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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

9ZE0

Cryo-EM structure of the endogenous U2/branchpoint spliceosomal complex (Proximal DHX15 state)

This is a non-PDB format compatible entry.
Functional Information from PROSITE/UniProt
site_idPS00290
Number of Residues7
DetailsIG_MHC Immunoglobulins and major histocompatibility complex proteins signature. FVCSATH
ChainResidueDetails
B3PHE287-HIS293
site_idPS00690
Number of Residues10
DetailsDEAH_ATP_HELICASE DEAH-box subfamily ATP-dependent helicases signature. GvIILDEAHE
ChainResidueDetails
BGLY255-GLU264
site_idPS01358
Number of Residues20
DetailsZF_RANBP2_1 Zinc finger RanBP2-type signature. WlCnk..CclnNfrkrlkCfrC
ChainResidueDetails
ATRP185-CYS204
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues166
DetailsDomain: {"description":"Helicase ATP-binding","evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues180
DetailsDomain: {"description":"Helicase C-terminal","evidences":[{"source":"PROSITE-ProRule","id":"PRU00542","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues3
DetailsMotif: {"description":"DEAH box"}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues7
DetailsBinding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues6
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues5
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues77
DetailsRegion: {"description":"Interaction with SF3B1 and SF3B3","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues3
DetailsRegion: {"description":"Interaction with SF3B3","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues12
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"28541300","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5IFE","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5SYB","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues4
DetailsSite: {"description":"Interaction with SF3B3","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues7
DetailsSite: {"description":"Interaction with RNA","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues1
DetailsModified residue: {"description":"N-acetylalanine","evidences":[{"source":"UniProtKB","id":"P83870","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues5
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues145
DetailsDomain: {"description":"CID","evidences":[{"source":"PROSITE-ProRule","id":"PRU00724","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI15
Number of Residues46
DetailsDomain: {"description":"G-patch","evidences":[{"source":"PROSITE-ProRule","id":"PRU00092","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI16
Number of Residues30
DetailsZinc finger: {"description":"C2H2-type; atypical","evidences":[{"source":"PROSITE-ProRule","id":"PRU00042","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI17
Number of Residues39
DetailsRepeat: {"description":"HEAT 1"}
ChainResidueDetails
site_idSWS_FT_FI18
Number of Residues34
DetailsRepeat: {"description":"HEAT 2"}
ChainResidueDetails
site_idSWS_FT_FI19
Number of Residues37
DetailsRepeat: {"description":"HEAT 3"}
ChainResidueDetails
site_idSWS_FT_FI20
Number of Residues34
DetailsRepeat: {"description":"HEAT 4"}
ChainResidueDetails
site_idSWS_FT_FI21
Number of Residues38
DetailsRepeat: {"description":"HEAT 5"}
ChainResidueDetails
site_idSWS_FT_FI22
Number of Residues38
DetailsRepeat: {"description":"HEAT 6"}
ChainResidueDetails
site_idSWS_FT_FI23
Number of Residues38
DetailsRepeat: {"description":"HEAT 7"}
ChainResidueDetails
site_idSWS_FT_FI24
Number of Residues38
DetailsRepeat: {"description":"HEAT 8"}
ChainResidueDetails
site_idSWS_FT_FI25
Number of Residues38
DetailsRepeat: {"description":"HEAT 9"}
ChainResidueDetails
site_idSWS_FT_FI26
Number of Residues38
DetailsRepeat: {"description":"HEAT 10"}
ChainResidueDetails
site_idSWS_FT_FI27
Number of Residues38
DetailsRepeat: {"description":"HEAT 11"}
ChainResidueDetails
site_idSWS_FT_FI28
Number of Residues39
DetailsRegion: {"description":"Interaction with SF3B14"}
ChainResidueDetails
site_idSWS_FT_FI29
Number of Residues4
DetailsRegion: {"description":"Interaction with PHF5A","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI30
Number of Residues56
DetailsRegion: {"description":"Interaction with SF3B3 and SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI31
Number of Residues1
DetailsSite: {"description":"Interaction with PHF5A","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI32
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI33
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI34
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate","evidences":[{"source":"PubMed","id":"25114211","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"25218447","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"25755297","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI35
Number of Residues1
DetailsModified residue: {"description":"Symmetric dimethylarginine; by PRMT9; alternate","evidences":[{"source":"PubMed","id":"25737013","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI36
Number of Residues1
DetailsModified residue: {"description":"Omega-N-methylarginine","evidences":[{"source":"PubMed","id":"24129315","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI37
Number of Residues37
DetailsRegion: {"description":"Interaction with PHF5A, SF3B1 and SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI38
Number of Residues56
DetailsRegion: {"description":"Interaction with SF3B1 and SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI39
Number of Residues21
DetailsRegion: {"description":"Interaction with SF3B1","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI40
Number of Residues23
DetailsRegion: {"description":"Interaction with SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI41
Number of Residues5
DetailsSite: {"description":"Interaction with SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI42
Number of Residues2
DetailsSite: {"description":"Interaction with SF3B1","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI43
Number of Residues2
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI44
Number of Residues79
DetailsDomain: {"description":"RRM 2","evidences":[{"source":"PROSITE-ProRule","id":"PRU00176","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI45
Number of Residues1
DetailsModified residue: {"description":"N-acetylalanine","evidences":[{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"DEC-2008","submissionDatabase":"UniProtKB","authors":["Bienvenut W.V.","Lilla S.","von Kriegsheim A.","Lempens A.","Kolch W."]}},{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"22223895","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"22814378","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI46
Number of Residues1
DetailsModified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"15592455","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI47
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17525332","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI48
Number of Residues75
DetailsDomain: {"description":"RRM","evidences":[{"source":"PROSITE-ProRule","id":"PRU00176","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI49
Number of Residues13
DetailsRegion: {"description":"Interaction with pre-mRNA branch site"}
ChainResidueDetails
site_idSWS_FT_FI50
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine; alternate","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI51
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate","evidences":[{"source":"PubMed","id":"25755297","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI52
Number of Residues42
DetailsRepeat: {"description":"SURP motif 2"}
ChainResidueDetails
site_idSWS_FT_FI53
Number of Residues1
DetailsSite: {"description":"Critical for binding to SF3A3"}
ChainResidueDetails
site_idSWS_FT_FI54
Number of Residues61
DetailsZinc finger: {"description":"Matrin-type","evidences":[{"source":"PROSITE-ProRule","id":"PRU00130","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI55
Number of Residues4
DetailsMotif: {"description":"Nuclear localization signal","evidences":[{"source":"PubMed","id":"21349847","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI56
Number of Residues1
DetailsModified residue: {"description":"N-acetylmethionine","evidences":[{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"OCT-2004","submissionDatabase":"UniProtKB","authors":["Bienvenut W.V."]}},{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"22223895","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"22814378","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

254227

PDB entries from 2026-05-27

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