Structure of PDB 8azw Chain j Binding Site BS01

Receptor Information

>8azw Chain j (length=154) Species: 4097 (Nicotiana tabacum)

VKYSKEPDNPTKSCKARGSSLRVHFKNTRETAHALRKMPLDKAKRYLEDV
LAHKQAIPFTRFCRGVGRTAQAKNRHSSGQGRWPVKSTKFILDLLKNAES
NADVKGLDVDLLFISHIQVNQAQKQRRRTYRAHGRINPYMSHPCHIELTL
SEKE

Ligand information

>8azw Chain A (length=3196)

gcgaccccaggucaggcgggacuacccgcugaguuuaagcauaucaauaa
gcggaggaaaagaaacuuacaaggauuccccuaguaacggcgagcgaacc
gggaacagcccagccuuagaaucgggcggcuccgccguucgaauuguagu
cuggagaagcguccucagcggcggaccgggcccaaguccccuggaagggg
gcgccagagagggugagagccccguugugcccggacccugucgcaccacg
aggcgcugucuacgagucggguuguuugggaaugcagcccaaaucgggcg
gugaauuccguccaaggcuaaauacgggcgagagaccgauagcgaacaag
uaccgcgagggaaagaugaaaaggacuuugaaaagagagucaaagagugc
uugaaauugucgggagggaagcggaugggggccggcgaugcgccccgguc
ggauguggaacggugacgagccgguccgccgaucgacucggggcguggac
cagcguggauugggggggcggccaaagcccgggcuuucgauacgcccgug
gaacgccgucuccuugauugugguaggcagcgcgcgccuccggcgugcuu
cggcaucugcgcgcuccggacgcuggccugugggcuccccauucgacccg
ucuugaaacacggaccaaggagucugacaugugugcgagucaacgggcga
guaaacccguaaggcguaaggaagcugauuggugggaucccccugagggg
ugcaccgccgaccgaccuugaucuucugugaaggguucgagugugagcau
accugucgggacccgaaagauggugaacuaugccugagcggggcgaagcc
agaggaaacucugguggaggcccgcagcgauacugacgugcaaaucguuc
gucugacuuggguauaggggcgaaagacuaaucgaaccgucuaguagcug
guucccuccgaaguuucccucaggauagcuggagcucgcgugcgaguucu
aucggguaaagccaaugauuagaggcaucgggggcgcaacgcccucgacc
uauucucaaacuuuaaauagguaggacggugcggcugcuuuguugagccg
caccacggaaucaagagcuccaagugggccauuuuugguaagcagaacug
gcgaugcgggaugaaccggaagccggguuacggugccaaacugcgcgcua
accuagaucccacaaaggguguuggucgauuaagacagcgccgaaucaac
uagccccgaaaauggauggcgcuuaagcgcgcgaccuacacccggccguc
ggggcaagugccaggccccgaugaguaggagggcgcggcggucgcugcaa
aaccuugggcgcgagccugggcggagcggccgucggugcagaucuuggug
guaguagcaaauauucaaaugagaacuuugaaggccgaagaggggaaagg
uuccaugugaacggcacuugcacauggguuagucgauccuaagggucggg
ggaaccccgacagauagcgcguuucgcgcguacuccgaaagggaaucggg
uuaaaauuccugaaccgggacguggcgguugacggcaacguuaggaaguc
cggagacgucggcgggggccucgggaagaguuaucuuuucuguuuaacag
ccugcccacccuggaaacgacucagucggagguaggguccagcggcugga
agagcaccgcacgucgcgugguguccggugcgcccccggcggcccuugaa
aauccggaggaccgagugccguccacgcccggucguacucauaaccgcau
caggucuccaaggugaacagccucuggucgauggaacaauguaggcaagg
gaagucggcaaaauggauccguaacuucgggaaaaggauuggcucugagg
gcugggaacagccaacucagaacugguacggacaaggggaauccgacugu
uuaauuaaaacaaagcauugcgauggucccugcggauguuuacgcaaugu
gauuucugcccagugcucugaaugucaaagugaagaaauucaaccaagcg
cggguaaacggcgggaguaacuaugacucucuuaagguagccaaaugccu
cgucaucuaauuagugacgcgcaugaauggauuaacgagauucccacugu
cccugucuacuauccagcgaaaccacagccaagggaacgggcuuggcaga
aucagcggggaaagaagacccuguugagcuugacucuaguccgacuuugu
gaaaugacuugagaggguaguauaagugggagccggcgaaagugaaauac
cacuacuuuuaacguuauuuuacuuauuccgugaaucggaagcggggcac
ugccccucuuuuuggacccaaggcuugcuugcaggccgauccgggcggaa
gacauugucagguggggaguuuggcuggggcggcacaucuguuaaaagau
aacgcagguguccuaagaugagcucaacgagaacagaaaucucgugugga
acagaaggguaaaagcucguuugauucugauuuccaguacgaauacgaac
cgugaaagcguggccuaacgauccuuuagaccuucggaauucgaagcuag
aggugucagaaaaguuaccacagggauaacuggcuuguggcagccaagcg
uucauagcgacguugcuuuuugauccuucgaugucggcucuuccuaucau
ugugaagcagaauucaccaaguguuggauuguucacccaccaauagggaa
cgugagcuggguuuagaccgucgugagacagguuaguuuuacccuacuga
ugacagugucgcaauaguaauucaaccuaguacgagaggaaccguugauu
cgcacaauuggucaucgcgcuugguugaaaagccaguggcgcgaagcuac
cgugcgcuggauuaugacugaacgccucuaagucagaauccgggcuagaa
gcgacgcaugcgcccgccguccgcuugccgacccgcaguaggggccuuug
gcccccaagggcacgugucguuggcuaagucaucguggcggaagagccgc
gguggccgccuugaaguacaauuuccaucgagcggcggguagaauccuuu
gcagacgacuuaaauacgcgacgggguauuguaaguggcagaguggccuu
gcugccacgauccacugagauucagcccuuugucgcuccgauucgu

