Structure of PDB 4ycw Chain F Binding Site BS01

Receptor Information

>4ycw Chain F (length=498) Species: 9606 (Homo sapiens)

DPNQYYKIRSQAIHQLKVNGEDPYPHKFHVDISLTDFIQKYSHLQPGDHL
TDITLKVAGRIHAKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIH
INNKLRRGDIIGVQGNPGKTKKGELSIIPYEITLLSPCLHMLPHLDKETR
YRQRYLDLILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPG
GAVAKPFITYHNELDMNLYMRIATELYHKMLVVGGIDRVYEIGRVFRNEG
IDLTHNPEFTSCEFYMAYADYHDLMEITEKMVSGMVKHITGSYKVTYHPD
GPEGQAYDVDFTPPFRRINMVEELEKALGMKLPETNLFETEETRKILDDI
CVAKAECPPPRTTARLLDKLVGEFLEVTCINPTFICDHPQIMSPLAKWHR
SKEGLTERFELFVMKKEICNAYTELNDPMRQRQLFEEQAKAKAAGDDEAM
FIDENFCTALEYGLPPTAGWGMGIDRVAMFLTDSNNIKEVLLFPAMKP

Ligand information

>4ycw Chain G (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): G262 F263 L264 R314 A345 D349
• Binding residue (residue number reindexed from 1): G186 F187 L188 R238 A269 D273

Enzymatic activity

• Catalytic site (original residue number in PDB): R323 E325 T330 H331 E494 N497 R553
• Catalytic site (residue number reindexed from 1): R247 E249 T254 H255 E417 N420 R476
• 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)