Structure of PDB 8oj8 Chain LI Binding Site BS01

Receptor Information

>8oj8 Chain LI (length=202) Species: 9606 (Homo sapiens)

GRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLGGH
MVSDEYEQLSSEALEAARICANKYMVKSCGRDGFHIRVRLHPFHVIRINK
MGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNEEHVIEALRRAKFKFPGR
QKIHISKKWGFTKFNADEFEDMVAKKCLIPDGCGVKYVPSHGPLDKWRVL
HS

Ligand information

>8oj8 Chain 5 (length=3515)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggcggggcgcgggacau
guggcguacggaagacccgcuccccggcggggggcccaaguccuucugau
cgaggcccagcccguggacggugugaggccgguagcggcccccggcgcgc
cgggcccgggucuucccggagucggguugcuugggaaugcagcccaaagc
gggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauaguca
acaaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaag
agggcgugaaaccguuaagagguaaacgggugggguccgcgcaguccgcc
cggaggauucaacccggcggcggguccggccgugucggcgcggcggaucu
uucccggcgggggaccgucccccgaccggcgaccggccgccgccgggcgc
auuuccaccgcggcggugcgccgcgaccggcuccgggacggcugggaagg
cccggcggggaagguggcucgggggcccccgaguguuacagcccccccgg
cagcagcacucgccgaaucccggggccgagggagcgagacccgucgccgc
gcucuccccccggggggccgggccaccccucccacggcgcgaccgcucgg
ggcggacuguccccagugcgccccgggcgggucgcgccgucgggcccggg
gggccacgcgcgcgucccccgggggacggcggagcgagcgcacggggucg
gcggcgacgucggcuacccacccgacccgucuugaaacacggaccaagga
gucuaacacgugcgcgagucgggggcucgcacgaaagccgccguggcgca
augaaggugaaggccggcgccggccgaggugggaucccgaggccucucca
guccgccgagggcgcaccaccggcccgucucgcgggagguggagcacgag
cgcacguguuaggacccgaaagauggugaacuaugccugggcagggcgaa
gccagaggaaacucugguggagguccguagcgguccugacgugcaaaucg
gucguccgaccuggguauaggggcgaaagacuaaucgaaccaucuaguag
cugguucccuccgaaguuucccucaggauagcuggcgcucucgcagaccc
gacgcaguuuuauccgguaaagcgaaugauuagaggucuuggggccgaaa
cgaucucaaccuauucucaaacuuuaaauggguaagaagcccggcucgcu
ggcguggagccgggcguggaaugcgagugccuagugggccacuuuuggua
agcagaacuggcgcugcgggaugaaccgaacgccggguuaaggcgcccga
ugccgacgcucaucagaccccagaaaagguguugguugauauagacagcg
ccgaaucaacuagcccugaaaauggauggcgcuggagcgucgggcccaua
cccggccgucgccggcagucgagaguggacgggagccccgcggacgcuac
gccgcgacgaguaggagggccgcugcggugagccuugaagccuagggcgc
gggcccggguggagccgccgcaggugcagaucuuggugguaguagcaaau
auucaaacgagaacuuugaaggccgaaguggagaaggguuccaugugaac
agcaguugaacaugggucagucgguccugagagaugggcgagcgccguuc
cgaagggacgggcgcccucggccgaucgaaagggagucggguucagaucc
ccgaauccggagcggagaugggcgccgcgaggcguccagugcgguaacgc
gaccgaucccggagaagccggcgggagccccggggagaguucucuuuucu
uugugaagggcagggcgcccuggaauggguucgccccgagagaggggccc
gugccuuggaaagcgucgcgguuccggcggcguccggugagcucucgcug
gcccuugaaaauccgggggagaggguguaaaucucgcgccgggccguacc
cauauccgcagcaggucuccaaggugaacagccucuggcauguuggaaca
auguagguaagggaagucggcaagccggauccguaacuucgggauaagga
uuggcucuaagggcugguagcagccgacuuagaacuggugcggaccaggg
gaauccgacuguuuaauuaaaacaaagcaucgcgaaggcccgcggcgggu
guugacgcgaugugauuucugcccagugcucugaaugucaaagugaagaa
auucaaugaagcgcggguaaacggcgggaguacucucuuaagguagccaa
augccucgucaucuaauuagugacgcgcaugaauggaugaacgagauucc
cacugucccuaccuacuauccagcgaaaccacagccaagggaacgggcuu
ggcggaaucagcggggaaagaagacccuguugagcuugacucuagucugg
cacggugaagagacaugagagguguagaauaagugggaggcccgccggug
aaauaccacuacucugauguuuuuucacugacccggugaggcgggggggc
gaucucgcuucuggcgccaagcgcccggccgcggccgggcgcgacccgcu
ccggggacagugccagguggggaguuugacuggggcgguacaccugucaa
acgguaacgcagguguccuaaggcgagcucagggaggacagaaaccuccc
guggagcagaagggcaaaagcucgcuugaucuugauuuucaguacgaaua
cagaccgugaaagcggggccucacgauccuucugaccuuuuggguuuuaa
gcaggaggugucagaaaaguuaccacagggauaacuggcuuguggcggcc
aagcguucauagcgacgucgcuuuuugauccuucgaugucggcucuuccu
aucauugugaagcagaauucaccaagcguuggauuguucacccacuaaua
gggaacgugagcuggguuuagaccgucgugagacagguuaguuuuacccu
acugaugauguguuguugccaugguaauccugcucaguacgagaggaacc
gcagguucagacauuugguguaugugcuuggcugaggagccaauggggcg
aagcuaccaucugugggauuaugacugaacgccucuaagucagaaucccg
cccaggcggaacgauacggcagcgccgcggagccucgguuggccucggau
agccgguccccgggguccggugcggagugcccuucguccugggaaacggg
gcgcggcuggaaaggcggccgcccccucgcccgucacgcaccgcacguuc
guggggaaccuggcgcuaaaccauucguagacgaccugcuucugggucgg
gguuucguacguagcagagcagcgcugcgaucuauugaaagucagcccuc
gacacaaggguuugu

