Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Ad1a79a1 Alpha and beta proteins (a/b) Restriction endonuclease-like tRNA-intron endonuclease catalytic domain-like tRNA-intron endonuclease catalytic domain-like Tetrameric tRNA splicing endonuclease, C-terminal domain (Methanocaldococcus jannaschii ) [TaxId: 2190 ], SCOPe (2.08)
Ad1a79a2 Alpha and beta proteins (a+b) MutS N-terminal domain-like tRNA-intron endonuclease N-terminal domain-like tRNA-intron endonuclease N-terminal domain-like Tetrameric tRNA splicing endonuclease, N-terminal domain (Methanocaldococcus jannaschii ) [TaxId: 2190 ], SCOPe (2.08)
Bd1a79b1 Alpha and beta proteins (a/b) Restriction endonuclease-like tRNA-intron endonuclease catalytic domain-like tRNA-intron endonuclease catalytic domain-like Tetrameric tRNA splicing endonuclease, C-terminal domain (Methanocaldococcus jannaschii ) [TaxId: 2190 ], SCOPe (2.08)
Bd1a79b2 Alpha and beta proteins (a+b) MutS N-terminal domain-like tRNA-intron endonuclease N-terminal domain-like tRNA-intron endonuclease N-terminal domain-like Tetrameric tRNA splicing endonuclease, N-terminal domain (Methanocaldococcus jannaschii ) [TaxId: 2190 ], SCOPe (2.08)
Cd1a79c1 Alpha and beta proteins (a/b) Restriction endonuclease-like tRNA-intron endonuclease catalytic domain-like tRNA-intron endonuclease catalytic domain-like Tetrameric tRNA splicing endonuclease, C-terminal domain (Methanocaldococcus jannaschii ) [TaxId: 2190 ], SCOPe (2.08)
Cd1a79c2 Alpha and beta proteins (a+b) MutS N-terminal domain-like tRNA-intron endonuclease N-terminal domain-like tRNA-intron endonuclease N-terminal domain-like Tetrameric tRNA splicing endonuclease, N-terminal domain (Methanocaldococcus jannaschii ) [TaxId: 2190 ], SCOPe (2.08)
Dd1a79d1 Alpha and beta proteins (a/b) Restriction endonuclease-like tRNA-intron endonuclease catalytic domain-like tRNA-intron endonuclease catalytic domain-like Tetrameric tRNA splicing endonuclease, C-terminal domain (Methanocaldococcus jannaschii ) [TaxId: 2190 ], SCOPe (2.08)
Dd1a79d2 Alpha and beta proteins (a+b) MutS N-terminal domain-like tRNA-intron endonuclease N-terminal domain-like tRNA-intron endonuclease N-terminal domain-like Tetrameric tRNA splicing endonuclease, N-terminal domain (Methanocaldococcus jannaschii ) [TaxId: 2190 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2 FamilytRNA-intron endonuclease N-terminal domain-like8023538 4001488 SCOP2 (2022-06-29)
ASCOP2 FamilySen15-like8032073 4000499 SCOP2 (2022-06-29)
ASCOP2 SuperfamilytRNA-intron endonuclease N-terminal domain-like8035918 3001683 SCOP2 (2022-06-29)
ASCOP2 SuperfamilytRNA-intron endonuclease catalytic domain-like8044451 3000437 SCOP2 (2022-06-29)
BSCOP2B SuperfamilytRNA-intron endonuclease catalytic domain-like8044451 3000437 SCOP2B (2022-06-29)
BSCOP2B SuperfamilytRNA-intron endonuclease N-terminal domain-like8035918 3001683 SCOP2B (2022-06-29)
CSCOP2B SuperfamilytRNA-intron endonuclease N-terminal domain-like8035918 3001683 SCOP2B (2022-06-29)
CSCOP2B SuperfamilytRNA-intron endonuclease catalytic domain-like8044451 3000437 SCOP2B (2022-06-29)
DSCOP2B SuperfamilytRNA-intron endonuclease N-terminal domain-like8035918 3001683 SCOP2B (2022-06-29)
DSCOP2B SuperfamilytRNA-intron endonuclease catalytic domain-like8044451 3000437 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APF02778e1a79A1 A: a+b two layersX: Homing endonucleases-likeH: tRNA-intron endonuclease N-terminal domain-like (From Topology)T: tRNA-intron endonuclease N-terminal domain-likeF: PF02778ECOD (1.6)
APF01974e1a79A2 A: a/b three-layered sandwichesX: Restriction endonuclease-likeH: tRNA-intron endonuclease catalytic domain-like (From Topology)T: tRNA-intron endonuclease catalytic domain-likeF: PF01974ECOD (1.6)
BPF02778e1a79B1 A: a+b two layersX: Homing endonucleases-likeH: tRNA-intron endonuclease N-terminal domain-like (From Topology)T: tRNA-intron endonuclease N-terminal domain-likeF: PF02778ECOD (1.6)
BPF01974e1a79B2 A: a/b three-layered sandwichesX: Restriction endonuclease-likeH: tRNA-intron endonuclease catalytic domain-like (From Topology)T: tRNA-intron endonuclease catalytic domain-likeF: PF01974ECOD (1.6)
CPF02778e1a79C1 A: a+b two layersX: Homing endonucleases-likeH: tRNA-intron endonuclease N-terminal domain-like (From Topology)T: tRNA-intron endonuclease N-terminal domain-likeF: PF02778ECOD (1.6)
CPF01974e1a79C2 A: a/b three-layered sandwichesX: Restriction endonuclease-likeH: tRNA-intron endonuclease catalytic domain-like (From Topology)T: tRNA-intron endonuclease catalytic domain-likeF: PF01974ECOD (1.6)
DPF02778e1a79D1 A: a+b two layersX: Homing endonucleases-likeH: tRNA-intron endonuclease N-terminal domain-like (From Topology)T: tRNA-intron endonuclease N-terminal domain-likeF: PF02778ECOD (1.6)
DPF01974e1a79D2 A: a/b three-layered sandwichesX: Restriction endonuclease-likeH: tRNA-intron endonuclease catalytic domain-like (From Topology)T: tRNA-intron endonuclease catalytic domain-likeF: PF01974ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D
PF02778tRNA intron endonuclease, N-terminal domain (tRNA_int_endo_N)tRNA intron endonuclease, N-terminal domainMembers of this family cleave pre tRNA at the 5' and 3' splice sites to release the intron EC:3.1.27.9.Domain
A, B, C, D
PF01974tRNA intron endonuclease, catalytic C-terminal domain (tRNA_int_endo)tRNA intron endonuclease, catalytic C-terminal domainMembers of this family cleave pre tRNA at the 5' and 3' splice sites to release the intron EC:3.1.27.9.Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D
TRNA ENDONUCLEASE -

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

ChainsEnzyme NameDescriptionCatalytic Residues
tRNA-intron lyase  M-CSA #565

RNA endonuclease from the archaea Methanocaldococcus jannaschii is able to catalyse the splicing of introns from tRNA, a process needed only in archaea and eukarya, bacterial tRNA introns being self-splicing. The enzyme thus is a homologue of the eukaryotic enzymes which perform, a fact that serves to reinforce the closer relationship proposed between archaea and eukarya. There are differences however in the exact orientation of residues at the active site and the substrate recognition by the enzymes, suggesting that the enzymes evolved from a common ancestor with slightly different function.

Defined by 3 residues: TYR:A-107 [auth A-115]HIS:A-117 [auth A-125]LYS:A-148 [auth A-156]
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