Structure of PDB 8esq Chain D Binding Site BS01

Receptor Information

>8esq Chain D (length=427) Species: 4896 (Schizosaccharomyces pombe)

IEKFSDLQLSENIQKAIKEMGFETMTEIQKRSIPPLLAGRDVLGAAKTGS
GKTLAFLIPTIEMLYALKFKPRNGTGVIIISPTRELALQIFGVAKELLKY
HHQTFGIVIGGANRRAEADKLVKGVNLLVATPGRLLDHLQNTKGFVFRNL
RSLVIDEADRILEIGFEDEMRQIMKILPSENRQTLLFSATQTTKVEDLAR
ISLKPGPLYVNVDEQGYVVVDSDKRFLLLFSFLKRNLKKKVIVFMSSCAS
VKYMAELLNYIDLPVLDLHGKQKQQRRTNTFFEFCNAEKGILLCTNVAAR
GLDIPAVDWIVQYDPPDDPRDYIHRVGGKSLMFLAPSELGFLRYLKTAKV
SLNEFEFPANKVANVQSQLEKLVSKNYYLQQSAKDGYRSYLQAYASYSLK
SIFDINKLDLAKVAKSFGFAHPPNVNI

Ligand information

>8esq Chain 1 (length=2230)

uugaccucaaaucagguaggacuacgcgcugaacaauaagcgcaggaaaa
gaaaauaaccaugauucccucaguaacggugaagcgggaaaagcucaaau
uugaaaucuggcaacauuucuuuuguuguccgaguuguaauuucaagaag
cugcuuugaguguagacgaucggucuaaguuccuuggaacaggacgucag
agagggugagaaccccgucuuuggucgauuggauaugccauauaaagcgc
uuucgaagagucgaguuguuugcagcucuaaauggguggucaucuaaagc
uaaauauuggcgagagaccgauagcgaacaaguagagugaucgaaagaug
aaaagaacuuugaaaagagaguuaaauaguacgugaaauugcugaaaggg
aagcauuggaaaucaggucagcaucaguuuucgggggcggaaaaagaaua
agggaagguggcuguuuauagcccuuguuguaauacguccacuggggacu
gaggacugcggcuugccaaggaugcugacauaaugguuuucaauggcccg
ucuugaaacacggaccaaggagucuagcaucuaugcgaguguuuggguga
ugaaaacccauccgcgaaauggugaaugcaggugggaacgcccuuguggc
gugcaccaucgaccgguaagagcauagcuguugggacccgaaagauggug
aacuaugccugaauagggugaagccagaggaaacucugguggaggcucgu
uuggguauaggggcgaaagacuaaucgaaccaucuaguagcugguuccug
ccgaaguuuccggauagcagaaacucagaucaguuuuaugaguauguaaa
augagaguuucuagugggccauuuuugguaagcagaacuggcgaugcggg
augaaccgaacgugagguuaaggugccggaauguacgcucaucagacgaa
aagguguuaguucaucuagacagcaggacgguggccauggaagucggaau
ccgcuaaggaguguguaacaacucaccugccgaaugaacuagcccugaaa
auggauggcgcuuaagcguacuacccauaccucaccgucuggguuagcuu
ugagaagcucagacgaguaggcaggcguggagguuugugacgaagccuug
ggcgugagccugggucgaacagccucuagugcagaucuugguggaaguag
cauucaaaugagaacuuugaagacugaaguggggaaagguuccaugugaa
cagcaguuggacauggguuagucgauccuaagagauagggaagcuccgua
ugaaaggcacgauuuuucgugccuaucgaaagggaauccgguuaauauuc
cggaaccagaagguggaaucaacacggcaacguaaaugaaguuggagacg
ucggcgggagcccugggaagaguucucuuuucuuuuuaacaaaccacacc
cugaaaucgguuuauccggagcuaggguaugguguuuggaagaguucagc
gaugcugaauccggugcgcucucgacggcccuugaaaauccaacggaagu
uguuuucacaucuggucguacuccuccaaggugccucuaguugauagaac
aauguagauaagggaagucggcaaaaugggaauucccacugucccuaucu
acuaucuagcgaaaccacagccuggggaacgggccaggcaaaaucagcgg
cccuguugagcuugacucuaguuugacauuugucagguggggaguuaaag
uuaccacagggaucuuguggcagccaagcgcgacguugcuucggcucuuc
cuaucauaccgaagcagaauucgguaagcguuggacccacuaauagggaa
cgugagcugggaccgucgugagacgguuaguccuacugaugaagugucgu
cgcaaugguaauucaacuuaguacgagaggaaccguugauucagaucauu
gguauuugcggcugccugacaaggcaaugccgcggagcuaucaucugccg
gauaacggcugaacgccucuaagccagaauccgugccagaaagcgacgau
uauguauaaaaauagagguaggcuacucuccuguaucguagaagaugggc
gaugguugaugaaacggaaguguuuuauugacuuguccaugaaauuccau
gaauccauugcauacgacuuuaauguggaacgggguauuguaagcagcug
cugagauuaagccuuuguucccaagauuug

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8esq Chromatin localization of nucleophosmin organizes ribosome biogenesis.
• Resolution: 2.8 Å
• Binding residue (original residue number in PDB): L175 N200 R202 K207 K210 N533
• Binding residue (residue number reindexed from 1): L88 N113 R115 K120 K123 N426

Enzymatic activity

• Enzyme Commision number: 3.6.4.13: RNA helicase.

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0003724 RNA helicase activity
• GO:0004386 helicase activity
• GO:0005524 ATP binding
• GO:0016787 hydrolase activity
• GO:0016887 ATP hydrolysis activity

Biological Process

• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0006364 rRNA processing
• GO:0042254 ribosome biogenesis
• GO:1902626 assembly of large subunit precursor of preribosome

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus

External links

• PDB: RCSB:8esq, PDBe:8esq, PDBj:8esq
• PDBsum: 8esq
• PubMed: 36423630
• UniProt: Q09916|HAS1_SCHPO ATP-dependent RNA helicase has1 (Gene Name=has1)