Structure of PDB 8fl0 Chain ND Binding Site BS01

Receptor Information

>8fl0 Chain ND (length=270) Species: 9606 (Homo sapiens)

VVKPKTKRAKRFLEKREPKLNENIKNAMLIKGGNANATVTKVLKDVYALK
KPYGVLYKKKNITRPFEDQTSLEFFSKKSDCSLFMFGSHNKKRPNNLVIG
RMYDYHVLDMIELGIENFVSLKDIKNSKCPEGTKPMLIFAGDDFDVTEDY
RRLKSLLIDFFRGPTVSNIRLAGLEYVLHFTALNGKIYFRSYKLLLKKSG
CRTPRIELEEMGPSLDLVLRRTHLASDDLYKLSMKMPKALKPKKKKNISH
DTFGTTYGRIHMQKQDLSKL

Ligand information

>8fl0 Chain L3 (length=1558)

aguccgcccggaggauucaacccggcggcggccggccgugucggccgacc
ggcgaccggccgccgccgggcgcauuuccaccgcggcggugcgccgcgac
cggcuccgggacggcugggaaggcccggcggggaagguggcucgggcccg
aguguuacagcccccccggcagcagcacucgccgaaucccggggccgagg
gagucgccgcgcucuccccccggggggccgggccaccccucccacggcgc
gcgccgucgggcccggggggccacgcgcgcgucccccgaagagggggacg
gcggagcgcacggggucggcggcgcuaacacgugcgcgagucgggggcgc
cgccguggcgcggugggaucccgaggccgccgagggcgcaccaccggccc
gucucggagguggagcacgagcgcacguguuagcccuccgaaguuucccu
caggauagcuggcgcucuccgcaguuuuauccgggguaagaagcccggcu
cgcuggcguggagccgggcguggaaugcgagugccuaguggccacuuuug
guaagcagaacuggcgcgggaugaaccgaacgccggguuaaggcgcccga
ugccgacgcucaucagaccccagaaaagguguugguugauauagacagca
ggacgguggccauggaagucggaauccgcuaaggaguguguaacaacuca
ccugccgaaucaacuagcccugaaaaauggcgcuggagcgucgggcccau
acccggccgucgccggcaguacgcuacgccgcgacgaguaggagggccgc
ugcggugagccuugaagccuagggcgcgggcccggguggagccgccgcag
gugcccuguugagcuugacucuagucgguggggaguuugggcgguacacc
uagguguccuaaggcgagcucagggaggacagaaaccucccguggagcag
aagggcaaaagcucgcuugaucuugauuuguacgaauacagaccgugaaa
gcggggccuaaguuaccacagggaggcuuguggcggccaagcgagcgacg
ucgcuuuuugauccuucgaugucggcucuuccuaucauugugaagcagaa
uucaccaagcguuggauuguucacccacuaauagggagcuggguuuagac
cgucgugagacagguuaguguuguugccaugguaauccugcucaguacga
gaggaaccgcagguucagacauuugguguaugugcuggggcgaagcuacc
aucugugggauuaugacugaacgccucuaagucagaaucccgcccaggcg
gaacgauagcgccgcggagccucgguuggccucggauagccgguccccgg
gguccggugcggagugcccuucguccugggaaacggggcgcggccggaga
ggcggccgcccccucgcccgucacgcaccgcacguucguggggaaccugg
cgcuaaaccauucguagacgaccugcuucugggucgggguuucguacgua
gcagagcagcucccucgcugcgaucuauugaaagucagcccucgacacaa
ggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fl0 Principles of human pre-60 S biogenesis.
• Resolution: 2.91 Å
• Binding residue (original residue number in PDB): P10 K11 R14 R17 F18 Y63 K65 N67 F80 F81 K84 K249
• Binding residue (residue number reindexed from 1): P4 K5 R8 R11 F12 Y57 K59 N61 F74 F75 K78 K243

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0005515 protein binding
• GO:0008097 5S rRNA binding
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0000470 maturation of LSU-rRNA
• GO:0006364 rRNA processing
• GO:0042254 ribosome biogenesis
• GO:0042273 ribosomal large subunit biogenesis
• GO:1901796 regulation of signal transduction by p53 class mediator
• GO:1902570 protein localization to nucleolus

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005694 chromosome
• GO:0005730 nucleolus

External links

• PDB: RCSB:8fl0, PDBe:8fl0, PDBj:8fl0
• PDBsum: 8fl0
• PubMed: 37410842
• UniProt: Q9H7B2|RPF2_HUMAN Ribosome production factor 2 homolog (Gene Name=RPF2)