Structure of PDB 8rxx Chain LM Binding Site BS02

Receptor Information

>8rxx Chain LM (length=203) Species: 347515 (Leishmania major strain Friedlin)

GAFMYLNELWKKKSSDVMRFIQRIRSWEFRHQHTVVRLRRPTRPEKARML
GYKTKQGFCVFRVRVRRGGRKRPVHKGITYGKPKTSGVLGMKLNKNNQAV
AEQRLGKRFGNLRVLNSYWVNMDSTFKWYEVIAVDPMCKTIRRDPRINWI
VNSVHKHREQRGLTSAGRKHRGLRHKGHKASKLRPSYRAAWRRNNRIVFL
RKR

Ligand information

>8rxx Chain L2 (length=1149)

cccaacugcagaccguacucaucaccgcaucagguccccaagcauagaau
gcucugguacauagagaaagguacacucagggaagucggcaaaauagaug
cguaaguucgcaagaagcauuggcucugagggcaaaaaauugccaacuca
gaacugcuuacggcggggaauccaacuguauaauuaaaacauagguuugu
gaugcauccaagugguguauaucgcaaacugauuucugcccagugcucug
gucaacgugacgagauucaccgacgcgcggguaaacggcgggaguaacua
ugacucucuuaagguagccaaaugccucgucuuccaauuagagacgcgca
ugaauggauuaaugagauucccucugucccgaguuacuaucuagcgaaac
gacagucaagggaacggacuugaagggcuaagcggggaaagaagacccug
uugaguuugacuccagucuggcucugugcggcgacaucugaggcucggaa
cguugcuucacuuaucgaaugaagagaccaauggguuuagcguagucuuc
gggcuaugcaccgucuagguuugggaguccccuguggguacccaaccgug
cuguaaacugaaccaacgggaucaguuccggagucuuguuucgagacacu
gccagauggggaguuuggcuggggcggcauaucuguuacacgacaacgca
gguguccuaaggcgagcucagugggaacagaaaucucacguagaacacaa
gcguaaaagcuugcuugauuaacgauuuccaguacgaaucgagacugcga
aagcaaggccagcgauccuuugcgaagaauaggaaauaugaacaaaucau
accagaggugucagaauaauuaccacagggauaacuggcuuguggcggcc
aagcguucauagcgacgucgcuuuuugauccuucgaugucggcucuuccu
aaccuagcgccgcagaagacgcuaaggguuggauuguucacccacugaca
gggaacgugagcuggguuuagaccgucgugagacagguugguuuuacccu
acuuagcuggaaauugcgagaaaaagauuauccgugcaaagcggacgucg
ggucguugggccuggcgagcgguggguaguacaugguacgcucaucacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8rxx Structural and mechanistic insights into the function of Leishmania ribosome lacking a single pseudouridine modification.
• Resolution: 2.97 Å
• Binding residue (original residue number in PDB): R24 R31 R67 G69 K72 P74 H76 K77 I79 T80 G82 P84 V89 L90 S125 T126
• Binding residue (residue number reindexed from 1): R23 R30 R66 G68 K71 P73 H75 K76 I78 T79 G81 P83 V88 L89 S124 T125

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:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8rxx, PDBe:8rxx, PDBj:8rxx
• PDBsum: 8rxx
• PubMed: 38722744
• UniProt: Q4Q6S3