Structure of PDB 8fkv Chain NM Binding Site BS01

Receptor Information

>8fkv Chain NM (length=182) Species: 9606 (Homo sapiens)

MQSDDVIWDTLGNKQFCSFKIRTKTQSFCRNEYSLTGLCNRSSCPLANSQ
YATIKEEKGQCYLYMKVIERAAFPRRLWERVRLSKNYEKALEQIDENLIY
WPRFIRHKCKQRFTKITQYLIRIRKLTLKRQRKLVPLSKKVERREKRREE
KALIAAQLDNAIEKELLERLKQDTYGDIYNFP

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): W8 N13 K14 F16 S18 R22 Q26 S27 R30 C39 N40 R41 S42 R103 H107 R124 K125 P136 K139 K140 R143 K146 R147
• Binding residue (residue number reindexed from 1): W8 N13 K14 F16 S18 R22 Q26 S27 R30 C39 N40 R41 S42 R103 H107 R124 K125 P136 K139 K140 R143 K146 R147

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0005515 protein binding

Biological Process

• GO:0000460 maturation of 5.8S rRNA
• GO:0000470 maturation of LSU-rRNA

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0030687 preribosome, large subunit precursor
• GO:0043231 intracellular membrane-bounded organelle

External links

• PDB: RCSB:8fkv, PDBe:8fkv, PDBj:8fkv
• PDBsum: 8fkv
• PubMed: 37410842
• UniProt: Q9BXY0|MAK16_HUMAN Protein MAK16 homolog (Gene Name=MAK16)