2YCB

Structure of the archaeal beta-CASP protein with N-terminal KH domains from Methanothermobacter thermautotrophicus

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Prokaryotic type KH domain (KH-domain type II)	8046635	4001200	SCOP2 (2022-06-29)
A	SCOP2 Family	Prokaryotic type KH domain (KH-domain type II)	8103568	4001200	SCOP2 (2022-06-29)
A	SCOP2 Family	beta-CASP RNA-metabolising hydrolases	8103571	4000432	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Prokaryotic type KH domain (KH-domain type II)	8103569	3001043	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Prokaryotic type KH domain (KH-domain type II)	8103570	3001043	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Metallo-hydrolase/oxidoreductase	8103572	3001057	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Prokaryotic type KH domain (KH-domain type II)	8103570	3001043	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Metallo-hydrolase/oxidoreductase	8103572	3001057	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Prokaryotic type KH domain (KH-domain type II)	8103569	3001043	SCOP2B (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	F_UNCLASSIFIED	e2ycbA2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Prokaryotic type KH domain (KH-domain type II)	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF17214	e2ycbA1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Prokaryotic type KH domain (KH-domain type II)	F: PF17214	ECOD (1.6)
A	PF07521,PF16661	e2ycbA4	A: a+b four layers	X: Metallo-hydrolase/oxidoreductase (From Topology)	H: Metallo-hydrolase/oxidoreductase (From Topology)	T: Metallo-hydrolase/oxidoreductase	F: PF07521,PF16661	ECOD (1.6)
A	PF10996	e2ycbA3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF10996	ECOD (1.6)
B	F_UNCLASSIFIED	e2ycbB4	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Prokaryotic type KH domain (KH-domain type II)	F: F_UNCLASSIFIED	ECOD (1.6)
B	PF17214	e2ycbB3	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Prokaryotic type KH domain (KH-domain type II)	F: PF17214	ECOD (1.6)
B	PF07521,PF16661	e2ycbB1	A: a+b four layers	X: Metallo-hydrolase/oxidoreductase (From Topology)	H: Metallo-hydrolase/oxidoreductase (From Topology)	T: Metallo-hydrolase/oxidoreductase	F: PF07521,PF16661	ECOD (1.6)
B	PF10996	e2ycbB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF10996	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.300.230	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
A	3.30.300.20	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
A	3.60.15.10	Alpha Beta	4-Layer Sandwich	Metallo-beta-lactamase	Chain A	CATH (4.3.0)
A	3.40.50.10890	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	3.30.300.230	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
B	3.30.300.20	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
B	3.60.15.10	Alpha Beta	4-Layer Sandwich	Metallo-beta-lactamase	Chain A	CATH (4.3.0)
B	3.40.50.10890	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF07521	Zn-dependent metallo-hydrolase RNA specificity domain (RMMBL)	Zn-dependent metallo-hydrolase RNA specificity domain	-	Motif
A, B	PF16661	Metallo-beta-lactamase superfamily domain (Lactamase_B_6)	Metallo-beta-lactamase superfamily domain	This family is part of the metallo-beta-lactamase superfamily.	Domain
A, B	PF17214	KH domain (KH_7)	KH domain	-	Domain
A, B	PF10996	Beta-Casp domain (Beta-Casp)	Beta-Casp domain	The beta-CASP domain is found C terminal to the beta-lactamase domain in pre-mRNA 3'-end-processing endonuclease. The active site of this enzyme is located at the interface of these two domains [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR	RNA binding binding organic cyclic compound binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding identical protein binding protein binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR004087	K Homology domain	Domain
A, B	IPR015946	K homology domain-like, alpha/beta	Homologous Superfamily
A, B	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain	Domain
A, B	IPR036866	Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	Homologous Superfamily
A, B	IPR033769	KH domain, archaeal	Domain
A, B	IPR019975	Transcription termination factor CPSF1, archaea	Family
A, B	IPR001279	Metallo-beta-lactamase	Domain
A, B	IPR009019	K homology domain superfamily, prokaryotic type	Homologous Superfamily
A, B	IPR022712	Beta-Casp 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.