Structure of PDB 8esq Chain 3 Binding Site BS01

Receptor Information

>8esq Chain 3 (length=160) Species: 4896 (Schizosaccharomyces pombe)

QDEVIWQVVGHEFCSYRIKGEAQNFCRNEYNVTGLCNRQSCPLANSRYAT
VREDNGKLYLYMKTIERAHFPSKLWQRIKLSKNYAKALEQIDQQLLYWPG
RQIHRCKQRLTRLTQYLLKARRLALKHQPALIPIKPKQAHREASRERKAL
IAAKLEKNIE

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): W8 H13 E14 F15 S17 K21 Q25 N26 R29 N39 R40 Q41 G102 R103 H106 P135 K137 P138 K139 H142 R147 A154
• Binding residue (residue number reindexed from 1): W6 H11 E12 F13 S15 K19 Q23 N24 R27 N37 R38 Q39 G100 R101 H104 P133 K135 P136 K137 H140 R145 A152

Gene Ontology

Molecular Function

• GO:0003674 molecular_function

Biological Process

• GO:0000460 maturation of 5.8S rRNA
• GO:0000470 maturation of LSU-rRNA
• GO:1902626 assembly of large subunit precursor of preribosome

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0030687 preribosome, large subunit precursor

External links

• PDB: RCSB:8esq, PDBe:8esq, PDBj:8esq
• PDBsum: 8esq
• PubMed: 36423630
• UniProt: Q9UTE6|MAK16_SCHPO Protein mak16 (Gene Name=mak16)