7ZWC: SNAPc:TBP-TFIIA-TFIIB sub-complex
Structure of SNAPc:TBP-TFIIA-TFIIB sub-complex bound to U5 snRNA promoter. Determined by electron microscopy at 3.2 Å resolution. Released 30 Nov 2022.
- Method
- Electron microscopy
- Resolution
- 3.2 Å
- Organism
- Homo sapiens
- Chains
- 10
- Atoms
- 13,944
- Mol. weight
- 446.85 kDa
- Ligands
- ZN
- Released
- 30 Nov 2022
Explore 7ZWC in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
7ZWC contains 64 α-helices and 46 β-strands across 8 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: 10 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 7-19 | 13 | |
| α-helix | 26-36 | 11 | |
| α-helix | 38-42 | 5 | |
| α-helix | 48-66 | 19 | |
| β-strand | 70 | 1 | 3 |
| α-helix | 72-87 | 16 | |
| β-strand | 97-99 | 3 | 4 |
| α-helix | 104-116 | 13 | |
| α-helix | 120-131 | 12 | |
| β-strand | 135-137 | 3 | 4 |
| β-strand | 138 | 1 | 5 |
| β-strand | 164 | 1 | 3 |
| α-helix | 167-171 | 5 | |
| α-helix | 174-194 | 21 | |
| α-helix | 212-231 | 20 | |
Chain b: 15 helices, 21 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 32 | 1 | 6 |
| β-strand | 39 | 1 | 6 |
| β-strand | 42-43 | 2 | 7 |
| α-helix | 44-54 | 11 | |
| α-helix | 77-90 | 14 | |
| α-helix | 94-103 | 10 | |
| α-helix | 128-143 | 16 | |
| α-helix | 151-160 | 10 | |
| α-helix | 174-176 | 3 | |
| β-strand | 181-187 | 7 | 5 |
| α-helix | 188-189 | 2 | |
| α-helix | 193-196 | 4 | |
| β-strand | 201-206 | 6 | 5 |
| α-helix | 207 | 1 | |
| β-strand | 211 | 1 | 8 |
| α-helix | 222-225 | 4 | |
| α-helix | 238-242 | 5 | |
| α-helix | 243-246 | 4 | |
| β-strand | 250-253 | 4 | 5 |
| β-strand | 257-260 | 4 | 5 |
| α-helix | 271-279 | 9 | |
| β-strand | 289-291 | 3 | 5 |
| β-strand | 297 | 1 | 8 |
| α-helix | 298-300 | 3 | |
| β-strand | 302-303 | 2 | 7 |
| β-strand | 309-313 | 5 | 5 |
| β-strand | 317-327 | 11 | 5 |
| β-strand | 342-345 | 4 | 5 |
| β-strand | 353 | 1 | 9 |
| β-strand | 361 | 1 | 9 |
| β-strand | 364-367 | 4 | 10 |
| β-strand | 377-379 | 3 | 10 |
| α-helix | 381-388 | 8 | |
| β-strand | 389 | 1 | 11 |
| β-strand | 395 | 1 | 11 |
| β-strand | 400-403 | 4 | 10 |
Chain c: 18 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 83-122 | 40 | |
| α-helix | 142-144 | 3 | |
| α-helix | 159-162 | 4 | |
| α-helix | 163-170 | 8 | |
| α-helix | 186-220 | 35 | |
| α-helix | 226-246 | 21 | |
| α-helix | 250-254 | 5 | |
| α-helix | 263-265 | 3 | |
| α-helix | 266-270 | 5 | |
| α-helix | 277-282 | 6 | |
| α-helix | 283-288 | 6 | |
| α-helix | 296-297 | 2 | |
| α-helix | 299-312 | 14 | |
| α-helix | 317-323 | 7 | |
| α-helix | 330-339 | 10 | |
| α-helix | 351-364 | 14 | |
| α-helix | 372-376 | 5 | |
| α-helix | 384-393 | 10 | |
Chain d: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 2-44 | 43 | |
Chain M: 12 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 118-128 | 11 | |
| α-helix | 132-148 | 17 | |
