Structure of PDB 8fku Chain NI Binding Site BS01

Receptor Information

>8fku Chain NI (length=598) Species: 9606 (Homo sapiens)

GGFQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSG
KTACFLLPMFERLKTHSAQTGARALILSPTRELALQTLKFTKELGKFTGL
KTALILGGDRMEDQFAALHENPDIIIATPGRLVHVAVEMSLKLQSVEYVV
FDEADRLFEMGFAEQLQEIIARLPGGHQTVLFSATLPKLLVEFARAGLTE
PVLIRLDVDTKLNEQLKTSFFLVREDTKAAVLLHLLHNVVRPQDQTVVFV
ATKHHAEYLTELLTTQRVSCAHIYSALDPTARKINLAKFTLGKCSTLIVT
DLAARGLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPD
EIPYLLDLHLFLGRSLTLARPLKEPSGVAGVDGMLGRVPQSVVDEEDSGL
QSTLEASLELRGLARVADNAQQQYVRSRPAPSPESIKRAKEMDLVGLGLH
PLFSSRFEEEELQRLRLVDSIKNYRSRATIFEINASSRDLCSQVMRAKRQ
KDRKAIARFQQGQQGRQEQQEGPDQEFYIPYRPKAFEQQAAGAVLDLMGD
EAQNLTRGRQQLKWDRKKKRFKKIKTESGRYISSSYKRDLYQKWKQKQ

Ligand information

>8fku Chain L3 (length=2185)

gcgaccucagaucagacguggcgacccgcugaaagcauauuagucagcgg
aggagaagaaacuaaccaggauucccucaguaacggcgagugaacaggga
agagcccagcgccgaauccccgccccgggggcgcgggacauguggcguac
ggaagacccgcuccccggcgccgcucguggggggcccaaguccuucugau
cgaggcccagcccguggacggugugaggccgguagcggcccccggcgcgc
cgggcccgggucuucccggagucggguugcuugggaaugcagcccaaagc
gggugguccaucuaaggcuaaauaccggcacgagaccgauagucaacaag
uaccguaagggaaaguugaaaagaacuuugaagagagaguucaagagggc
gugaaaccguuaagaggaacgggugggguccgcgcaguccgcccggagga
uucaacccggcggcggccgccgccgggcgcauuuccaccgcggcggugcg
ccgcgaccggcuccgggacggcugggaaggcccggcggggaagguggcuc
gggcccgaguguuacagcccccccggcagcagcacucgccgaaucccggg
gccgagggagcgccgcgcucuccggccgggccaggccacggagcgcacgg
ggucggcggcgacgucggcuacccacccgacccgucuugaaacacggacc
aaggagucuaacacgugcgcgagucgggggcucgcacgaaagccgccgug
gcgcaaggugggaucccgaggcccgccgagggcgcaccaccggcccgucu
cgcccggggagguggagcacgagcgcacguguuaggacccgaaagauggu
gaaaccaucuaguagcugguucccuccgaaguuucccggauagcuggcgc
ucuccgcaguuuuauccgguggguaagaagcccggcucgagccgggcgug
gaaugcgagugccuagugggccacuuuugguaagcagaacuggcgcugcg
ggaugaaccgaacgccggguuaaggcgcccgaugccgacgcucaucagac
cccagaaaagguguugguugauauagacagcaggacgguggccauggaag
ucggaauccgcuaaggaguguguaacaacucaccugccgaaucaacuagc
ccugaaaauggauggcgcuggagcgucgggcccauacccggccgucgccg
gcagucacgcuacgccgcgacgaguaggagggccgcugcggugagccuug
aagccuagggcgcgggcccggguggagccgccgcaggugcagaucuuggu
gguaguagcaggggcgauggccuccggcccucgcggagaugggcgccgcg
aggcguccagugaaucucgcauguagguaagggaaguacugucccuaccu
acuauccagcgaaaccacagccaagggaacgggcuuggcggaaucagcgg
ggagaagacccuguugagcuugacucuagucuggcacggugaagagacau
gagagguguagaauaagugggaggcggccgccggugaaauaccacuacuc
ugaucguuuuuuccagugccagguggggaguuauccuucugaccuuuugg
guuuuaagcaggaggugucagaaaaguuaccacagggauaacuggcuugu
ggcggccaagcgcgacgucgcuuuuugaugaugucggcucuuccuaucau
ugugaagcagaauucaccaagcguuggauuguucacccacuaauagggaa
cgugagcuggggucgugagaccccuacugaugguuguugccaugguaauc
cugcucaguacgagaggaaccgcagguucagacauuugguggugcuuggc
ugaggagccaauggggcgaagcuaccaucugugggauuaugacugaacgc
cucuaagucagaaucccgcccaggcggaacgauaagcgccgcggagccuc
gguuggccucggauagccgguccccgggguccggugcggagugcccuucg
uccugggaaacggggcgcggccggagaggcggccgcccccucgcccguca
cgcaccgcacguucguggggaaccuggcgcuaaaccauucguagacgacc
ugcuucugggucgggguuucguacguagcagagcagcucccucgcugcga
ucuauugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fku Principles of human pre-60 S biogenesis.
• Resolution: 2.82 Å
• Binding residue (original residue number in PDB): D445 N579 D584 S587 F604 T753 E754 S755 Y763
• Binding residue (residue number reindexed from 1): D350 N484 D489 S492 F509 T576 E577 S578 Y586

Enzymatic activity

• Enzyme Commision number: 3.6.4.13: RNA helicase.

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003714 transcription corepressor activity
• GO:0003723 RNA binding
• GO:0003724 RNA helicase activity
• GO:0004386 helicase activity
• GO:0005102 signaling receptor binding
• GO:0005524 ATP binding
• GO:0016787 hydrolase activity
• GO:0016887 ATP hydrolysis activity
• GO:0030331 nuclear estrogen receptor binding

Biological Process

• GO:0006364 rRNA processing
• GO:0006396 RNA processing
• GO:0016070 RNA metabolic process
• GO:0030520 estrogen receptor signaling pathway
• GO:0045892 negative regulation of DNA-templated transcription

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005794 Golgi apparatus
• GO:0016020 membrane

External links

• PDB: RCSB:8fku, PDBe:8fku, PDBj:8fku
• PDBsum: 8fku
• PubMed: 37410842
• UniProt: Q8TDD1|DDX54_HUMAN ATP-dependent RNA helicase DDX54 (Gene Name=DDX54)