Structure of PDB 6xyw Chain AD Binding Site BS01

Receptor Information
>6xyw Chain AD (length=60) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VKIKFYSSFKDRFKPLNDGTIRRWKEGKRHNAHLKSKKSKRRLRQPGLVP
PAYAKVMKKL
Ligand information
>6xyw Chain 1 (length=2842) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gaaugcauuggauggaugcccgggcauugagaaggaaggacgcuuucaga
ggcgaaaggccauggggagauaccgucugugauccauggaucuccgaucg
ggaaaccguauccaagcuccguggcuagucugcgcucuuuggacuuugaa
aacuuagcgaacugaaacaucuaaguagcuaaaggaagggaaaucaaccg
agaccccguuaguagcggcgagcgagagcggauuugggauuuuaagaaaa
agaaagacgaagcacuucuuuuucgccagguuuacuguaauugugaaaag
guuggaagaucuggccaaagaaggugauagccccguagauucguuccuau
gguucgauccuucccaguaaaacgcggcguguucgaauucugaucgcuuu
uacgcgagaaagggggaccacccucuaagccuaaguauuccucaaugacc
gauagcguacaaguaccgugagggaaaggugaaaagaacccuaugacggg
agugcaauagagaaccugagauccgaugcgaacaaucagucgaaggagua
gucaagcgcacucacucuaacggcguaccuuuugcaugaugggucagcga
ggaaaugggaagagcggcuuaagccauuagguguaggcgcuuuccaaagg
uggaaucuucuaguucuuccuauuugacccgaaaccgaucgaucuagcca
ugagcagguugaagagagcucuaacaggccuuggaggaccgaacccacgu
auguggcaaaauacggggaugacuuguggcuaggggugaaaggccaacca
agaucggauauagcugguuuuccgcgaaaucuauuucaguagagcguaug
augucgauggcccgagguagagcacucaaugggcuaggguggcuuaccaa
ccccagggaaacuccgaauacaggccguucucguuuguacagacagacuu
uuggggugcuaagauccaaagucgagagggaaacagcccagaucguacgc
uaaggucccuaagcaaucacuuaguggaaaaggaagugaucgagcgauga
caaccaggaggugggcuuggaagcagccauccuuugaagaaagcguaaua
gcucacuggucuagcuccauggcaccgaaaauguaucagggcucaaguga
uucaccgaagcgacgagaccuugaaagcugcuuuuucaagugucaguagc
ggaacguucugucaaucggggaagguuuuuggugacaagaccuggagaua
ucagaagugagaaugcugacaugaguaacgauaaauccugugaaaaacac
gaucgccugccaguggaaggcuuucugcguucagucaaucuacgcagagu
gaaucggucccuaaggaacccccgaaagggcugccguccgauggguacac
gaaagugacgaaguugcuuugacuacaaaaccaugccucucucuuggagc
gaauuggaugaucgggccgagggcagcguagcgccucuuccccucacucu
ccuuucuccaauaugaaccuugagucaucaaaggcgagucuguuuauagu
cgcgacucuugucauagucaagaagguugaaacuuccaggaaaaaacuuc
gaauugggagggcgauccucccggugaacugaccguaccccaaaccgaca
caggugaacaaguagaguauacuagggcgcuugagagaaccaugucgaag
gaacucggcaaaaugaccccguaacuucgggagaaggggugcucuccuau
cuuuugauuaggaaagcggcacauaccaggggguagcgacuguuuauuaa
aaacacaggacucugcuaagugguaacacgauguauagagucugacaccu
gcccggugcuggaaagucaaaaggagaaguguuauaagcuuugaauggaa
gccccgguaaacggcggcaguaacucuaacuguccuaagguagcgaaauu
ccuugucgcauaaguagcgaccugcacgaaugguguaacgacugccccgc
ugucuccgacauggacccggugaaauugaauucuccgugaagaugcggag
uaccaacggcuagacgguaagaccccgugcaccuucacuauagcuucgca
gugacaaccuugaucgaauguguaggauaggugggaggucgugacauaga
aggaccaauccugaaagaccacucuuucgucuaagggugccuaaccgccg
cggcgggacacugcgagguggguaguuuaucuggggcggaugccuccuaa
agaguaacggaggugugcgaagguaggcucaagcuaagauucugcucgug
agcguaaugguauaagccugccugacugugagaccgacuggucgaacaga
gacgaaagucggccauagugauccgggagucccguguggaagggcucucg
cucaacggaucaaagguacgccggggauaacaggcugaugacucccaaga
gcucuuaucgacggagucguuuggcaccucgaugucgacucaucacaucc
ugggguugaagaaggucccaaggguucgguuguucgccgauucaaguggu
acgugaguuggguuuagaacgucgugagacaguucgguuccuaucuaccg
uugguguuaaagggagaacugcgaggagccaacccuaguacgagaggacu
ggguugggccaaccuaugguguaccgguuguuaugccaauagcagcgccg
ggcagcuaaguugguauggaagaacugcugcuuagcgggaaauccuucuc
uauacaaguucucggaacagguuuuagaacagaacuucgauaggcgggag
guggaagcaccgcgaggugugaagccaucucguacuaaacga
...<<<<<<<<<<....<<<..<<<<<<<<<<.....<<<<<<.......