| α-helix | 156-171 | 16 | |
| α-helix | 177-181 | 5 | |
| α-helix | 188-202 | 15 | |
| α-helix | 207-209 | 3 | |
| α-helix | 215-221 | 7 | |
| α-helix | 226-241 | 16 | |
| α-helix | 250-264 | 15 | |
| α-helix | 271-278 | 8 | |
| α-helix | 282-292 | 11 | |
| α-helix | 296-299 | 4 | |
Chain O: 4 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 164-173 | 10 | 1 |
| α-helix | 180-186 | 7 | |
| β-strand | 190-192 | 3 | 1 |
| β-strand | 200-204 | 5 | 1 |
| β-strand | 209-213 | 5 | 1 |
| β-strand | 218-222 | 5 | 1 |
| α-helix | 227-243 | 17 | |
| β-strand | 251-263 | 13 | 1 |
| β-strand | 268 | 1 | 2 |
| α-helix | 270-276 | 7 | |
| β-strand | 281-282 | 2 | 1 |
| β-strand | 291-295 | 5 | 1 |
| β-strand | 300-304 | 5 | 1 |
| β-strand | 309-315 | 7 | 1 |
| α-helix | 318-334 | 17 | |
| β-strand | 336 | 1 | 2 |
Chain U: 2 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 10-32 | 23 | |
| α-helix | 36-50 | 15 | |
| β-strand | 334-344 | 11 | 1 |
| β-strand | 348-360 | 13 | 1 |
| β-strand | 363-367 | 5 | 1 |
| β-strand | 369-375 | 7 | 1 |
Chain V: 2 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 10-24 | 15 | |
| α-helix | 30-51 | 22 | |
| β-strand | 55-64 | 10 | 1 |
| β-strand | 67-68 | 2 | 1 |
| β-strand | 71-82 | 12 | 1 |
| β-strand | 87-97 | 11 | 1 |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Transcription initiation factor IIB | M | protein | 316 | Homo sapiens | Q00403 (AlphaFold model) |
| TATA-box-binding protein | O | protein | 339 | Homo sapiens | P20226 (AlphaFold model) |
| Transcription initiation factor IIA subunit 1 | U | protein | 376 | Homo sapiens | P52655 (AlphaFold model) |
| Transcription initiation factor IIA subunit 2 | V | protein | 109 | Homo sapiens | P52657 (AlphaFold model) |
| snRNA-activating protein complex subunit 1 | a | protein | 368 | Homo sapiens | Q16533 |
| snRNA-activating protein complex subunit 3 | b | protein | 411 | Homo sapiens | Q92966 |
| snRNA-activating protein complex subunit 4 | c | protein | 1469 | Homo sapiens | Q5SXM2 |
| snRNA-activating protein complex subunit 5 | d | protein | 98 | Homo sapiens | O75971 |
| Non-template strand | N | DNA | 96 | Homo sapiens | |
| Template strand | T | DNA | 96 | Homo sapiens | |
Sequence of entity 1 (M), FASTA
>7ZWC_1 Transcription initiation factor IIB (chains M)
MASTSRLDALPRVTCPNHPDAILVEDYRAGDMICPECGLVVGDRVIDVGSEWRTFSNDKA
TKDPSRVGDSQNPLLSDGDLSTMIGKGTGAASFDEFGNSKYQNRRTMSSSDRAMMNAFKE
ITTMADRINLPRNIVDRTNNLFKQVYEQKSLKGRANDAIASACLYIACRQEGVPRTFKEI
CAVSRISKKEIGRCFKLILKALETSVDLITTGDFMSRFCSNLCLPKQVQMAATHIARKAV
ELDLVPGRSPISVAAAAIYMASQASAEKRTQKEIGDIAGVADVTIRQSYRLIYPRAPDLF
PTDFKFDTPVDKLPQL
Sequence of entity 2 (O), FASTA
>7ZWC_2 TATA-box-binding protein (chains O)
MDQNNSLPPYAQGLASPQGAMTPGIPIFSPMMPYGTGLTPQPIQNTNSLSILEEQQRQQQ
QQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQAVAAAAVQQSTSQQATQGTSGQAPQ