........................<<<<<<.....<......>......>
>>>>.>.........<<....>>..<<<<<.......<.....>......
>>>>>..[[[....<......<<<<<<<<<...>>>>>>>>>......>.
....<<<<<<<<.<<<.<<<<<<<.<<<<<<.<<...<<<<......>>>
>.((......<<<.....))>>>..>>.>>>>>>...>>>>>>>.....>
>>>>>>>.>>>.......<<<<<<<........>>>>>>>.....(((((
..<<<<<<)))))..]]]................................
..<<....>>...............<<<<....>>>>.............
.....................<<<<<<<<<<<<......<<<<<<<<<<<
<...<<<<<.<<<<.....>>>>.>>>>>....>>>>.>>>>>>>>.<.<
<<<<<..<<<<<<<<<<<<<<<.....<<<<<<<.........>>>>>.>
>...>>>>>>>>>>>>>>>.........<<<<<<<<<<...>>>..<<..
..>>....>>>>>>>.....>>>>>>.>....>>>.>>>>>>>>>..<<<
<........>>>><<<<<<.....<<<<<.<<<<<<..<<<...<<<...
.....>>>....>>>...<<....>>....<<<<<...<<<<....>>>>
....>>>>>.<<<<<<<.....<....>.....>>.>>>.>>....>>>>
>>.>>>>>...<<.<..<<<<<<<.....<<<<<<<<<..<<<....<<<
<<<<....>>>>>>>.....>>>...<<<<.<<.<<........>>>>>>
>>....>>>>>>>>>...<<.......>>......>>>>>>...>..>.>
>..<<<<<<....<.<<<....>>>.><<<<<<<<<<......<<.<<<<
<<<.....<<<....<<<....<<<....<<<<<<.....>>>>>>..>>
>....>>>..>.>>.....>>>>>...<<<<<<<<<.<......>>>>>>
>>>>....>>>>..>>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>
>>....<<<......>>>...<<<<<<<...<<<(((.....<<<<<<..
.....<..........<<<.<<<<<<.<<<.......<..>...>>>.>>
>>>>>>>..........))).>....>>>>>>.>>>...>>>>>>><<<<
<<<<<.........>>>>>>>>>....>>>>>><.<<<<<<<<<<.....
..<<<.<<<<....>>>>>>>....>>>>>>>>>>..>.....>>>>>><
<.....<<.....<<<<<<.......>>>>>><<<<.....<<<<<.<<.
..<<<<<<...<<.....>>.>>>>>>....((<<<<<<...<<....<<
<....>>>........<<<<<...>>>>>.....>>....>>...<<<<<
........>>>>>))<<<<.<<<<<<<<...<<<....>>>...<...<<
<<<<...<<<<.<<<<<<<.<<<<<.<<<<.......>>>>.><...<<<
<<.....<<<<<<....<<<<...>>>>....>>>>>>.....>>>>>..
..><<<<<<<.......>>>>>>>>>>>...>>>>>>>.>>>>.......
..>>>>>>...>......>>>>.>>>>>>>>>>>>..>>.....<<....
..>>>>>>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<
.........<.....<<<<<....<<..>>.....>>>>><<.<<<<<<<
<<<<....>>>>>..>>>>>>.>>............<<<<<<<<<..<<<
.........>>>..<<<<<<<....<<<<....>>>>......>>>>>>>
