Structure of PDB 5e6m Chain A Binding Site BS02

Receptor Information
>5e6m Chain A (length=519) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EEVLAPLRLAVRQQGDLVRKLKEDVDKAVAELKARKRVLEAKELALQPKD
DIVDRAKMEDTLKRRFFYDQAFAIYGGVSGLYDFGPVGCALKNNIIQTWR
QHFIQEEQILEIDCTMLTPEPVLKTSGHVDKFADFVSFNLMFKTFIGPGG
NMPGYLRPETAQGIFLNFKRLLEFNQGKLPFAAAQIGNSFRNEISPRSGL
IRVREFTMAEIEHFVDPSEKDHPKFQNVADLHLYLYSAKAQVSGQSARKM
RLGDAVEQGVINNTVLGYFIGRIYLYLTKVGISPDKLRFRQHMENEMACD
CWDAESKTSYGWIEIVGCADRSCYDLSCHARATKVPLVAEKPLKEPKFQK
TLYVEEVVPNVIEPSFGLGRIMYTVFEHTFHVREGDEQRTFFSFPAVVAP
FKCSVLPLSQNQEFMPFVKELSEALTRHGVSHKVDDSSGSIGRRYARTDE
IGVAFGVTIDFDTVNKTPHTATLRDRDSMRQIRAEISELPSIVQDLANGN
ITWADVEARYPLFEGQETG
Ligand information
>5e6m Chain E (length=74) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gcgccgcugguguagugguaucaugcaagauucccauucuugcgacccgg
guucgauucccgggcggcgcacca
<<<<<<<..<<<.........>>><<<<<<.......>>>>>>...<<<<
<.......>>>>>>>>>>>>....
Receptor-Ligand Complex Structure
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PDB5e6m Crystal Structure of the Wild-Type Human GlyRS Bound with tRNA(Gly) in a Productive Conformation
Resolution2.927 Å
Binding residue
(original residue number in PDB)		R67 D72 R76 Q82 G88 G89 S91 F144 L226 P244 R277 S281 R283 R288 Q547 R548 L567 S568 N570 S599 G601 R602 Y604 A605 R606 E609 T617 D619 F620 T631 R633 Q640 F672 Q675
Binding residue
(residue number reindexed from 1)		R55 D60 R64 Q70 G76 G77 S79 F132 L140 P158 R191 S195 R197 R202 Q388 R389 L408 S409 N411 S440 G442 R443 Y445 A446 R447 E450 T458 D460 F461 T472 R474 Q481 F513 Q516
Enzymatic activity
Enzyme Commision number 2.7.7.-
6.1.1.14: glycine--tRNA ligase.
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0004081 bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity
GO:0004812 aminoacyl-tRNA ligase activity
GO:0004820 glycine-tRNA ligase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016740 transferase activity
GO:0016787 hydrolase activity
GO:0042802 identical protein binding
GO:0046983 protein dimerization activity
GO:0141192 ATP:ATP adenylyltransferase activity
Biological Process
GO:0006412 translation
GO:0006418 tRNA aminoacylation for protein translation
GO:0006426 glycyl-tRNA aminoacylation
GO:0015966 diadenosine tetraphosphate biosynthetic process
GO:0070150 mitochondrial glycyl-tRNA aminoacylation
Cellular Component
GO:0005576 extracellular region
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005759 mitochondrial matrix
GO:0005829 cytosol
GO:0030141 secretory granule
GO:0030424 axon
GO:0042995 cell projection
GO:0070062 extracellular exosome

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5e6m, PDBe:5e6m, PDBj:5e6m
PDBsum5e6m
PubMed27261259
UniProtP41250|GARS_HUMAN Glycine--tRNA ligase (Gene Name=GARS1)

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