Structure of PDB 8esq Chain i Binding Site BS01

Receptor Information

>8esq Chain i (length=85) Species: 4896 (Schizosaccharomyces pombe)

LTKRQLPERPSRRKGHLSKRTAFVRSIVREVAGFAPYERRVMELIRNSQD
KRARKLAKKRLGTLKRAKGKIEELTSVIQSSRLAH

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): L15 R23 P24 S25 R26 R27 K28 G29 H30 L31 S32 R34 R39 Y51 R74 L75 G76 K79 R80
• Binding residue (residue number reindexed from 1): L1 R9 P10 S11 R12 R13 K14 G15 H16 L17 S18 R20 R25 Y37 R60 L61 G62 K65 R66

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8esq, PDBe:8esq, PDBj:8esq
• PDBsum: 8esq
• PubMed: 36423630
• UniProt: O94658|RL36B_SCHPO Large ribosomal subunit protein eL36B (Gene Name=rpl3602)