Structure of PDB 4ycw Chain B Binding Site BS02

Receptor Information

>4ycw Chain B (length=501) Species: 9606 (Homo sapiens)

DPNQYYKIRSQAIHQLKVNGEDPYPHKFHVDISLTDFIQKYSHLQPGDHL
TDITLKVAGRIHAKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIH
INNKLRRGDIIGVQGNPGKTKKGELSIIPYEITLLSPCLHMLPHLLKDKE
TRYRQRYLDLILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNII
PGGAVAKPFITYHNELDMNLYMRIATELYHKMLVVGGIDRVYEIGRVFRN
EGIDLTHNPEFTSCEFYMAYADYHDLMEITEKMVSGMVKHITGSYKVTYH
PDGPEGQAYDVDFTPPFRRINMVEELEKALGMKLPETNLFETEETRKILD
DICVAKAVECPPPRTTARLLDKLVGEFLEVTCINPTFICDHPQIMSPLAK
WHRSKEGLTERFELFVMKKEICNAYTELNDPMRQRQLFEEQAKAKAAGDD
EAMFIDENFCTALEYGLPPTAGWGMGIDRVAMFLTDSNNIKEVLLFPAMK
P

Ligand information

>4ycw Chain D (length=9) Species: 9606 (Homo sapiens)

PMYQVKPYH

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4ycw Structural Basis for Specific Inhibition of tRNA Synthetase by ATP Competitive Inhibitor
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): V101 I245 T252
• Binding residue (residue number reindexed from 1): V30 I171 T178

Enzymatic activity

• Catalytic site (original residue number in PDB): R323 E325 T330 H331 E494 N497 R553
• Catalytic site (residue number reindexed from 1): R249 E251 T256 H257 E420 N423 R479
• Enzyme Commision number: 2.7.7.-
  6.1.1.6: lysine--tRNA ligase.

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003676 nucleic acid binding
• GO:0004812 aminoacyl-tRNA ligase activity
• GO:0004824 lysine-tRNA ligase activity
• GO:0005524 ATP binding

Biological Process

• GO:0006418 tRNA aminoacylation for protein translation
• GO:0006430 lysyl-tRNA aminoacylation

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:4ycw, PDBe:4ycw, PDBj:4ycw
• PDBsum: 4ycw
• UniProt: Q15046|SYK_HUMAN Lysine--tRNA ligase (Gene Name=KARS1)