Structure of PDB 8fkx Chain SJ Binding Site BS01

Receptor Information

>8fkx Chain SJ (length=219) Species: 9606 (Homo sapiens)

AVLQEEQANLWFSKGSFAGIEDDADEALEISQAQLLFENRRKGHRILDPE
GLALGAVIASSKKAKRDLIDNSFNRYTFNEDEGELPEWFVQEEKQHRIRQ
LPVGKKEVEHYRKRWREINARPIKKVAEAKARKKRRMLKRLEQTRKKAEA
VVNTVDISEREKVAQLRSLYKKAGLGKEKRHVTYVVAKKPAGVRGHFKVV
DSRMKKDQRAQQRKEQKKK

Ligand information

>8fkx Chain L3 (length=2250)

gcgaccucagaucagacguggcgacccgcugaaagcauauuagucagcgg
aggagaagaaacuaaccaggauucccucaguaacggcgagugaacaggga
agagcccagcgccgaauccccgccccgggggcgcgggacauguggcguac
ggaagacccgcuccccggcgccgcucguggggggcccaaguccuucugau
cgaggcccagcccguggacggugugaggccgguagcggcccccggcgcgc
cgggcccgggucuucccggagucggguugcuugggaaugcagcccaaagc
gggugguccaucuaaggcuaaauaccggcacgagaccgauagucaacaag
uaccguaagggaaaguugaaaagaacuuugaagagagaguucaagagggc
gugaaaccguuaagaggaacgggugggguccgcgcaguccgcccggagga
uucaacccggcggcggccgccgccgggcgcauuuccaccgcggcggugcg
ccgcgaccggcuccgggacggcugggaaggcccggcggggaagguggcuc
gggcccgaguguuacagcccccccggcagcagcacucgccgaaucccggg
gccgagggagcgccgcgcucuccggccgggccaggccacggagcgcacgg
ggucggcggcgacgucggcuacccacccgacccgucuugaaacacggacc
aaggagucuaacacgugcgcgagucgggggcucgcacgaaagccgccgug
gcgcaaggugggaucccgaggcccgccgagggcgcaccaccggcccgucu
cgcccggggagguggagcacgagcgcacguguuaggacccgaaagauggu
gaacuaugccgguauaggggcgaaagacuaaccaucuaguagcugguucc
cuccgaaguuucccggauagcuggcgcucuccgcaguuuuauccgguggg
uaagaagcccggcucgagccgggcguggaaugcgagugccuagugggcca
cuuuugguaagcagaacuggcgcugcgggaugaaccgaacgccggguuaa
ggcgcccgaugccgacgcucaucagaccccagaaaagguguugguugaua
uagacagcaggacgguggccauggaagucggaauccgcuaaggagugugu
aacaacucaccugccgaaucaacuagcccugaaaauggauggcgcuggag
cgucgggcccauacccggccgucgccggcagucacgcuacgccgcgacga
guaggagggccgcugcggugagccuugaagccuagggcgcgggcccgggu
ggagccgccgcaggugcagaucuuggugguaguagcauucaaacgagaac
uuugaaggccgaggggcgauggccuccggcccucgcggagagugaaucuc
gcuggcaauguagguaagggaagucgggaauccgauucccacugucccua
ccuacuauccagcgaaaccacagccaagggaacgggcuuggcggaaucag
cggggagaagacccuguugagcuugacucuagucuggcacggugaagaga
caugagagguguagaauaagugggaggcggccgccggugaaauaccacua
cucugaucguuuuuuccagugccagguggggaguuauccuucugaccuuu
uggguuuuaagcaggaggugucagaaaaguuaccacagggauaacuggcu
uguggcggccaagcgcgacgucgcuuuuugaugaugucggcucuuccuau
cauugugaagcagaauucaccaagcguuggauuguucacccacuaauagg
gaacgugagcuggggaccgucgugagacagguuagucccuacugaugguu
guugccaugguaauccugcucaguacgagaggaaccgcagguucagacau
uugguggugcuuggcugaggagccaauggggcgaagcuaccaucuguggg
auuaugacugaacgccucuaagucagaaucccgcccaggcggaacgauaa
gcgccgcggagccucgguuggccucggauagccgguccccgggguccggu
gcggagugcccuucguccugggaaacggggcgcggccggagaggcggccg
cccccucgcccgucacgcaccgcacguucguggggaaccuggcgcuaaac
cauucguagacgaccugcuucugggucgggguuucguacguagcagagca
gcucccucgcugcgaucuauugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fkx Principles of human pre-60 S biogenesis.
• Resolution: 2.59 Å
• Binding residue (original residue number in PDB): R691 R715 A736 R737 R776 K778 Q781 R783 K787 V798 Y800 D825 S826 R827 K829 K830 D831 Q832 R833
• Binding residue (residue number reindexed from 1): R75 R99 A120 R121 R160 K162 Q165 R167 K171 V182 Y184 D201 S202 R203 K205 K206 D207 Q208 R209

Enzymatic activity

• Enzyme Commision number: 2.1.1.-

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0005515 protein binding
• GO:0008168 methyltransferase activity
• GO:0008649 rRNA methyltransferase activity
• GO:0008650 rRNA (uridine-2'-O-)-methyltransferase activity
• GO:0016435 rRNA (guanine) methyltransferase activity
• GO:0062105 RNA 2'-O-methyltransferase activity

Biological Process

• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0000466 maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0001510 RNA methylation
• GO:0006364 rRNA processing
• GO:0031167 rRNA methylation
• GO:0032259 methylation
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005694 chromosome
• GO:0005730 nucleolus
• GO:0030687 preribosome, large subunit precursor
• GO:0030688 preribosome, small subunit precursor

External links

• PDB: RCSB:8fkx, PDBe:8fkx, PDBj:8fkx
• PDBsum: 8fkx
• PubMed: 37410842
• UniProt: Q8IY81|SPB1_HUMAN pre-rRNA 2'-O-ribose RNA methyltransferase FTSJ3 (Gene Name=FTSJ3)