2P8R

Crystal structure of the C-terminal domain of C. elegans pre-mRNA splicing factor Prp8 carrying R2303K mutant

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2p8ra_	Alpha and beta proteins (a/b)	Cytidine deaminase-like	JAB1/MPN domain	JAB1/MPN domain	Splicing factor Prp8 C-terminal domain	(Caenorhabditis elegans ) [TaxId: 6239 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Prp8 Jab1/MPN domain-like	8050375	4006861	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	JAB1/MPN domain-like	8053278	3001105	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF01398,PF08084	e2p8rA1	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: PF01398,PF08084	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.140.10	Alpha Beta	3-Layer(aba) Sandwich	Cytidine Deaminase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01398	JAB1/Mov34/MPN/PAD-1 ubiquitin protease (JAB)	JAB1/Mov34/MPN/PAD-1 ubiquitin protease	-	Family
A	PF08084	PROCT (NUC072) domain (PROCT)	PROCT (NUC072) domain	The PROCT domain is the C-terminal domain in pre-mRNA splicing factors of PRO8 family [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Pre-mRNA-splicing factor Prp8	peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity RNA binding snRNA binding binding organic cyclic compound binding nucleic acid binding U1 snRNA binding U6 snRNA binding U5 snRNA binding U2 snRNA binding peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity RNA binding snRNA binding binding organic cyclic compound binding nucleic acid binding U1 snRNA binding U6 snRNA binding U5 snRNA binding U2 snRNA binding pre-mRNA binding pre-mRNA intronic binding	ribonucleoprotein complex biogenesis cellular biosynthetic process RNA metabolic process mRNA processing spliceosomal tri-snRNP complex assembly protein-RNA complex assembly cellular component organization cellular component biogenesis nucleobase-containing compound metabolic process protein-RNA complex organization cellular component assembly organic substance metabolic process protein-containing complex assembly organic substance biosynthetic process ribonucleoprotein complex biogenesis cellular biosynthetic process RNA metabolic process mRNA processing spliceosomal tri-snRNP complex assembly protein-RNA complex assembly cellular component organization cellular component biogenesis nucleobase-containing compound metabolic process protein-RNA complex organization cellular component assembly organic substance metabolic process protein-containing complex assembly organic substance biosynthetic process cellular component organization or biogenesis RNA processing RNA splicing protein-containing complex organization spliceosomal snRNP assembly cellular metabolic process primary metabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process RNA splicing, via transesterification reactions mRNA splicing, via spliceosome cellular process metabolic process RNA splicing, via transesterification reactions with bulged adenosine as nucleophile macromolecule metabolic process	membrane-bounded organelle catalytic step 2 spliceosome protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle spliceosomal complex organelle ribonucleoprotein complex U5 snRNP membrane-bounded organelle catalytic step 2 spliceosome protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle spliceosomal complex organelle ribonucleoprotein complex U5 snRNP spliceosomal snRNP complex Sm-like protein family complex small nuclear ribonucleoprotein complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR043173	Prp8 RNase domain IV, fingers region	Homologous Superfamily
A	IPR012984	PROCT domain	Domain
A	IPR012591	PRO8NT domain	Domain
A	IPR021983	PRP8 domain IV core	Domain
A	IPR019580	Pre-mRNA-processing-splicing factor 8, U6-snRNA-binding	Domain
A	IPR019581	Pre-mRNA-processing-splicing factor 8, U5-snRNA-binding	Domain
A	IPR027652	Pre-mRNA-processing-splicing factor 8	Family
A	IPR037518	MPN domain	Domain
A	IPR019582	RNA recognition motif, spliceosomal PrP8	Domain
A	IPR043172	Prp8 RNase domain IV, palm region	Homologous Superfamily
A	IPR012592	PROCN domain	Domain
A	IPR042516	Pre-mRNA-processing-splicing factor 8, U5-snRNA-binding domain superfamily	Homologous Superfamily
A	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A	IPR000555	JAB1/MPN/MOV34 metalloenzyme domain	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.