PDBsum entry 9dpb

Translation

PDB id: 9dpb

Contents

Protein chains

506 a.a.

DNA/RNA

Ligands

LYS ×2

APC ×2

Metals

_MG ×4

_NA

PDB id:

9dpb

Name:

Translation

Title:

Human lysrs bound to unmodified tRNA-lys3 (undocked state, ampcpp bound)

Structure:

Lysine--tRNA ligase. Chain: a, b. Fragment: human krs. Synonym: lysyl-tRNA synthetase,lysrs. Engineered: yes. tRNA-lys3 (unmodified). Chain: c. Engineered: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: kars, kiaa0070. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Organism_taxid: 9606

Authors:

S.C.Devarkar,Y.Xiong

Key ref:

S.C.Devarkar et al. (2025). Structural basis for aminoacylation of cellular modif trnalys3 by human lysyl-Trna synthetase.. Nucleic acids res, 53, . PubMed id: 40036503

Date:

20-Sep-24 Release date: 12-Mar-25

Protein chains

Q15046  (SYK_HUMAN) -  Lysine--tRNA ligase from Homo sapiens

Seq: 597 a.a.

Struc: 506 a.a.

DNA/RNA chain

G-C-C-C-G-G-A-U-A-G-C-U-C-A-G-U-C-G-G-U-A-G-A-G-C-A-U-C-A-G-A-C-U-U-U-U-A-A-U- 73 bases

Enzyme reactions

• Enzyme class 2: E.C.2.7.7.- - ?????
• Enzyme class 3: E.C.6.1.1.6 - lysine--tRNA ligase.
• Reaction: tRNA(Lys) + L-lysine + ATP = L-lysyl-tRNA(Lys) + AMP + diphosphate

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site