Structure of PDB 8br8 Chain LV Binding Site BS01

Receptor Information

>8br8 Chain LV (length=100) Species: 184922 (Giardia lamblia ATCC 50803)

EQGNIRFAVDCSAGKDLELNLNEFADYVRTHFKINNRKHGVAEKVACSVE
GDSLVIQTTGYEFAKRYVKYLTKRFLYQDYQGVFRVLSTDKETYTLKPYT

Ligand information

>8br8 Chain Lt (length=2593)

ggcgggccugaggcggcgggggcgacgggcggaacuuaagcauaucagua
cgccccggaggagaaaccaaccgggauuccccgcuagcggcgagcgacgc
gggaggagcccgccccgaaggcgcgcuguggggccgcgagggggcccgag
ggccccgcccgagagggugcaagccccguacggcgaguagcgcugcuuga
gcgugcagcgcgaagggaggcgcggcccuuccaaggcuaaauacgccccg
ggaccgauagcggaccaaguagcgcgagcgaacggugaaaaggacgcccu
gcggccgcucaaaagaccugaacccggccggccgccggcccgccggcccc
gucucgaaacacggaccgaggagccacgcgccgcggcgagcccgagggag
cccccgcggcggagcgagcgcgagacgccccgggcccgccaugccccugc
gggcgugcgcgggccgagccgcggcgcgugggcccgaaaggcggugaucu
augcccggcgagggcgaggccgggcgaaagccugguggaggcccgccgcg
gugcugacgcgcagaucgcucgucggagccgggcaugggggcgaaagacu
caucgaaccgccugguagcugguugccuccgaaaugucucccaggacagc
cgccgccccgcaguugcggcccguagagcgcuggccggcgggagcggggg
gccugccccucgcccgccccccaaacuccgaagggccgcgccgccccgcc
gcuggccugggcggggcgggcgaaugcgggcggcgcgugggccccuccug
guaagcaggacgggcgaggcgggacgauccggacgccgggccagggugcg
ccgccggggcccgcggaacggcgucggccggucccgacagccgaaucggc
cggcccggaaaauggagcgcgccggagccccggacccgcgcccggccgcc
gcgcgcggcggguaggaggccgcagaggccccgggggcgaaggcggcgcg
caggccccgccggaccggccucuggugcagaucucggcagcaguagccgc
uacuccgcgccccggaggacugagggggagacggguuccgcggcgccugc
aucuggccgcgggugacucgggccuaagcggcgggugaagaccgggaagg
ggcgcccgcccgucgaacggggagccggcggagacuccggcaggcgcggc
ccccgcggagacgcccgccccccggcgacgcgcacggggaccgcggcggg
cggcgccccggcccgcgaacgccccgcagcccccggacgccuugcgcgga
gaggggggcccgggggcggaccgcgcguccccggccgccccugaaaagcc
ggggggcgccggccgcgcgccguaccgaccgcagcaggacuccgggguca
gcagccucuagcgcgggagcgaacgcggcucagggaagucggcaagccgg
cuccguaaccucgggaaaaggaguggcucugacggcgccgggucagaacu
ggaacggacgcggggaucccgacuguuuacuagaaacacagcgucgcgag
ggccgcacccggcgcuggcgcgacgugauuucugcccagugccacgaccg
ucaccgugaagcgauccgccgaagcccugguaaacggcgggaguaacuau
gacucucuuaagguagccaaaugccucgucgggcaauuuccgacgugcau
gaauggaccaacgaggaucccacugucccgagccgcgccuccgcgagccu
ccagccucgggaacgggcgagggccggccagcggggcaagaagacccuuu
ugagcuugacuccagcccgggccuguggggcggggcggccggcgcagcgc
acaggggaggccgcgccccugagacacccugacggccgccgccgccccgc
ucacccggucgcgcggggacccgcccgggcggggaguucggcuggggcgg
cgcgccugcuacaccggaccgcaggcgucccacggcgggcucagcgagga
cggagaccucccgcggagcagaagggcacaagcccgcccgacccgcgccc
cccgugccggcgcgggccgcgaaagcggggccuaccgauccuucgccgcc
ccggccgcgggcgcggagguggcagaaaaguuaccacagggauaacuggc
uuguggccgccgagcgcccgcagcgacgcggcuuuuugauccuucgaugu
cggcucuuccuaccguccgcgcgcaccggcgcggaagcgucggauuguuc
acccguucaagggaucgugagcuggguuuagaccgucgugagacagguua
guuuuacccuacuggccccggggccagagcacggcgggccaguacgagag
gaacgcccgccgcgggccgccagccccgcgguugcccggccgggcagcgc
cgcgccgccgcgcccgggggcccugcgcugaccgccucuaagcgcgcacc
ccgccucgcgccccgcccggccgcgcgccccagccccgugccccgucgcc
gagcggcccccgcccggggagaccacccggcgcggcgcuccuguacggcg
cagagcccugcgaucgccugagggacgcgccugcagagcgcgg

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8br8 Insights into translocation mechanism and ribosome evolution from cryo-EM structures of translocation intermediates of Giardia intestinalis.
• Resolution: 3.35 Å
• Binding residue (original residue number in PDB): K44 R48 A75 K76 R77 Y78 K80 Y81 R85 Y88 R96 L98 S99 Y105
• Binding residue (residue number reindexed from 1): K33 R37 A64 K65 R66 Y67 K69 Y70 R74 Y77 R85 L87 S88 Y94

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8br8, PDBe:8br8, PDBj:8br8
• PDBsum: 8br8
• PubMed: 36912103
• UniProt: A0A644FC41