7EWM: Native crystal structure of S. cerevisiae Csn12

Native crystal structure of S. cerevisiae Csn12 in complex with Thp3 and Sem1. Determined by X-ray diffraction at 2.9 Å resolution. Released 7 Sept 2022.

Method
X-ray diffraction
Resolution
2.9 Å
Organism
Saccharomyces cerevisiae S288C
Chains
3
Atoms
6,110
Mol. weight
93.91 kDa
Released
7 Sept 2022

Explore 7EWM in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7EWM contains 43 α-helices and 13 β-strands across 3 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: 16 helices, 4 β-strands

ElementResiduesLengthSheet
α-helix213-2142
α-helix215-23117
α-helix236-25217
α-helix258-27316
α-helix277-29115
α-helix301-31414
α-helix318-33013
α-helix334-3374
α-helix340-35314
α-helix357-3626
α-helix369-3757
α-helix379-39315
β-strand39411
β-strand397-39822
α-helix399-4057
α-helix411-4199
α-helix424-4263
β-strand427-43262
β-strand440-44562
α-helix447-45711
Chain B: 24 helices, 7 β-strands
ElementResiduesLengthSheet
α-helix7-104
α-helix16-227
α-helix27-282
α-helix44-6825
α-helix76-9722
α-helix102-1043
α-helix105-12016
α-helix130-14516
α-helix156-1594
α-helix160-17314
α-helix177-19216
α-helix199-2013
α-helix203-2064
α-helix209-22012
α-helix221-2255
α-helix229-24113
β-strand24413
β-strand24714
β-strand25414
α-helix257-27418
β-strand278-27925
α-helix284-2907
α-helix294-30916
α-helix312-32110
α-helix323-3286
α-helix332-35221
β-strand360-36231
α-helix363-3653
α-helix380-39617
β-strand402-40541
β-strand410-41341
Chain C: 3 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix45-473
β-strand4813
α-helix57-582
β-strand60-6125
α-helix72-8716

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Protein THP3Aprotein289Saccharomyces cerevisiae S288CQ12049 (AlphaFold model)
Cop9 signalosome complex subunit 12Bprotein423Saccharomyces cerevisiae S288CP47130 (AlphaFold model)
26S proteasome complex subunit SEM1Cprotein89Saccharomyces cerevisiae S288CO94742 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>7EWM_1 Protein THP3 (chains A)
GSHMKIHVVGRCQTLEKSYLRLTSEPNPDLIRPPNILQKMYCLLMDKYQSKTATYTYLCD
QFKSMRQDLRVQMIENSFTIKVYQTHARIALENGDLGEFNQCQNRIMALFENPTIPKKSY
SEFICYSVLYSMLTEDYPSISHLKLKLIDDGSSEILEDEHVKMIFELSDMKLVGNYHYFM
KNYLKLHKFEKCLINSFLNLEKLIFLTIICKSYNQVNLDFVKSEFNFNSIEETTNFLNEQ
NLTEFILNKQITDSNGKSSNIKILNTKGCRVQLIQNYMKSKKIDIKGQK
Sequence of entity 2 (B), FASTA
>7EWM_2 Cop9 signalosome complex subunit 12 (chains B)
MDVDIGCYFEEKRYDDKLLDFIRYDVKTPKKTKYILQRPTATDEESVRLQRFYQLGVDLK
LKYSKRRSLKKQGRIKNATEELLRLANEQLKLFNRIVERETNWIIYPLWVMAKQLIRLAN
ESSELNKDSIEECGRTIHRSFTICLNDRNPRLNENKKIGCYMFANLEFSIYHRLSNKDMI
KNLVKVLESRVNARDIPPLNKSLAMEHKSQVVLYNYYLGQYYGCLENDHERGFFHLNEAL
LQCPMLYVESTGKFVLQGQMEKIMILLVPLALLTKRLYPHWDHPVIAGVITRSKRLSQVY
PTLVRSVISGNLSLYEATAASHERFFLSQGLHVVITLLREVVFTRLVQRCWQWGNDRKSI
MPLKILLATKQHDSSANEDEEEQLDALECRLASAIASGLLRAYLSHSNRCIVFSKKEPFP
HSK
Sequence of entity 3 (C), FASTA
>7EWM_3 26S proteasome complex subunit SEM1 (chains C)
MSTDVAAAQAQSKIDLTKKKNEEINKKSLEEDDEFEDFPIDTWANGETIKSNAVTQTNIW
EENWDDVEVDDDFTNELKAELDRYKRENQ

Primary citation

Structural assembly of the nucleic-acid-binding Thp3-Csn12-Sem1 complex functioning in mRNA splicing. Kuang, Z., Ke, J., Hong, J. et al. Nucleic Acids Res (2022) 50:8882-8897. DOI 10.1093/nar/gkac634 · PubMed

Other PDB entries of the same protein (UniProt Q12049 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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