Structure of PDB 8ipa Chain KA

Receptor sequence

>8ipaKA (length=273) Species: 4565 (Triticum aestivum)

QKTRAYSKRFQVKFKRRRQGKTDYRARLRLTNQDKNKYNTPKYRFVVRFT
NKDVTAQIVYATIAGDIVMAAAYSHELPRYGLEVGLTNYAAAYCTGLLLA
RRVLKCRDLDQEYEGNVEATGEDFSVEPADERRPFRALLDVGLIRTTTGN
RVFGALKGALDGGLDIPHSDKRFAGFKKDEKQLDAEIHRKYIYGGHVADY
MKSLADEEPEKYQSHFSEYIKKGIEADNMEALYKKVHAAIRADPTKRYNP
KKLTYEQRKASLVERLNALNSSA

3D structure

• PDB: 8ipa Boric acid intercepts 80S ribosome migration from AUG-stop by stabilizing eRF1.
• Chain: KA
• Resolution: 3.4 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	KA	K8 Y12 R15 F16 Q17 K19 R23 T28 D29 R31 R35 L36 K43 Y44 K48 Y49 R113 R138 R139 P140 F141 L144 R151 T152 F159 P173 H174 S175 R178	K2 Y6 R9 F10 Q11 K13 R17 T22 D23 R25 R29 L30 K37 Y38 K42 Y43 R107 R132 R133 P134 F135 L138 R145 T146 F153 P167 H168 S169 R172
BS02	rna	KA	R10 S13 K14 F16 V18 F20 K21 R22 R24 T28 R33 R50 V52 R54 T56 N57 Q63 I69 A70 G71 D72 V74 N94 Y95 I150 R151 T153 T154 N156 R157 Y197 H202 V203 Y206 K217 H221 F222 E224 Y225 K264 R265 Y266 N267 P268 K270 L271 Y273 L280	R4 S7 K8 F10 V12 F14 K15 R16 R18 T22 R27 R44 V46 R48 T50 N51 Q57 I63 A64 G65 D66 V68 N88 Y89 I144 R145 T147 T148 N150 R151 Y191 H196 V197 Y200 K211 H215 F216 E218 Y219 K246 R247 Y248 N249 P250 K252 L253 Y255 L262

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008097 5S rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8ipa, PDBe:8ipa, PDBj:8ipa
• PDBsum: 8ipa
• PubMed: 38267667
• UniProt: W5BZZ2