Structure of PDB 8fkp Chain LS Binding Site BS02

Receptor Information

>8fkp Chain LS (length=122) Species: 9606 (Homo sapiens)

AKIKARDLRGKKKEELLKQLDDLKVELSQLRVAKVTGGAASKLSKIRVVR
KSIARVLTVINQTQKENLRKFYKGKKYKPLDLRPKKTRAMRRRLNKHEEN
LKTKKQQRKERLYPLRKYAVKA

Ligand information

>8fkp Chain L3 (length=1507)

gcgaccucagaucagacguggcgacccgcuggcauauuagucagcggagg
agaagaaacuaaccaggauucccucaguaacggcgagugaacagggaaga
gcccagcgccgaauccccgccccgggggcgcgggacauguggcguacgga
agacccgcuccccggcgccgcucguggggggcccaaguccuucugaucga
ggcccagcccguggacggugugaggccgguagcggcccccggcgcgccgg
gcccgggucuucccggagucggguugcuugggaaugcagcccaaagcggg
ugguccaucuaaggcuaaauaccggcacgagaccgauagucaacaaguac
cguaagggaaaguugaaaagaacuuugaagagagaguucaagagggcgug
aaaccguuaagaggacgggugggguccgcgcaguccgcccggaggauuca
acccggcggcggccgccgccgggcgcauuuccaccgcggcggugcgccgc
gaccggcuccgggacggcugggaaggcccggcggggaagguggcucgggc
ccgaguguuacagcccccccggcagcagcacucgccgaaucccggggccg
gcggcgacgucggcuacccacccgacccgucacggaccaaggagucuaac
acgugcgcgagucgggggcucgcacgaaagccgccguggcgcaagguggg
aucccgaggccaguccgccgagggcgcaccaccggccgcacgagcgcacg
uguuaggacccgaagcugguucccuccgaaguuucccucaggauagcugg
cgcucucgcaguuuuauccgggguaagaagccggcguggaaugcgagugc
cuagugggccacuuuuagaacuggcgcugcgggaugaaccgaacgccggg
uuaaggcgcccgaugccgacgcucggcgcuggagcgucgggcccauaccc
ggccgucgccggcagucgagaguggacggcgcggacgcuacgccgcgacg
aguaggagggccgcugcggugagccuugaagccuagggcgcgggcccggg
uggagccgccgcaggugcagaucuuggugguaguagcaauguuggaacaa
uguaggaccuacuauccagcgaaaccucagcacugaugaguuguugccau
gguaauccugcucaguacgagaggaaccgcagguucagacauuuggugua
ugugcuuggcugaggagccaauggggcgaagcuaccaucugugggcccgc
ccaggcggaacgauagcgccgcggagccucgguuggccucggauagccgg
uccccgggguccggugcggagugcccuucguccugggaaacggggcgcgg
ccggagaggcggccgcccccucgcccgucacgcaccgcacguucgugggg
aaccuggcgcuaaaccauucguagacgaccugcugggucgggguuucgua
cguagcagagcagcucccucgcugcgaucuauugaaagagcccucgacac
gguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fkp Principles of human pre-60S biogenesis
• Resolution: 2.85 Å
• Binding residue (original residue number in PDB): K77 Y78 R84 R89 R93 H98 K106 R109 R112
• Binding residue (residue number reindexed from 1): K76 Y77 R83 R88 R92 H97 K105 R108 R111

Gene Ontology

Molecular Function

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

Biological Process

• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fkp, PDBe:8fkp, PDBj:8fkp
• PDBsum: 8fkp
• PubMed: 37410842
• UniProt: P42766|RL35_HUMAN Large ribosomal subunit protein uL29 (Gene Name=RPL35)