Structure of PDB 8fkv Chain LW Binding Site BS02

Receptor Information

>8fkv Chain LW (length=74) Species: 9606 (Homo sapiens)

KTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSAKAKRRNTTGTGR
MRHLKIVYRRFRHGFREGTTPKPK

Ligand information

>8fkv Chain L3 (length=2213)

gcgaccucagaucagacguggcgacccgcugaaagcauauuagucagcgg
aggagaagaaacuaaccaggauucccucaguaacggcgagugaacaggga
agagcccagcgccgaauccccgccccgggggcgcgggacauguggcguac
ggaagacccgcuccccggcgccgcucguggggggcccaaguccuucugau
cgaggcccagcccguggacggugugaggccgguagcggcccccggcgcgc
cgggcccgggucuucccggagucggguugcuugggaaugcagcccaaagc
gggugguccaucuaaggcuaaauaccggcacgagaccgauagucaacaag
uaccguaagggaaaguugaaaagaacuuugaagagagaguucaagagggc
gugaaaccguuaagaggaacgggugggguccgcgcaguccgcccggagga
uucaacccggcggcgccgggcgcauuuccaccgcggcggugcgccgcgac
cggcuccgggacggcugggaaggcccggcggggaagguggcucgggcccg
aguguuacagcccccccggcagcagcacucgccgaaucccggggccgguc
ggcggcgacgucggcuacccacccgacccgucuugaaacacggaccaagg
agucuaacacgugcgcgagucgggggcucgcacgaaagccgccguggcgc
aaggugggaucccgaggcccaguccgccgagggcgcaccaccggccgcac
gagcgcacguguuaggacccgaaagauggugaaaccaucuaguagcuggu
ucccuccgaaguuucccggauagcuggcgcucuccgcaguuuuauccggu
ggguaagaagccggcguggaaugcgagugccuagugggccacuuuuggua
agcagaacuggcgcugcgggaugaaccgaacgccggguuaaggcgcccga
ugccgacgcucaucagaccccagaaaagguguugguugauauagacagca
ggacgguggccauggaagucggaauccgcuaaggaguguguaacaacuca
ccugccgaaucaacuagcccugaaaauggauggcgcuggagcgucgggcc
cauacccggccgucgccggcagucgagaguggacggccgcggacgcuacg
ccgcgacgaguaggagggccgcugcggugagccuugaagccuagggcgcg
ggcccggguggagccgccgcaggugcagaucuuggugguaguagcauuca
aacgagaacuuugaaggccgaaguggagaaggggcgauggccuccggccc
ucgcggagaugggcgccgcgaggcguccagugaaucucgcccgcagcagg
ucuccggugaacagccucuggcaauguagguaagggaagucgggaauccg
auucccacugucccuaccuacuauccagcgaaaccacagccaagggaacg
ggcuuggcggaaucagcggggagaagacccuguugagcuugacucuaguc
uggcacggugaagagacaugagagguguagaauaagugggaggcggccgc
cggugaaauaccacuacucugaucguuuuuuccagugccagguggggagu
uauccuucugaccuuuuggguuuuaagcaggaggugucagaaaaguuacc
acagggauaacuggcuuguggcggccaagcgcgacgucgcuuuuugauga
ugucggcucuuccuaucauugugaagcagaauucaccaagcguuggauug
uucacccacuaauagggaacgugagcuggggaccgucgugagacagguuc
ccuacugaugguuguugccaugguaauccugcucaguacgagaggaaccg
cagguucagacauuugguggugcuuggcugaggagccaauggggcgaagc
uaccaucugugggauuaugacugaacgccucuaagucagaaucccgccca
ggcggaacgauaagcgccgcggagccucgguuggccucggauagccgguc
cccgggguccggugcggagugcccuucguccugggaaacggggcgcggcc
ggagaggcggccgcccccucgcccgucacgcaccgcacguucguggggaa
ccuggcgcuaaaccauucguagacgaccugcuucugggucgggguuucgu
acguagcagagcagcucccucgcugcgaucuauugaaagucagcccucga
cacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fkv Principles of human pre-60 S biogenesis.
• Resolution: 2.47 Å
• Binding residue (original residue number in PDB): T15 H16 H28 K31 R43 K44 R45 K46 Y47 N48 W49 K52 R55 R56 T58 T59 Y71 R75 K85
• Binding residue (residue number reindexed from 1): T2 H3 H15 K18 R30 K31 R32 K33 Y34 N35 W36 K39 R42 R43 T45 T46 Y58 R62 K72

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding
• GO:0097371 MDM2/MDM4 family protein binding
• GO:1990948 ubiquitin ligase inhibitor activity

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:1901798 positive regulation of signal transduction by p53 class mediator

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fkv, PDBe:8fkv, PDBj:8fkv
• PDBsum: 8fkv
• PubMed: 37410842
• UniProt: P61927|RL37_HUMAN Large ribosomal subunit protein eL37 (Gene Name=RPL37)