Structure of PDB 2byt Chain D Binding Site BS03

Receptor Information
>2byt Chain D (length=876) Species: 274 (Thermus thermophilus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MEKYNPHAIEAKWQRFWEEKGFMKAKDLPGGRGKQYVLVMFPYPSGDLHM
GHLKNYTMGDVLARFRRMQGYEVLHPMGWDAFGLPAENAALKFGVHPKDW
TYANIRQAKESLRLMGILYDWDREVTTCEPEYYRWNQWIFLKMWEKGLAY
RAKGLVNWCPKCQTVLANEQVVEGRCWRHEDTPVEKRELEQWYLRITAYA
ERLLKDLEGLNWPEKVKAMQRAWIGRSEGAEILFPVEGKEVRIPVFTTRP
DTLFGATFLVLAPEHPLTLELAAPEKREEVLAYVEAAKRKTEIERQAEGR
EKTGVFLGAYALNPATGERIPIWTADYVLFGYGTGAIMAVPAHDQRDYEF
ARKFGLPIKKVIERPGEPLPEPLERAYEEPGIMVNSGPFDGTESEEGKRK
VIAWLEEKGLGKGRVTYRLRDWLISRQRYWGTPIPMVHCEACGVVPVPEE
ELPVLLPDLKDVEDIRPKGKSPLEAHPEFYETTCPKCGGPAKRDTDTMDT
FFDSSWYYLRYTDPHNDRLPFDPEKANAWMPVDQYIGGVEHAVLHLLYSR
FFTKFLHDLGMVKVEEPFQGLFTQGMVLAWTDFGPVEVEGSVVRLPEPTR
IRLEIPESALSLEDVRKMGAELRPHEDGTLHLWKPAVMSKSKGNGVMVGP
FVKEQGADIARITILFAAPPENEMVWTEEGVQGAWRFLNRIYRRVAEDRE
ALLETSGVFQAEALEGKDRELYGKLHETLKKVTEDLEALRFNTAIAALME
FLNALYEYRKDRPVTPVYRTAIRYYLQMLFPFAPHLAEELWHWFWPDSLF
EAGWPELDEKALEKDVVEVAVQVNGRVRGTIHIPKDAPLEVARAEALKVR
NVRAHLEGKEVVKEIYVPGKILNLVV
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain2byt Chain D Residue 1602 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB2byt The Crystal Structure of Leucyl-tRNA Synthetase Complexed with tRNA(Leu) in the Post-Transfer-Editing Conformation.
Resolution3.3 Å
Binding residue
(original residue number in PDB)		C439 C442 C484 C487
Binding residue
(residue number reindexed from 1)		C439 C442 C484 C487
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) F501 H541 F551 V637 K640
Catalytic site (residue number reindexed from 1) F501 H541 F551 V637 K640
Enzyme Commision number 6.1.1.4: leucine--tRNA ligase.
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0002161 aminoacyl-tRNA editing activity
GO:0004812 aminoacyl-tRNA ligase activity
GO:0004823 leucine-tRNA ligase activity
GO:0005524 ATP binding
GO:0046872 metal ion binding
Biological Process
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0006429 leucyl-tRNA aminoacylation
GO:0106074 aminoacyl-tRNA metabolism involved in translational fidelity
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

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Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:2byt, PDBe:2byt, PDBj:2byt
PDBsum2byt
PubMed16155583
UniProtQ7SIE4

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