.........................<<<<<<.....<......>......
>>>>>.>.........<<....>>..<<<<<<.....<<.....>>....
>>>>>>..<<<..<<<<<...<<<<<<<<<<.....>>>>>>.>>>>...
..>>>>>..<<<<<<<<<<...<<<<<<.<<<<<<<<....<<<<.....
.>>>>.....((......<<<.....))>>>...>.>>>>>>>.....>>
>>>>..>>>>>>>>>>.......<<<<<<<........>>>>>>>.....
<<<<<..((((((>>>>>..>>>...........................
.......<<....>>...............<<<<....>>>>........
..........................<<<<<<<<..<<<.<<...<<<<<
<<<.<<<.....<<<<<<<<<<<..<<<<<<<...<<<...<<<<<.<<<
..<<<...>>>>>>>>>>>..>>>..>>>>...>>>>>>>>>>>>>>...
...>>>.>>>.>>>>>...<<<<<<<.<<<<<<<<<<<<<<<...<<..<
<<..<.<<<<......<<<<<<<<..>>>>>>>>.......>>>>.>.>>
>........>>>>>>..>>>>>>>>>>>....................<<
<<<<.<<<<<..>>>>>.<<<<<<.<<<<.<<<<<<<<<<<<<<<<<<<<
<<<<.<<<<....>>>>.>>>>>>>>>>>.>>>>>>>>>>.>>>...>>>
>>>>>.>>..<<<<<<<<<..>>>>>>>.>>....>>>>>>......>>.
>>>>>...>>>>>...>>>>>>>>..<<<<........>>>><<<<<<..
..<<<<<<<<<<<<<..<<<...<<<<........>>>>.....>>>...
<<....>>...<<<<<<..>>>>>>..<<<<<...<<<..<<<..((((.
((((>>>..>>>....>>>>>.<<<<<<<<<....>>>>>>>.>>....>
>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<....
<<<<<<<....>>>>>>>.....>>>...<<<..<<.<<........>>>
>.>>>....>>>>>>>>>...<<.......>>......>>>>>>...>..
>.>>..<<<<<<....<.<<<....>>>.><<<<<<<<<<..........
...<<<.<<<<<<<<<...<<<....<<<..<.<<<..<<<<<<.<<...
>>.>>>>>>>>>.>..>>>..>.>>...>>>>>>>...<<<<<<<<<.<.
.....>>>>>>>>>>....>>>>>>>>>>>>.>>>..<<<<.<<<<<...
..>>>>>.>>>>....<<<......>>>...<<<<<<<...<<<(((...
....<<<<<.....<<..........<<<.<<<<<<<<<<.......<..
>...>>>>>>>>>>>>>..........))).>>...>>>>>..>>>...>
>>>>>><<<<<<.<<<..........)))).))))...............
>>>>>>>>>....>>>>>>...<<<<<<<<.<<......<<<<.<<<<..
..>>>>>>>>...>>>>>>>>>>........>>>>>><<.....<<....
.<<<<<<.......>>>>>>.<<<.....<<<<<.<<...<<<<<<...<
<.....>>.>>>>>>....((<<<<<<...<<....<<<....>>>....
......<<.<<<..>>>>>......>>....>>>..<<<<<........>
>>>>))<<<<.<<<<<..<<<<<<<<....>>>>>>>>..<<<....>>>
...<..<<<<<<<...<<<<<<<<<<<<.<<<<<<<<<<..[[[..>>>>
>>....<<<<<.<<<<.<<<<.....<<<.....>>>.....>>>>>>>>
..>>>>>.....<<<<<<<.......>>>>>>>>>>>...>>>>>>>>>>
>>.........>>>>>>>..>..........>>.>>>.>>>>.>>>..>>
.....<<......>>>>>>>.<<<<.....>>>>..>>>....<<<<...
..<<<<<<<.<<...............<<<<<....<<..>>.....>>>
