Structure of PDB 4ycw Chain E

Receptor sequence
>4ycwE (length=499) Species: 9606 (Homo sapiens) [Search protein sequence]
DPNQYYKIRSQAIHQLKVNGEDPYPHKFHVDISLTDFIQKYSHLQPGDHL
TDITLKVAGRIHAKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIH
INNKLRRGDIIGVQGNPGKTKKGELSIIPYEITLLSPCLHMLPHLDKETR
YRQRYLDLILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETPMMNIIPG
GAVAKPFITYHNELDMNLYMRIATELYHKMLVVGGIDRVYEIGRVFRNEG
IDLTHNPEFTSCEFYMAYADYHDLMEITEKMVSGMVKHITGSYKVTYHPD
GPEGQAYDVDFTPPFRRINMVEELEKALGMKLPETNLFETEETRKILDDI
CVAKAVECPPPRTTARLLDKLVGEFLEVTCINPTFICDHPQIMSPLAKWH
RSKEGLTERFELFVMKKEICNAYTELNDPMRQRQLFEEQAKAKAAGDDEA
MFIDENFCTALEYGLPPTAGWGMGIDRVAMFLTDSNNIKEVLLFPAMKP
3D structure
PDB4ycw Structural Basis for Specific Inhibition of tRNA Synthetase by ATP Competitive Inhibitor
ChainE
Resolution2.9 Å
3D
structure
Catalytic site residues are labeled in the structure
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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 E418 N421 R477
Enzyme Commision number 2.7.7.-
6.1.1.6: lysine--tRNA ligase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 peptide E V101 D102 S104 K249 V30 D31 S33 K173
BS02 peptide E D259 G262 F263 L264 R314 M342 Y344 A345 D183 G186 F187 L188 R238 M266 Y268 A269
BS03 LYS E G277 E301 E339 Y341 N497 Y499 E501 G546 G201 E225 E263 Y265 N421 Y423 E425 G470
BS04 KRS E H331 N332 F335 G550 R553 H255 N256 F259 G474 R477 BindingDB: IC50=>20000nM
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

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Cellular Component
External links
PDB RCSB:4ycw, PDBe:4ycw, PDBj:4ycw
PDBsum4ycw
PubMed
UniProtQ15046|SYK_HUMAN Lysine--tRNA ligase (Gene Name=KARS1)

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