...<<..<<<..<<<<<<.<..<<<.....<<<<....>>>>.....>>>
>>>>>..>>>>><<<<<<.......>>>>>>........<..........
.<<<<<.......>>>>>.....>.....>>....>>.>>>>>>>..>..
>>.>>>>>>>..>>>>>>....>>....<<<<<........>>>>>....
[[[[[..{{{.{{......[[[[.{{[[[[..<<<<<.<<<.<<<...<<
<<<<<<<<.<<<<<<.........<<<<.<.<<<>>>............>
>>>>.>>>>>>..>>>>>>>>>>...<<<<<.....<<<<...<<<<<..
.>>>>>...............<<<<<<....>>>>>>..>>>>..>>>>>
......>>>.>>>..>>>>>...<<<.....>>>..<<<<<<........
...>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>.....
<<...(((>>....>>>>>>>...<<<.<<<<<.......>>>>.>>>>.
<<<....>>>.>>))).......((((((..((((.>>>>>>))))))))
))..........]]]]..}}]]]].......<<.<.<.<<<<<<...<<.
......>>...>>>>>>...>>.>.>.......<<<<<.<<<<<<..<<<
.<<<<<......>>>>>...>>>.<<<.........>>>.....>>>>>.
.>...>>>.>>....<<<<<<<....>>>.>>>>....}}..}}}.]]]]
]....<<<<<<<..<<<<.<.<<<<<.................>>>>>.>
<<<<<...<<<<....<<<<<<<<<......>>>>..>>>>>...>>>>.
.>>>>>.<<<<...<<<<<...........>>>>>...>>>>.>>>>...
>>>>>>>....<<<<<<<<<.<<.<......<<.......<<<<<<...>
>>>>>....>>...........<<<...<<<<<<<<<<<......>>>>>
>>>>>>.>>>................>.>>.>>>>>>>>>.<<<<<.<..
...........>.....<<<<<<<<<.<<<....<<<<.<..<<<<<...
...>>>>>..>>>>>...>>>....>>>>..>>>>>...>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8azw Structure of the actively translating plant 80S ribosome at 2.2 angstrom resolution.
• Resolution: 2.14 Å
• Binding residue (original residue number in PDB): Y4 K6 K16 R18 H25 F26 K27 R30 K43 R62 F63 R65 G66 G68 R69 A71 K74 N75 S78 Q81 R83 W84 P85 V86 K87 N98 S101 N102 Q119 V120 N121 Q122 K125 R128 R129 T130 Y131 R132 A133 H134 G135 R136 I137 N138 P139 Y140 M141 S142 H143
• Binding residue (residue number reindexed from 1): Y3 K5 K15 R17 H24 F25 K26 R29 K42 R61 F62 R64 G65 G67 R68 A70 K73 N74 S77 Q80 R82 W83 P84 V85 K86 N97 S100 N101 Q118 V119 N120 Q121 K124 R127 R128 T129 Y130 R131 A132 H133 G134 R135 I136 N137 P138 Y139 M140 S141 H142

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8azw, PDBe:8azw, PDBj:8azw
• PDBsum: 8azw
• PubMed: 37156858
• UniProt: A0A1S4CCH0