Structure of PDB 8ove Chain Bx Binding Site BS02

Receptor Information

>8ove Chain Bx (length=232) Species: 5702 (Trypanosoma brucei brucei)

APSPFVARPKDFGIGRDVPYARDLSRFMRWPTFVTMQRKKRVLQRRLKVP
PALNQFTKVLDRSSRNELLKLVKKYAPETRKARRDRLTKVAEEKSTKAPL
CVVSGLQEVTRTIEKKTARLVLIANNVDPIELVLWMPTLCRANKIPYAIV
KDKARLGDAIGRKTATCVAFTDVNAEDQAALKNLTRSVNARFLARSDVIR
RQWGGLQLSLRSRAELRKKRARTAGNDAAAKA

Ligand information

>8ove Chain BB (length=1109)

caacugcagaccguacucaucaccgcaucagguccccaagcaucgaaugc
ucugguacauagagaaagguacacucagggaagucggcaaaauagaugcg
uaaguucgcaagaagcauuggcucugagggcaauugccaacucagaacug
cuuacggcggggaauccaacuguauaauuaaaacauagguuugugaugca
uccaagugguguaugucgcaaacugauuucugcccagugcucugaauguc
aacgugacgagauucaccgacgcgcggguaaacggcgggaguaacuauga
cucucuuaagguagccaaaugccucgucuuccaauuagagacgcgcauga
auggauuaaugagauucccucugucccgaguuacuaucuagcgaaacgac
agucaagggaacggacuugaagggcuaagcggggaaagaagacccuguug
aguuugacuccagucuggcucugugcggcgacuuacguugcuucacuuau
cgaaugaagagaccaaugguuguuuugcgcagucuucgggcugugcgccg
ucuaggcugacgcgugcggaacucugcgccaacgggguggaauucuccgg
agucuuguuucgagacaucugccagauggggaguuuggcuggggcggcau
aucuguuacacgacaacgcagguguccuaaggcgagcucagugggaucuc
acguggaacacaagcguaaaugcuugcuugauuaacgauuuccaguacga
aucgagacugcgaaagcaaggccagcgauccuuugcgaagaacaggaaau
augaacaaaucauaccagaggugucagaauaauuaccacagggauaacug
gcuuguggcggccaagcguucauagcgacgucgcuuuuugauccuucgau
gucggcucuuccuaaccuagcgccgcagaagacgcuaaggguuggauugu
ucacccacugacagggaacgugagcuggguuuagaccgucgugagacagg
uugguuuuacccuacuuggcuggagauugcgaguaaaagauuauccgcgc
aaagcggaggcaguccguuuuuuucugggucugccguuggguggcaugug
cuuggcgcu

......................<<......>>......<<<<<...>>>>
>........<<<<....<<<<.<<<<.<<.........<.....<<<<<.
....<..>......>>>>><<.<<<<<<<<<<<>>>>>..>>>>>>.>>.
.........<<<<<<<<<..<<<.........>>>..<<<<<<<....<<
<<.....>>>>......>>>>>>>...<<..<<<..<<<<<<.<..<<<.
...<<<<......>>>>....>>>>>>>>..>>>>><<<<<<.......>
>>>>>........<...........<<<<<.......>>>>>.....>..
...>>....>>.>>>>>>>..>..>>.>>>>>>>>.>>>>..........
..<<<<<........>>>>>..<<<<<<<..<<<.<<......<<<<.<<
<<<<..<<<<<.<<<<<<<...<<<.<<<<<<....>>>>>>.>>>...<
<<<<.....<<<<....<<<......<<<<<<<......>>>>>>>>>>.
....<..<...>..>...................<<<.<<..>>.>>>..
.>>>>...>>>>>.......>>>>>>>..>>>>>...<<<.....>>>..
<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<..>>>
>>.....<<......>>....>>>>>>>...<<...<<<<<.......>>
>>>..>>.<<<....>>>.>>.........<<<<<..............<
<<<.......>>>>.>>>>>..........>>>>..>>>>>>.......<
<.<.<.<<<<<<...<<.......>>...>>>>>>...>>.>.>......
.<<<<<.<<<<<<..<<<<<<<.<......>.>>>>..>>>.<<<.....
....>>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>
>>....>>..>>>.>>>>>>>.......................<<<<..
...>>>>...<<<...........>>>..........<..<.<.......
>.>.>....

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8ove A single pseudouridine on rRNA regulates ribosome structure and function in the mammalian parasite Trypanosoma brucei.
• Resolution: 2.6 Å
• Binding residue (original residue number in PDB): F40 V41 R43 K45 I49 R51 Y55 R57 L59 R61 F62 R64 K74 R76 V77 R80 R81 D96 R97 R229 A233 R234 L236 R238 L253 R254 S255 R260 K261 R263
• Binding residue (residue number reindexed from 1): F5 V6 R8 K10 I14 R16 Y20 R22 L24 R26 F27 R29 K39 R41 V42 R45 R46 D61 R62 R186 A190 R191 L193 R195 L210 R211 S212 R217 K218 R220

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000470 maturation of LSU-rRNA
• GO:0006412 translation

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8ove, PDBe:8ove, PDBj:8ove
• PDBsum: 8ove
• PubMed: 37985661
• UniProt: Q57VM1