Macromolecule Annotations for the Entities in PDB 1NYR

Domain Annotation: SCOP Classification SCOP Database (version: 1.75) Homepage

Chains Domain Info Class Fold Superfamily Family Domain Species
A533-645 d1nyra1 Alpha and beta proteins (a/b) Anticodon-binding domain-like Class II aaRS ABD-related Anticodon-binding domain of Class II aaRS Threonyl-tRNA synthetase (ThrRS), C-terminal domain Staphylococcus aureus [TaxId: 1280]
A4-62 d1nyra2 Alpha and beta proteins (a+b) beta-Grasp (ubiquitin-like) TGS-like TGS domain Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain Staphylococcus aureus [TaxId: 1280]
A63-241 d1nyra3 Alpha and beta proteins (a+b) RRF/tRNA synthetase additional domain-like ThrRS/AlaRS common domain Threonyl-tRNA synthetase (ThrRS), second 'additional' domain Threonyl-tRNA synthetase (ThrRS), second 'additional' domain Staphylococcus aureus [TaxId: 1280]
A242-532 d1nyra4 Alpha and beta proteins (a+b) Class II aaRS and biotin synthetases Class II aaRS and biotin synthetases Class II aminoacyl-tRNA synthetase (aaRS)- like, catalytic domain Threonyl-tRNA synthetase (ThrRS) Staphylococcus aureus [TaxId: 1280]
B533-645 d1nyrb1 Alpha and beta proteins (a/b) Anticodon-binding domain-like Class II aaRS ABD-related Anticodon-binding domain of Class II aaRS Threonyl-tRNA synthetase (ThrRS), C-terminal domain Staphylococcus aureus [TaxId: 1280]
B1-62 d1nyrb2 Alpha and beta proteins (a+b) beta-Grasp (ubiquitin-like) TGS-like TGS domain Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain Staphylococcus aureus [TaxId: 1280]
B63-241 d1nyrb3 Alpha and beta proteins (a+b) RRF/tRNA synthetase additional domain-like ThrRS/AlaRS common domain Threonyl-tRNA synthetase (ThrRS), second 'additional' domain Threonyl-tRNA synthetase (ThrRS), second 'additional' domain Staphylococcus aureus [TaxId: 1280]
B242-532 d1nyrb4 Alpha and beta proteins (a+b) Class II aaRS and biotin synthetases Class II aaRS and biotin synthetases Class II aminoacyl-tRNA synthetase (aaRS)- like, catalytic domain Threonyl-tRNA synthetase (ThrRS) Staphylococcus aureus [TaxId: 1280]

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
A PF00587 tRNA-synt_2b tRNA synthetase class II core domain (G, H, P, S and T) Domain Other tRNA synthetase sub-families are too dissimilar to be included. This domain is the core catalytic domain of tRNA synthetases and includes glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. PFAM PF00587
A PF02824 TGS TGS domain Family
A PF03129 HGTP_anticodon Anticodon binding domain Domain This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [1] it is probably the anticodon binding domain [2]. PFAM PF03129
A PF07973 tRNA_SAD Threonyl and Alanyl tRNA synthetase second additional domain Domain The catalytically active from of threonyl/alanyl tRNA synthetase is a dimer. Within the tRNA synthetase class II dimer, the bound tRNA interacts with both monomers making specific interactions with the catalytic domain, the C-terminal domain, and this domain (the second additional domain). The second additional domain is comprised of a pair of perpendicularly orientated antiparallel beta sheets, of four and three strands, respectively, that surround a central alpha helix that forms the core of the domain [1]. PFAM PF07973

Protein Modification Annotation

Type PDB Residue Nr. Description