2CWW | pdb_00002cww

Crystal structure of Thermus thermophilus TTHA1280, a putative SAM-dependent RNA methyltransferase, in complex with S-adenosyl-L-homocysteine

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)
B	d2cwwb1	All beta proteins	PUA domain-like	PUA domain-like	Hypothetical RNA methyltransferase domain (HRMD)	Hypothetical protein TTHA1280, N-terminal domain	(Thermus thermophilus HB8 ) [TaxId: 300852 ],	SCOPe (2.08)
B	d2cwwb2	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	hypothetical RNA methyltransferase	Hypothetical protein TTHA1280, middle and C-terminal domains	(Thermus thermophilus HB8 ) [TaxId: 300852 ],	SCOPe (2.08)
A	d2cwwa1	All beta proteins	PUA domain-like	PUA domain-like	Hypothetical RNA methyltransferase domain (HRMD)	Hypothetical protein TTHA1280, N-terminal domain	(Thermus thermophilus HB8 ) [TaxId: 300852 ],	SCOPe (2.08)
A	d2cwwa2	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	hypothetical RNA methyltransferase	Hypothetical protein TTHA1280, middle and C-terminal domains	(Thermus thermophilus HB8 ) [TaxId: 300852 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8033383	3000118	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PUA domain-like	8033381	3001015	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PUA domain-like	8033381	3001015	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8033383	3000118	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)
B	Peptidase_S46, Trypsin_2	e2cwwB1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)
B	Methyltrans_SAM, Methyltransf_25	e2cwwB2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Methyltrans_SAM, Methyltransf_25	ECOD (v294.1)
A	Peptidase_S46, Trypsin_2	e2cwwA1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: LigT-related	T: LigT-related	F: Peptidase_S46, Trypsin_2	ECOD (v294.1)
A	CoA_trans	e2cwwA2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: CoA_trans	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.30.130.10	Mainly Beta	Roll	Archaeosine Trna-guanine Transglycosylase	Chain: A, domain 4	CATH (4.3.0)
B	3.30.750.80	Alpha Beta	2-Layer Sandwich	Transcription Regulator spoIIAA	RNA methyltransferase domain (HRMD) like	CATH (4.3.0)
B	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
A	2.30.130.10	Mainly Beta	Roll	Archaeosine Trna-guanine Transglycosylase	Chain: A, domain 4	CATH (4.3.0)
A	3.30.750.80	Alpha Beta	2-Layer Sandwich	Transcription Regulator spoIIAA	RNA methyltransferase domain (HRMD) like	CATH (4.3.0)
A	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF10672	S-adenosylmethionine-dependent methyltransferase (Methyltrans_SAM)	S-adenosylmethionine-dependent methyltransferase	-	Family
A, B	PF17785	PUA-like domain (PUA_3)	PUA-like domain	This PUA-like domain is found at the N-terminus of SAM-dependent methyltransferases [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	putative SAM-dependent RNA methyltransferase	transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity RNA binding binding nucleic acid binding	methylation metabolic process cellular process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR015947	PUA-like superfamily	Homologous Superfamily
A, B	IPR019614	S-adenosylmethionine-dependent methyltransferase	Domain
A, B	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B	IPR036974	PUA domain superfamily	Homologous Superfamily
A, B	IPR041532	RlmI-like, PUA 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.