>><<.<<<<<<<<<<<....>>>>>..>>>>>>.>>............<<
<<<<<<<..<<<.........>>>..<<<<<<<....<<<<.....>>>>
......>>>>>>>...<<..<<<..<<<<<<....<<<.....<<<<...
.>>>>.....>>>.>>>>..>>>>><<<<<..>>>>>........<....
.......<<<<<.......>>>>>.....>.....>>....>>.>>>>>>
>.....>>.>>>>>>>..>>>>>>....>>....<<<<<........>>>
>>....<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<<<<<<
<<<.<<<<<<<<<<<<.<<<<...........<..<<.............
.....>>..>.>>>>.>>>>>>>>>>>>...<<<<<.....<<<<..<<.
<..>>>..............<<<<<<<<<<..>>>>>>>>>>..>>>>..
>>>>>....>>>>>>>>>..>>>>>...<<<.....>>>..<<<<<<...
........>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>
.....<<.[.(((>>....>>>>>>>...<<<..<<<<.......>>>>.
.>>>.<<<....>>>.>>)))].....<<<<<<<..<<<..)))))).>>
>>>>>>>>.........>>>>..>>>>>>.......<<.<.<.<<<<<<.
..<<.......>>...>>>>>>...>>.>.>.......<<<<<.<<<<<<
..<.<.<<<<<......>>>>>...>.>.<<<.........>>>.....>
>>>>..>...>>>.>>....<<<<<<<....>>>.>>>>....>>..>>>
.>>>>>.....<<<<<<.<..<<<..<.<<<<<.................
>>>>>.><<<<....<<<<....<<.<<<<<<.]]]..>>>>..>>.>>.
..>>>>...>>>><<<<....<<<<<...........>>>>>....>>>>
.>>>...>.>>>>>>.....<<<<<<<.<<..<<<<....<<<.......
.<<<<<.<<<<>>>>.>>>>>.......>>>...<<<..<<<<....<<<
<.<<<<<<<......>>>>>>>>>>>...>>>>..>>>............
..>>>>..>>>>>>>>><<<<<.<.............>....<<.<<<<<
<<.<<.....<<<<.<..<<<<..>>>>..>>>>>....>>....>>>>.
>>>.>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8oj8 UFM1 E3 ligase promotes recycling of 60S ribosomal subunits from the ER
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): R3 R4 A6 R7 C8 K13 N14 K15 P16 Y17 F22 R24 D35 S61 E63 A64 R90 H92 F94 R98 M102 M115 R116 A118 F119 Q133 F157 K158 P160 D193 G194 K198
• Binding residue (residue number reindexed from 1): R2 R3 A5 R6 C7 K12 N13 K14 P15 Y16 F21 R23 D34 S60 E62 A63 R89 H91 F93 R97 M101 M103 R104 A106 F107 Q121 F145 K146 P148 D181 G182 K186

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006412 translation
• GO:0007141 male meiosis I
• GO:0007283 spermatogenesis
• GO:0030154 cell differentiation
• GO:0051321 meiotic cell cycle

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8oj8, PDBe:8oj8, PDBj:8oj8
• PDBsum: 8oj8
• PubMed: 38383785
• UniProt: Q96L21|RL10L_HUMAN Ribosomal protein uL16-like (Gene Name=RPL10L)