2DU5

Crystal structure of Archaeoglobus fulgidus O-phosphoseryl-tRNA synthetase E418N/E420N mutant complexed with tRNAOpal and O-phosphoserine ("opal complex")

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth A]	PRK06253	e2du5A3	A: a+b two layers	X: Alpha-beta plaits	H: O-phosphoseryl-tRNA synthetase C-terminal domain (From Topology)	T: O-phosphoseryl-tRNA synthetase C-terminal domain	F: PRK06253	ECOD (1.6)
B [auth A]	sepS	e2du5A1	A: a+b two layers	X: SSHS domain	H: SSHS domain in O-phosphoseryl-tRNA synthetase (From Topology)	T: SSHS domain in O-phosphoseryl-tRNA synthetase	F: sepS	ECOD (1.6)
B [auth A]	tRNA-synt_2d	e2du5A2	A: a+b three layers	X: Class II aaRS and biotin synthetases (From Topology)	H: Class II aaRS and biotin synthetases (From Topology)	T: Class II aaRS and biotin synthetases	F: tRNA-synt_2d	ECOD (1.6)
C [auth B]	PRK06253	e2du5B2	A: a+b two layers	X: Alpha-beta plaits	H: O-phosphoseryl-tRNA synthetase C-terminal domain (From Topology)	T: O-phosphoseryl-tRNA synthetase C-terminal domain	F: PRK06253	ECOD (1.6)
C [auth B]	tRNA-synt_2d	e2du5B3	A: a+b three layers	X: Class II aaRS and biotin synthetases (From Topology)	H: Class II aaRS and biotin synthetases (From Topology)	T: Class II aaRS and biotin synthetases	F: tRNA-synt_2d	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth A]	3.30.930.10	Alpha Beta	2-Layer Sandwich	BirA Bifunctional Protein	domain 2	CATH (4.3.0)
C [auth B]	6.20.250.20	Special	Other non-globular	Double Stranded RNA Binding Domain		CATH (4.3.0)
C [auth B]	3.30.930.10	Alpha Beta	2-Layer Sandwich	BirA Bifunctional Protein	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A], C [auth B]	PF01409	tRNA synthetases class II core domain (F) (tRNA-synt_2d)	tRNA synthetases class II core domain (F)	Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only phenylalanyl-tRNA synthetases. This is the core catalytic domain.	Domain
B [auth A], C [auth B]	PF18006	O-phosphoseryl-tRNA synthetase C-terminal domain (SepRS_C)	O-phosphoseryl-tRNA synthetase C-terminal domain	The SSHS domain is mainly found in Archaea. The domain makes up part of the anticodon binding domain at the C-terminal of O-phosphoserine--tRNA(Cys) ligase [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D]	tRNA	-	-	-
B [auth A], C [auth B]	O-phosphoseryl-tRNA synthetase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ligase activity, forming carbon-oxygen bonds aminoacyl-tRNA ligase activity phosphoserine-tRNA(Cys) ligase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a tRNA catalytic activity ligase activity RNA binding tRNA binding nucleic acid binding identical protein binding protein binding	amino acid activation tRNA aminoacylation RNA metabolic process primary metabolic process amino acid metabolic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process ncRNA metabolic process metabolic process macromolecule metabolic process organonitrogen compound metabolic process amino acid activation tRNA aminoacylation RNA metabolic process primary metabolic process amino acid metabolic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process ncRNA metabolic process metabolic process macromolecule metabolic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process translation gene expression macromolecule biosynthetic process biosynthetic process organic substance biosynthetic process cellular process protein metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], C [auth B]	IPR006195	Aminoacyl-tRNA synthetase, class II	Domain
B [auth A], C [auth B]	IPR005246	O-phosphoseryl-tRNA(Cys) ligase	Family
B [auth A], C [auth B]	IPR045864	Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)	Homologous Superfamily
B [auth A], C [auth B]	IPR002319	Phenylalanyl-tRNA synthetase	Domain
B [auth A], C [auth B]	IPR041590	O-phosphoserine--tRNA(Cys) ligase, C-terminal domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.