Structure of PDB 8brm Chain Lk Binding Site BS02

Receptor Information

>8brm Chain Lk (length=88) Species: 184922 (Giardia lamblia ATCC 50803)

SKGTASFGKRHTRIHGSCRRCGKHSFHLQKHECASCGYPSAKMRRYNWSY
KSLRRRTQGTGSMSHMRKVYRAYNSGTLKANARKYLAK

Ligand information

>8brm Chain Lt (length=2594)

ggcgggccugaggcggcgggggcgacgggcggaacuuaagcauaucagua
cgccccggaggagaaaccaaccgggauuccccgcuagcggcgagcgacgc
gggaggagcccgccccgaaggcgcgcuguggggccgcgagggggcccgag
ggccccgcccgagagggugcaagccccguacggcgaguagcgcugcuuga
gcgugcagcgcgaagggaggcgcggcccuuccaaggcuaaauacgccccg
ggaccgauagcggaccaaguagcgcgagcgaacggugaaaaggacgcccu
gcggccgcucaaaagaccugaacccggccggccgccggcccgccggcccc
gucucgaaacacggaccgaggagccacgcgccgcggcgagcccgagggag
cccccgcggcggagcgagcgcgagacgccccgggcccgccaugccccugc
gggcgugcgcgggccgagccgcggcgcgugggcccgaaaggcggugaucu
augcccggcgagggcgaggccgggcgaaagccugguggaggcccgccgcg
gugcugacgcgcagaucgcucgucggagccgggcaugggggcgaaagacu
caucgaaccgccugguagcugguugccuccgaaaugucucccaggacagc
cgccgccccgcaguugcggcccguagagcgcuggccggcgggagcggggg
gccugccccucgcccgccccccaaacuccgaagggccgcgccgccccgcc
gcuggccugggcggggcgggcgaaugcgggcggcgcgugggccccuccug
guaagcaggacgggcgaggcgggacgauccggacgccgggccagggugcg
ccgccggggcccgcggaacggcgucggccggucccgacagccgaaucggc
cggcccggaaaauggagcgcgccggagccccggacccgcgcccggccgcc
gcgcgcggcggguaggaggccgcagaggccccgggggcgaaggcggcgcg
caggccccgccggaccggccucuggugcagaucucggcagcaguagccgc
uacuccgcgccccggaggacugagggggagacggguuccgcggcgccugc
aucuggccgcgggugacucgggccuaagcggcgggugaagaccgggaagg
ggcgugcccgcccgucgaacggggagccggcggagacuccggcaggcgcg
gcccccgcggagacgcccgccccccggcgacgcgcacggggaccgcggcg
ggcggcgccccggcccgcgaacgccccgcagcccccggacgccuugcgcg
gagaggggggcccgggggcggaccgcgcguccccggccgccccugaaaag
ccggggggcgccggccgcgcgccguaccgaccgcagcaggacuccggggu
cagcagccucuagcgcgggagcgaacgcggcucagggaagucggcaagcc
ggcuccguaaccucgggaaaaggaguggcucugacggcccgggucagaac
uggaacggacgcggggaucccgacuguuuacuagaaacacagcgucgcga
gggccgcacccggcgcuggcgcgacgugauuucugcccagugccacgacc
gucaccgugaagcgauccgccgaagcccugguaaacggcgggaguaacua
ugacucucuuaagguagccaaaugccucgucgggcaauuuccgacgugca
ugaauggaccaacgaggaucccacugucccgagccgcgccuccgcgagcc
uccagccucgggaacgggcgagggccggccagcggggcaagaagacccuu
uugagcuugacuccagcccgggccuguggggcggggcggccggcgcagcg
cacaggggaggccgcgccccugagacacccugacggccgccgccgccccg
cucacccggucgcgcggggacccgcccgggcggggaguucggcuggggcg
gcgcgccugcuacaccggaccgcaggcgucccacggcgggcucagcgagg
acggagaccucccgcggagcagaagggcacaagcccgcccgacccgcgcc
ccccgugccggcgcgggccgcgaaagcggggccuaccgauccuucgccgc
cccggccgcgggcgcggagguggcagaaaaguuaccacagggauaacugg
cuuguggccgccgagcgcccgcagcgacgcggcuuuuugauccuucgaug
ucggcucuuccuaccguccgcgcgcaccggcgcggaagcgucggauuguu
cacccguucaagggaucgugagcuggguuuagaccgucgugagacagguu
aguuuuacccuacuggccccggggccagagcacggcgggccaguacgaga
ggaacgcccgccgcgggccgccagccccgcgguugcccggccgggcagcg
ccgcgccgccgcgcccgggggcccugcgcugaccgccucuaagcgcgcac
cccgccucgcgccccgcccggccgcgcgccccagccccgugccccgucgc
cgagcggcccccgcccggggagaccacccggcgcggcgcuccuguacggc
gcagagcccugcgaucgccugagggacgcgccugcagagcgcgg

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8brm Insights into translocation mechanism and ribosome evolution from cryo-EM structures of translocation intermediates of Giardia intestinalis.
• Resolution: 3.33 Å
• Binding residue (original residue number in PDB): S2 K3 G4 T5 S7 F8 G9 K10 R11 H12 T13 R14 I15 H16 H25 S26 H28 Q30 K31 A35 K43 R45 R46 Y47 N48 W49 S50 K52 S53 R55 R56 T58 Q59
• Binding residue (residue number reindexed from 1): S1 K2 G3 T4 S6 F7 G8 K9 R10 H11 T12 R13 I14 H15 H24 S25 H27 Q29 K30 A34 K42 R44 R45 Y46 N47 W48 S49 K51 S52 R54 R55 T57 Q58

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:8brm, PDBe:8brm, PDBj:8brm
• PDBsum: 8brm
• PubMed: 36912103
• UniProt: A8BLV7