LFHSQTLTTAPLPGTTPLYPSPMTPMTPITPATPASESSGIVPQLQNIVSTVNLGCKLDL
KTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKSEEQSRLAARKYARV
VQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEPELFPGLIYRMIKPRI
VLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRKTT
Sequence of entity 3 (U), FASTA
>7ZWC_3 Transcription initiation factor IIA subunit 1 (chains U)
MANSANTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLMQSRAVDGFH
SEEQQLLLQVQQQHQPQQQQHHHHHHHQQAQPQQTVPQQAQTQQVLIPASQQATAPQVIV
PDSKLIQHMNASNMSAAATAATLALPAGVTPVQQILTNSGQLLQVVRAANGAQYIFQPQQ
SVVLQQQVIPQMQPGGVQAPVIQQVLAPLPGGISPQTGVIIQPQQILFTGNKTQVIPTTV
AAPTPAQAQITATGQQQPQAQPAQTQAPLVLQVDGTGDTSSEEDEDEEEDYDDDEEEDKE
KDGAEDGQVEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNL
NGRDYIFSKAIGDAEW
Sequence of entity 4 (V), FASTA
>7ZWC_4 Transcription initiation factor IIA subunit 2 (chains V)
MAYQLYRNTTLGNSLQESLDELIQSQQITPQLALQVLLQFDKAINAALAQRVRNRVNFRG
SLNTYRFCDNVWTFVLNDVEFREVTELIKVDKVKIVACDGKNTGSNTTE
Sequence of entity 5 (a), FASTA
>7ZWC_5 snRNA-activating protein complex subunit 1 (chains a)
MGTPPGLQTDCEALLSRFQETDSVRFEDFTELWRNMKFGTIFCGRMRNLEKNMFTKEALA
LAWRYFLPPYTFQIRVGALYLLYGLYNTQLCQPKQKIRVALKDWDEVLKFQQDLVNAQHF
DAAYIFRKLRLDRAFHFTAMPKLLSYRMKKKIHRAEVTEEFKDPSDRVMKLITSDVLEEM
LNVHDHYQNMKHVISVDKSKPDKALSLIKDDFFDNIKNIVLEHQQWHKDRKNPSLKSKTN
DGEEKMEGNSQETERCERAESLAKIKSKAFSVVIQASKSRRHRQVKLDSSDSDSASGQGQ
VKATRKKEKKERLKPAGRKMSLRNKGNVQNIHKEDKPLSLSMPVITEEEENESLSGTEFT
ASKKRRKH
Sequence of entity 6 (b), FASTA
>7ZWC_6 snRNA-activating protein complex subunit 3 (chains b)
MAEGSRGGPTCSGVGGRQDPVSGSGGCNFPEYELPELNTRAFHVGAFGELWRGRLRGAGD
LSLREPPASALPGSQAADSDREDAAVARDLDCSLEAAAELRAVCGLDKLKCLEDGEDPEV
IPENTDLVTLGVRKRFLEHREETITIDRACRQETFVYEMESHAIGKKPENSADMIEEGEL
ILSVNILYPVIFHKHKEHKPYQTMLVLGSQKLTQLRDSIRCVSDLQIGGEFSNTPDQAPE
HISKDLYKSAFFYFEGTFYNDKRYPECRDLSRTIIEWSESHDRGYGKFQTARMEDFTFND
LCIKLGFPYLYCHQGDCEHVIVITDIRLVHHDDCLDRTLYPLLIKKHWLWTRKCFVCKMY
TARWVTNNDSFAPEDPCFFCDVCFRMLHYDSEGNKLGEFLAYPYVDPGTFN
Sequence of entity 7 (c), FASTA
>7ZWC_7 snRNA-activating protein complex subunit 4 (chains c)
MDVDAEREKITQEIKELERILDPGSSGSHVEISESSLESDSEADSLPSEDLDPADPPISE
EERWGEASNDEDDPKDKTLPEDPETCLQLNMVYQEVIQEKLAEANLLLAQNREQQEELMR
DLAGSKGTKVKDGKSLPPSTYMGHFMKPYFKDKVTGVGPPANEDTREKAAQGIKAFEELL
VTKWKNWEKALLRKSVVSDRLQRLLQPKLLKLEYLHQKQSKVSSELERQALEKQGREAEK
EIQDINQLPEEALLGNRLDSHDWEKISNINFEGSRSAEEIRKFWQNSEHPSINKQEWSRE
EEERLQAIAAAHGHLEWQKIAEELGTSRSAFQCLQKFQQHNKALKRKEWTEEEDRMLTQL
VQEMRVGSHIPYRRIVYYMEGRDSMQLIYRWTKSLDPGLKKGYWAPEEDAKLLQAVAKYG
EQDWFKIREEVPGRSDAQCRDRYLRRLHFSLKKGRWNLKEEEQLIELIEKYGVGHWAKIA
SELPHRSGSQCLSKWKIMMGKKQGLRRRRRRARHSVRWSSTSSSGSSSGSSGGSSSSSSS
SSEEDEPEQAQAGEGDRALLSPQYMVPDMDLWVPARQSTSQPWRGGAGAWLGGPAASLSP
PKGSSASQGGSKEASTTAAAPGEETSPVQVPARAHGPVPRSAQASHSADTRPAGAEKQAL
EGGRRLLTVPVETVLRVLRANTAARSCTQKEQLRQPPLPTSSPGVSSGDSVARSHVQWLR
HRATQSGQRRWRHALHRRLLNRRLLLAVTPWVGDVVVPCTQASQRPAVVQTQADGLREQL
