Structure of PDB 8brm Chain LY Binding Site BS02

Receptor Information

>8brm Chain LY (length=119) Species: 184922 (Giardia lamblia ATCC 50803)

AKKIRTNVHFFRPKTLVHKKAPLYPRNPIKKGSWDDPCDLLRYPIKTDEN
TTQIEKNNTIVFIVDRRASKPEIRKAFETVFETKVARVNTLITPLGLKKA
FIRLAPDVQAMDVASKMGL

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): K23 N28 H30 F31 F32 R33 P34 T36 V38 H39 K41 A42 L44 Y45 R47 S90 K91 P92 R108 N110 L112 I113 P115 K119 K120 F122 R124
• Binding residue (residue number reindexed from 1): K2 N7 H9 F10 F11 R12 P13 T15 V17 H18 K20 A21 L23 Y24 R26 S69 K70 P71 R87 N89 L91 I92 P94 K98 K99 F101 R103

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• 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: A8BMP6