Structure of PDB 8fkp Chain NN Binding Site BS01

Receptor Information

>8fkp Chain NN (length=244) Species: 9606 (Homo sapiens)

SGRSRHQKRARAQAQLRNLEAYAANPHSFVFTRGCTGRNIRQLSLDVRRV
MEPLTASRLQVRKKNSLKDCVAVAGPLGVTHFLILSKTETNVYFKLMRLP
GGPTLTFQVKKYSLVRDVVSSLRRHRMHEQQFAHPPLLVLNSFGPHGMHV
KLMATMFQNLFPSINVHKVNLNTIKRCLLIDYNPDSQELDFRHYSIKVVP
VPDGDHNITEQQSAVRLTEIGPRMTLQLIKVQEGVGEGKVMFHS

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): G5 R6 S7 H9 Q10 K11 R14 A17 N21 C38 T39 R44 K66 G78 P79 T91 T93 Y96 R119 S123 R127 H128 R129 H131 E132 K200 H298
• Binding residue (residue number reindexed from 1): G2 R3 S4 H6 Q7 K8 R11 A14 N18 C35 T36 R41 K63 G75 P76 T88 T90 Y93 R116 S120 R124 H125 R126 H128 E129 K197 H243

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006364 rRNA processing

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0030687 preribosome, large subunit precursor

External links

• PDB: RCSB:8fkp, PDBe:8fkp, PDBj:8fkp
• PDBsum: 8fkp
• PubMed: 37410842
• UniProt: Q9NQ55|SSF1_HUMAN Suppressor of SWI4 1 homolog (Gene Name=PPAN)