QQARLASTPVFTLFTQLFHIDTAGCLEVVRERKALPPRLPQAGARDPPVHLLQASSSAQS
TPGHLFPNVPAQEASKSASHKGSRRLASSRVERTLPQASLLASTGPRPKPKTVSELLQEK
RLQEARAREATRGPVVLPSQLLVSSSVILQPPLPHTPHGRPAPGPTVLNVPLSGPGAPAA
AKPGTSGSWQEAGTSAKDKRLSTMQALPLAPVFSEAEGTAPAASQAPALGPGQISVSCPE
SGLGQSQAPAASRKQGLPEAPPFLPAAPSPTPLPVQPLSLTHIGGPHVATSVPLPVTWVL
TAQGLLPVPVPAVVSLPRPAGTPGPAGLLATLLPPLTETRAAQGPRAPALSSSWQPPANM
NREPEPSCRTDTPAPPTHALSQSPAEADGSVAFVPGEAQVAREIPEPRTSSHADPPEAEP
PWSGRLPAFGGVIPATEPRGTPGSPSGTQEPRGPLGLEKLPLRQPGPEKGALDLEKPPLP
QPGPEKGALDLGLLSQEGEAATQQWLGGQRGVRVPLLGSRLPYQPPALCSLRALSGLLLH
KKALEHKATSLVVGGEAERPAGALQASLGLVRGQLQDNPAYLLLRARFLAAFTLPALLAT
LAPQGVRTTLSVPSRVGSESEDEDLLSELELADRDGQPGCTTATCPIQGAPDSGKCSASS
CLDTSNDPDDLDVLRTRHARHTRKRRRLV
Sequence of entity 8 (d), FASTA
>7ZWC_8 snRNA-activating protein complex subunit 5 (chains d)
MLSRLQELRKEEETLLRLKAALHDQLNRLKVEELALQSMISSRRGDEMLSSHTVPEQSHD
MLVHVDNEASINQTTLELSTKSHVTEEEEEEEEEESDS
Sequence of entity 9 (N), FASTA
>7ZWC_9 Non-template strand (chains N)
AGTAGACACCATCAGTGTACTAGGACCCGAAAATTGAGTTACAGAAGTAACTGGTATACT
CTGGTTTCTCTTCAGATCGCATAAAACCTGGCAGGG
Sequence of entity 10 (T), FASTA
>7ZWC_10 Template strand (chains T)
CCCTGCCAGGTTTTATGCGATCTGAAGAGAAACCAGAGTATACCAGTTACTTCTGTAACT
CAATTTTCGGGTCCTAGTACACTGATGGTGTCTACT
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| ZN | Zinc ion | Zn | 2 |
Primary citation
Structural basis of SNAPc-dependent snRNA transcription initiation by RNA polymerase II. Rengachari, S., Schilbach, S., Kaliyappan, T. et al. Nat Struct Mol Biol (2022) 29:1159-1169. DOI 10.1038/s41594-022-00857-w · PubMed
Other PDB entries of the same protein (UniProt Q00403 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 7NVU 2.5 Å, RNA polymerase II core pre-initiation complex with open promoter DNA
- 1C9B 2.65 Å, Crystal structure of a human tbp core domain-human tfiib core domain complex bound to an…
- 1VOL 2.7 Å, Tfiib (human core domain)/tbp (a.thaliana)/tata element ternary complex
- 7NVS 2.8 Å, RNA polymerase II core pre-initiation complex with closed promoter DNA in proximal…
- 7NVT 2.9 Å, RNA polymerase II core pre-initiation complex with closed promoter DNA in distal position
- 8S52 2.9 Å, RNA polymerase II core initially transcribing complex with an ordered RNA of 10 nt
- 7ZWD 3.0 Å, Structure of SNAPc containing Pol II pre-initiation complex bound to U5 snRNA promoter…
- 7ZX8 3.0 Å, Structure of SNAPc containing Pol II pre-initiation complex bound to U1 snRNA promoter…
- 8S51 3.1 Å, RNA polymerase II core initially transcribing complex with an ordered RNA of 8 nt
- 7EGB 3.3 Å, TFIID-based holo PIC on SCP promoter
- 5WH1 3.39 Å, Apo form of the C-terminal region of human Transcription Factor IIB
- 7ZX7 3.4 Å, Structure of SNAPc containing Pol II pre-initiation complex bound to U1 snRNA promoter…
Browse structure collections
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