	1	61
α-helix	32-35	4
α-helix	39-46	8
β-strand	47	1	62
β-strand	53	1	62
α-helix	55-58	4
β-strand	60-62	3	63
β-strand	64	1	61
α-helix	66-71	6
β-strand	78-82	5	63
β-strand	87-88	2	64
α-helix	89	1
α-helix	90-102	13
β-strand	107-112	6	63
β-strand	115-116	2	64
α-helix	118-121	4
β-strand	131-136	6	63
α-helix	139-141	3
α-helix	144-146	3
β-strand	152-155	4	27
α-helix	158-168	11
α-helix	176	1
β-strand	177-178	2	27
α-helix	183-187	5
α-helix	190-191	2
β-strand	195-201	7	27
β-strand	207-214	8	27

Chain F: 5 helices, 5 β-strands

Element	Residues	Length	Sheet
β-strand	73	1	28
α-helix	74-75	2
β-strand	84	1	65
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	28
β-strand	143-147	5	28
β-strand	152	1	65

Chain G: 6 helices, 15 β-strands

Element	Residues	Length	Sheet
β-strand	3-13	11	28
α-helix	15-17	3
α-helix	22-34	13
β-strand	38	1	28
β-strand	44-49	6	28
α-helix	51-53	3
β-strand	55	1	28
α-helix	58	1
β-strand	59-61	3	28
α-helix	62	1
β-strand	68-79	12	28
β-strand	86-95	10	66
β-strand	98-103	6	66
β-strand	106-111	6	66
α-helix	112-114	3
β-strand	120-122	3	67
β-strand	129-131	3	67
β-strand	136-137	2	67
β-strand	142-153	12	66
β-strand	156-162	7	66
β-strand	169-170	2	66

Chain H: 0 helices, 9 β-strands

Element	Residues	Length	Sheet
β-strand	4-16	13	13
β-strand	23-30	8	13
β-strand	37-43	7	13
β-strand	54-60	7	13
β-strand	95-98	4	13
β-strand	100-106	7	13
β-strand	112-118	7	13
β-strand	121-127	7	13
β-strand	141-145	5	13

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	1732	Saccharomyces cerevisiae	P04050 (AlphaFold model)
DNA-directed RNA polymerase II subunit RPB2	B	protein	1223	Saccharomyces cerevisiae	P08518 (AlphaFold model)
DNA-directed RNA polymerase II subunit RPB3	C	protein	266	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	214	Saccharomyces cerevisiae	P20434
DNA-directed RNA polymerases I, II, and III subunit RPABC2	F	protein	87	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	145	Saccharomyces cerevisiae	P20436
DNA-directed RNA polymerase II subunit RPB9	I	protein	119	Saccharomyces cerevisiae	P27999
DNA-directed RNA polymerases I, II, and III subunit RPABC5	J	protein	65	Saccharomyces cerevisiae	P22139
DNA-directed RNA polymerase II subunit RPB11	K	protein	115	Saccharomyces cerevisiae	P38902
DNA-directed RNA polymerases I, II, and III subunit RPABC4	L	protein	46	Saccharomyces cerevisiae	P40422

1 more molecules are not listed.

Sequence of entity 1 (A), FASTA

>5IP9_1 DNA-directed RNA polymerase II subunit RPB1 (chains A)
VGQQYSSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSI
DRNLKCQTCQEGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNEL
MRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRKDGLKL
VGSWKKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPV
PPPPVRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLLQFHVA
TYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLEL
DQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKRA
GDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNAD
FDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFI
ELDQVLNMLYWVPDWDGVIPTPAIIKPKPLWSGKQILSVAIPNGIHLQRFDEGTTLLSPK
DNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHNG
FSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFEDNVVRF
LNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQSVEGKRIAFGFVD
RTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRL
VKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVDL
LNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNIR
RIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCCL
LRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMTL
NTFHFAGVASKKVTSGVPRLKEILNVAKNMKTPSLTVYLEPGHAADQEQAKLIRSAIEHT
TLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELDRAA
MNDKDLTMGQVGERIKQTFKNDLFVIWSEDNDEKLIIRCRVVRPKSLDAETEAEEDHMLK
KIENTMLENITLRGVENIERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTVPG
IDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGGL
TSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTGAF
DVMIDEESLVKYMPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVDSGSN
DAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSP
SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP
TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPS
YSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKHNENENSR

