Structure of PDB 7ap1 Chain A

Receptor sequence

>7ap1A (length=421) Species: 573 (Klebsiella pneumoniae)

MLDPNLLRTEPDAVAEKLARRGFKLDVDKLRALEERRKVLQVQTENLQAE
RNSRSKSIGQAKADIEPLRLEVNKLGEQLDAAKSELETLLAEIRDIALAI
PNIPHDDVPVGRDENDNVEVSRWGTPRQFDFEVRDHVTLGEMHGGLDFAA
AVKLTGSRFVVMKGQLARLHRALAQFMLDLHTEQHGYSENYVPYLVNQDT
LYGTGQLPKFAGDLFHTRPLEEEADSSNYALIPTAEVPLTNLVRDEIIDE
DDLPIKMTAHTPCFRSEDTRGLIRMHQFDKVEMVQIVRPEDSMAALEEMT
GHAEKVLQLLGLPYRKVALCTGDMGFSACKTYDLEVWVPAQNTYREISSC
SNVWDFQARRMQARCRSKSDKKTRLVHTLNGSGLAVGRTLVALMENYQQA
DGRIEIPEVLRPYMRGLEYIG

3D structure

• PDB: 7ap1 Synthesis and Biological Evaluation of 1,3-Dideazapurine-Like 7-Amino-5-Hydroxymethyl-Benzimidazole Ribonucleoside Analogues as Aminoacyl-tRNA Synthetase Inhibitors.
• Chain: A
• Resolution: 2.18 Å

Enzymatic activity

• Enzyme Commision number: 6.1.1.11: serine--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	RUZ	A	T237 E239 R268 R283 M284 F287 E291 E355 I356 S357 S358 N389 S391 R397	T234 E236 R265 R274 M275 F278 E282 E346 I347 S348 S349 N380 S382 R388
BS02	CA	A	E239 N389	E236 N380
BS03	CA	A	D342 E355	D333 E346

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0004812 aminoacyl-tRNA ligase activity
• GO:0004828 serine-tRNA ligase activity
• GO:0005524 ATP binding

Biological Process

• GO:0006412 translation
• GO:0006418 tRNA aminoacylation for protein translation
• GO:0006434 seryl-tRNA aminoacylation
• GO:0016260 selenocysteine biosynthetic process

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:7ap1, PDBe:7ap1, PDBj:7ap1
• PDBsum: 7ap1
• PubMed: 33081246
• UniProt: A6T6Z0|SYS_KLEP7 Serine--tRNA ligase (Gene Name=serS)