Structure of PDB 8brm Chain Lh Binding Site BS01

Receptor Information

>8brm Chain Lh (length=96) Species: 184922 (Giardia lamblia ATCC 50803)

DCRVTCRFHSTYRTRSKIVRYKRTPGNRLTSLRVKKLPNAPHCAETGKQI
HGIPRVIPQHLTRQQRKVSRPYGGKLCGSALRAHILESFLNEENQA

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): D3 R5 V6 T7 R9 H11 S12 T13 Y14 R15 T16 R17 S18 K19 R22 Y23 R25 T26 P27 G28 N29 R30 T32 R35 K37 K38 L39 P40 N41 P43 H44 H53 G54 I55 R57 P60 Q61 H62 T64 R65 Q66 R68 K69 S71 R72 Y74 K77
• Binding residue (residue number reindexed from 1): D1 R3 V4 T5 R7 H9 S10 T11 Y12 R13 T14 R15 S16 K17 R20 Y21 R23 T24 P25 G26 N27 R28 T30 R33 K35 K36 L37 P38 N39 P41 H42 H51 G52 I53 R55 P58 Q59 H60 T62 R63 Q64 R66 K67 S69 R70 Y72 K75

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation
• GO:0042254 ribosome biogenesis

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: A8BMF7