Sequence of entity 2 (B), FASTA

>5IP9_2 DNA-directed RNA polymerase II subunit RPB2 (chains B)
SDLANSEKYYDEDPYGFEDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQD
IICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESDGVTHALYPQEARLRN
LTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCYL
SEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIR
SALEKGSRFISTLQVKLYGREGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHI
CYDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRGTALGIKKEKRIQYAKDILQKEFL
PHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTLF
KKLTKDIFRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQ
VLNRYTYSSTLSHLRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSL
MSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSPDATRVFVNGVWHGVHRNPARLMETLR
TLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIAKL
MATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDL
DVDPAKRIRVSHHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVF
LTNYNVRMDTMANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDSMIM
NQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLDDDGLIAP
GVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGL
KFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRM
TVAHLIECLLSKVAALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKKL
MAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAH
GAASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAK
LLFQELMAMNITPRLYTDRSRDF

Sequence of entity 3 (C), FASTA

>5IP9_3 DNA-directed RNA polymerase II subunit RPB3 (chains C)
EEGPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEVETNTTVLADEF
IAHRLGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVS
NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEYDP
WNKLKHTDYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQ
VVVRGIDTLQKKVASILLALTQMDQD

Sequence of entity 4 (D), FASTA

>5IP9_4 DNA-directed RNA polymerase II subunit RPB4 (chains D)
MNVSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIK
EALVERRRAFKRSQKKHKKKHLKHENANDETTAVEDEDDDLDEDDVNADDDDFMHSETRE
KELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQL
GSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY

Sequence of entity 5 (E), FASTA

>5IP9_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
DQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSFQ
ANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAM
KLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQRA
DPVALYLGLKRGEVVKIIRKSETSGRYASYRICM

Sequence of entity 6 (F), FASTA

>5IP9_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
LKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEK
KIPLVIRRYLPDGSFEDWSVEELIVDL

Sequence of entity 7 (G), FASTA

>5IP9_7 DNA-directed RNA polymerase II subunit RPB7 (chains G)
MFFIKDLSLNITLHPSFFGPRMKQYLKTKLLEEVEGSCTGKFGYILCVLDYDNIDIQRGR
ILPTDGSAEFNVKYRAVVFKPFKGEVVDGTVVSCSQHGFEVQVGPMKVFVTKHLMPQDLT
FNAGSNPPSYQSSEDVITIKSRIRVKIEGCISQVSSIHAIGSIKEDYLGAI

Sequence of entity 8 (H), FASTA

>5IP9_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
SNTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLDINVELFPVAAQDSLTVTIAS
SLNLEDTPANDSSATRSWRPPQAGDRSLADDYDYVMYGTAYKFEEVSKDLIAVYYSFGGL
LMRLEGNYRNLNNLKQENAYLLIRR

Sequence of entity 9 (I), FASTA

>5IP9_9 DNA-directed RNA polymerase II subunit RPB9 (chains I)
TTFRFCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSPLVYRHELITNIGETAGVVQD
IGSDPTLPRSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQKNKRTQ

Sequence of entity 10 (J), FASTA

>5IP9_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLGLKRYCCRRMILTHVDLIEKF
LRYNP

Sequence of entity 11 (K), FASTA

>5IP9_11 DNA-directed RNA polymerase II subunit RPB11 (chains K)
MNAPDRFELFLLGEGESKLKIDPDTKAPNAVVITFEKEDHTLGNLIRAELLNDRKVLFAA
YKVEHPFFARFKLRIQTTEGYDPKDALKNACNSIINKLGALKTNFETEWNLQTLA

Sequence of entity 12 (L), FASTA

>5IP9_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
ATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR

Ligands and cofactors

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

Primary citation

Transcription initiation complex structures elucidate DNA opening. Plaschka, C., Hantsche, M., Dienemann, C. et al. Nature (2016) 533:353-358. DOI 10.1038/nature17990 · 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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