Structure of PDB 6nab Chain A

Receptor sequence

>6nabA (length=496) Species: 5763 (Naegleria fowleri)

EGIDVKKQENFSEWYSQVITKSEFLDYYDVSGCYIFRPNCWFVWESVQKF
FDAEIKKLGVQNVMFPLFVTKRALETEKDHVEGFSPEVAWVTKSGNSDLQ
EPIALRPTSETIMYPSYAKWIQSHRDLPLKLNQWTNVVRWEFKHAVPFIR
SREFYWQEGHSAFKSKEEADEEVFTILELYKRVYEELLAVPVIKGTKTEN
EKFAGADYTTTVETFIATNGRAVQGGTSHHLGQNFSKMFKIQFEAENKET
QFAYQNSWGLSTRTLGVMIMVHGDDKGMVLPPRVAFCQVVVIPLIDNATL
VEKTKEIYNELEKAGIRVKLDDRRTPGWKYNYWELRGVPLRIEVGPKDLE
KQQIMLCRRDTGEKWTMPLSEFSGDSIKAVLDKIHDSMLNKARKEMNERI
VVTRTWPEFIKALNSGNMCLIPWHESKAAEEYIKEKSKLESVQSQSDANT
GLTGAAKSLCVPLDQSSFPSLEGLENFYPEEAHKKPNCWALFGRSY

3D structure

• PDB: 6nab Crystal structure of prolyl-tRNA synthetase from Naegleria fowleri in complex with proline and adenosine monophophsphate (AMP)
• Chain: A
• Resolution: 2.0 Å

Enzymatic activity

• Enzyme Commision number: 6.1.1.15: proline--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	AMP	A	E144 I152 R153 S154 F157 Q227 T230 G262 S264 R266	E141 I149 R150 S151 F154 Q224 T227 G259 S261 R263
BS02	PRO	A	T111 E113 W159 E161 F206 H232 S260 W261 G262	T108 E110 W156 E158 F203 H229 S257 W258 G259

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0004812 aminoacyl-tRNA ligase activity
• GO:0004827 proline-tRNA ligase activity
• GO:0005524 ATP binding

Biological Process

• GO:0006418 tRNA aminoacylation for protein translation
• GO:0006433 prolyl-tRNA aminoacylation

Cellular Component

• GO:0005737 cytoplasm
• GO:0017101 aminoacyl-tRNA synthetase multienzyme complex

External links

• PDB: RCSB:6nab, PDBe:6nab, PDBj:6nab
• PDBsum: 6nab
• UniProt: A0A4V8H034