.>>>.....<<<<<<<..<<.....>>.....>>>>>>>...>>>...<<
<....>>>..<<<<<<...<<<.........>>>...>>>>>>.......
..<<<<<<.....<......>......>>>>>.>...<.....<<....>
>....<<<<.....<<.....>>....>>>>....<<.............
...<<<<.........>>>>.....<<<..............<<....<<
<........>>>.<<.......((.....>>))....>.>.........>
>>..................<.<<..<..........>..>>.>......
..........<<<<<..((((>>>>>...>>....>..>.>>>>>>>.>>
...............<<....>>....>>.........<<<......>>>
...............>....>>>>>>>>>>........<<<<..<<<<<<
<<.......>>>.>>>>>..>>>>...<.<........>.>.<<<<<<..
..<<<<<<<<<<<<<.<<<...<<<....>>>...>>>............
............>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<
<<<<..<<<....<<<..<<.....>>..>>>.....>>>...<<<.<<<
<<........>>>>>>>>....>>>>>>>>>...<<<.....>>>.....
.>>>>>>...>..>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<
<....<.<<<<<.<.....<<<...<<..<<<<...<<........>>..
.>>>>..>>..>>.>.....>.>>>>>.>.....>>>>>>.>...<<<<.
<<<<<.........>>>>>>>>>....<<<......>>>...<<<<.<<<
...<<<((......<<<<<<...........<<..<<.<<.<<<<.....
..<<<...<<...<<<<.......>>>>...>>........<<<......
>>>....>>>...>>>>.>>.>>.>>............))......>>>>
>>.>>>...>>>>>>><<<<<<<<<<<.....>>>>>>>>.>>>....>>
>>>>..<<<<<...<<<......<<.<<<<<....>>>>>.>>...>>>.
.>>>>>........>>>>>><......<<.....<<<.<<.......>>.
>>><<<<<....<<....<<...<<<<<<...<<.....>>.>>>>>>..
....<<<<<<....<<....<<<....>>>......>>....>>.....<
<<<......<<..<....<...............................
<.<<...>>...>.....................................
............>...<.<<<.....<........<<<<<<<........
>>.>>>>>.........>.....>>>>...>..>>............>>>
><..<<<<<.........>>>>>.>......>>>>..>>.....<<....
..>>...>>.<<<<.....>>>>.>>>>>..<<.<....<<<<<<<<.<<
...............<<<<<...............>>>>><<<.<<<<<<
......>.>>>>>.>>>............<<<<<<<<<..<<<.......
..>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<<<<.
<<<..<<<<<<<...<<........<<<<<.......>>>>>........
>>.>>>>>..>>>>><<<<<<.......>>>>>>........<.......
....<<<<<.......>>>>>.....>....>>>>>..>>.>>>>>>>..
...>>.>>>>>>>>.>.>>>>.....>.....<<<<<........>>>>>
..<<<<<<<.<<<<.<<......<<<<.<<<<<<..<<<<<.<<<<<<<<
<.<.<<.<<<<<..<<<..............<<<...<............
....>.............>>>.....>>>..>>>>>.>>.>...<<<<<.
.>>>>>....>>>>>>>>>..>>>>>..<<<<.....>>>><<<<<<...
........>>>>>>..<<...<<<<<<<...<<<.........>>>....
.<..[.(((.>....>>>>>>>...<<<<..<<<<....>>>>..>>>>.
<<<....>>>.>>)))]......<<<<<<<.<<..))))..>>>>>>>>>
.............>>>>..>>>>>>.......<<<<.<.<<<<<<...<<
.......>>...>>>>>>...>>>>.>.......<<<<<..<<<<<..<<
<<<<<<<......>>>>>>..>>>.<<<<.......>>>>.....>>>>>
......>>>.>>....<<<<<<<....>>>.>>>>....>>..>>>>>>>
>>>>.........<<<<<<...<<<<..<<<<<<<...............
>>>>>>><<<<<<...<<<<...<<<<<<<<<<<....>>>>>>..>>>>
>...>>>>.>>>>>><.<<<....<<<<<....>>>>>....>>>>>>>>
.......>>>>>>......<<<<<.......>>>>>....<<<<<<<<<<
<<....<<<<<....>>>>>...>>>.>>>>>>.>>>.....
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6xyw Cryo-EM structure of the RNA-rich plant mitochondrial ribosome.
Resolution3.86 Å
Binding residue
(original residue number in PDB)
V110 K111 I112 K113 Y115 S116 S117 K119 R121 R132 E135 G136 K137 R138 H139 N140 A141 H142 K146 K147 R150 R151 L152 R153 A161 Y162 K164 K167 K168
Binding residue
(residue number reindexed from 1)
V1 K2 I3 K4 Y6 S7 S8 K10 R12 R23 E26 G27 K28 R29 H30 N31 A32 H33 K37 K38 R41 R42 L43 R44 A52 Y53 K55 K58 K59
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:6xyw, PDBe:6xyw, PDBj:6xyw
PDBsum6xyw
PubMed32251374
UniProtQ8LAA7

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