Structure of PDB 6ydw Chain BD

Receptor sequence

>6ydwBD (length=240) Species: 9823 (Sus scrofa)

ATSVSWKSRTKYTVMPVKMRKSGGRNHTGQIQVHGIGGGHKQRYRMIDFL
RFRPEHESKPGPFEEKVIAVRYDPCRSADIALVAGGNRKRWIIATENMKA
GDTVLNSDHIGRMAVAAREGDAHPLGALPVGTLINNVESEPGRGAQYIRA
AGTCGVLLRKVNGTAIIQLPSKRQMQVLETCIATVGRVSNVDHNKRVIGK
AGRNRWLGKRPNSGLWQRKGGWAGRKIRPLPPMKSYVKLP

3D structure

• PDB: 6ydw Structural insights into mammalian mitochondrial translation elongation catalyzed by mtEFG1.
• Chain: BD
• Resolution: 4.2 Å

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	rna	BD	S63 W66 K67 K71 M75 P76 R80 K81 G84 R85 N86 H87 G89 Q90 I91 Q92 V93 H94 I96 G98 H100 K101 Q102 R103 Y104 R105 F109 R131 Y132 P134 R136 L142 W151 R203 Q206 Y207 I208 R209 A210 A211 T213 L229 S231 H253 N254 I258 G259 K260 A261 G262 R263 N264 R265 W266 P271 S273 G274 L275 W276 Q277 R278 K279 G281 W282 A283 G284 R285 K286 R288 K294 Y296	S3 W6 K7 K11 M15 P16 R20 K21 G24 R25 N26 H27 G29 Q30 I31 Q32 V33 H34 I36 G38 H40 K41 Q42 R43 Y44 R45 F49 R71 Y72 P74 R76 L82 W91 R143 Q146 Y147 I148 R149 A150 A151 T153 L169 S171 H193 N194 I198 G199 K200 A201 G202 R203 N204 R205 W206 P211 S213 G214 L215 W216 Q217 R218 K219 G221 W222 A223 G224 R225 K226 R228 K234 Y236
BS02	MG	BD	Y132 D133 P134	Y72 D73 P74

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0031090 organelle membrane
• GO:0043231 intracellular membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6ydw, PDBe:6ydw, PDBj:6ydw
• PDBsum: 6ydw
• PubMed: 32602580
• UniProt: F1RRN2