Structure of PDB 8ovj Chain m Binding Site BS01

Receptor Information

>8ovj Chain m (length=51) Species: 347515 (Leishmania major strain Friedlin)

VMEPTLVALAKKYNWEKKVCRRCYARLPVRATNCRKKACGHCSNLRMKKK
L

Ligand information

>8ovj Chain 1 (length=1611)

cagaccugaguguggcaggacuacccgccgaacuuaagcauauuacucag
cggaggaaaagaaaacaaccgugauucucucagugagcggcgagcgaaga
gggaacgaacucguugccgaaucgggucuuacaaggccuugaguuguggc
acgugugguuggugcaggaguggcgaaauucaagcgaaaagcaaacccgu
ugcugaauacaacccuucaugugaguauugagccaaagaagguguuagcc
cauugagccauaaaccugagcgccucaugaacaagcgaguagcacuguuu
gggaaugcagugucaaguggcagguauuugucugccaaaguuaaauacag
aguaggaagaccgauagcgaacaaguagcgugagcgaaaguuugaaaagc
acuuuggaaagagagugaaauagaaccugaagucgugacaaagacaaugg
aaguaccuccauuucaacggccagaaccagcccuacugcauuauccuguc
ggggaucaaaauccggcgggcaacgaagugcaagaaugggucuuggugaa
augagcggaguauuugugcugcgcacggcggccgcacgcacugguuucuu
cuccgugaugcuccauguuggcgauggaaauggggugcccccacccgucu
ugaaacacggaccaaggagucaaacagacgcgcaagggaggagauaugcc
aguacuucucucguacugaaagggagaugcaaaaugcaucuguggugugc
acacgucaaauccguuugauuugcccaacaccgaccggcccuccgugggu
ugcguuggagugugccuguuuggacccgaaagguggugaacuaugccuga
acaaggugaagcccggggaaacccagguggaggccuguagcgaugcugac
gugcaaaucgcucguaugauuuggguaucggagcgaaagacucaucgaac
caccuaguagcugguucacaucgaaguuucccucaggauagcuggugcua
guagaaguauugugcgguaaagcaaaugauuagaggcgaccuauucucaa
acuuuaaaugugcaaacaaaccggccuuagccaacugcaaggccggaaag
aaaagaauuagaggcaccaagugggccuucuucgguaagcggagcaggcg
augcggaaugaaccgcuuagggauauguggcgucaaaacuuaugggcuca
uucucgauacgugaaaaggguugguggauccaccggccccgaaaauggau
gacgcuuaagcccaauuagugauugcccauuauuccuuugguaagggcgg
aaacaaaggagaaaguguagcccuuccgauguagauguggccuggagguu
aggacgaagcuuauggcgugagccuaagauggaccggccucuagugcaga
ucuugguuggcguagcaaagaucuaacggagauauacucaacaugcaacg
uuggauacuggagcggggaaggauuucgugccaacggcacucguacacga
guuguucggaaacugagcacaacguuauaucguuuuguuaggaaagugaa
ggaacugaaaaggggcaacagagaaccugggauuauauuccaaaaagaaa
uugcauguggg

.......................<<<<<......<......>.......>
>>>.>.........<<....>>..<<<<<<......<<.....>>....>
>>>>>...<<<...<<<<<..<<<<<<<......>>>>>.>>....>>>>
>..<<<<...<<<<<<<<.<<<<<......<<<......<<<<.......
>>>>.....<<........>>......>>>.<<.......((.....>>)
).....>>>>>...>>>..>>>>>.>>>>............<<<<<<<..
......>>>>>>>.....<<<<<........>>>>>..>>>.........
...........................<<....>>...............
.<<<<....>>>>..................................<<<
..<<<<<<.<<<<<...<<.<<<<.<<<<<<<<....<<<<<..<<<<<<
<<<........>>>>>>>>>.....>>.>>>......>>>>..>>>>...
.....<<<<<.....<.<<<<.<<.<<<<.>>>>...>>.>.>>>..>..
>>>>>.....<<<<...>>>>>>....>>>>>>>>>>>..>>>.<<<<..
......>>>><<<<<<....<<<<<<<.<<<<<..<<<<..<<.<.....
...>>>..>>>>...<<....>>..<<<<<.....>>>>>...<<<<<..
.<<.<<<<<<....>>>>>>.>>....>>>>><<<<<<<<<.....>>>>
>>.>>>...>>>>>.>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<
<..<<<....<<<.<<<....>>>.>>>.....>>>...<<<<.<<.<<.
.......>>>>>>>>....>>>>>>>>>...<<.......>>......>>
>>>>...>..>.>>...<<<<<....<.<<<....>>>.><<<<<<<<<.
....<<...<<<<<<....<<<....<<<..<.<<<...>>>.>..>>>.
.>.>>....>>>>>>.....<<<<<<<<.<<.....>>>>>>>>>>....
.......>>...>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>.
..<<<<......>>>>..<<<<<<<...<<<(((......<..<<<<...
.....<...........<<<<<<<<<<..>>>>>>>>>>...........
))).>....>>>>.>.........>>>...>>>>>>><<<<.<<<<<...
.......>>>>.........>>>>>>>>>....>>>>>..<.<<<<<<<<
........<<<<..<<<....>>>.>>>.>.....>>>>>>>>..>....
.>>>>>>..............<<<<<<<....................>>
>>>>>....................<<<<<....<<.....>>..>>>>>
....<<..........<<.<<<<<......>>>>...............<
<...>>......>.>>..........<<<<.........>>....>>.>>
...........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8ovj Structural and mechanistic insights into the function of Leishmania ribosome lacking a single pseudouridine modification.
• Resolution: 2.4 Å
• Binding residue (original residue number in PDB): K113 A114
• Binding residue (residue number reindexed from 1): K37 A38

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0031386 protein tag activity
• GO:0031625 ubiquitin protein ligase binding

Biological Process

• GO:0006412 translation
• GO:0016567 protein ubiquitination
• GO:0019941 modification-dependent protein catabolic process

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8ovj, PDBe:8ovj, PDBj:8ovj
• PDBsum: 8ovj
• PubMed: 38722744
• UniProt: P69201|RL40_LEIMA Ubiquitin-ribosomal protein eL40 fusion protein (Gene Name=UB-EP52)