Structure of PDB 8esr Chain h Binding Site BS01

Receptor Information

>8esr Chain h (length=121) Species: 4896 (Schizosaccharomyces pombe)

ALKTFELRKQSQENLAEQLQELRQELASLRVQKIAGGSGSKLSKIKTTRK
DIARILTVINESNRLAAREAYKNKKYIPLDLRQKKTRAIRRALTPYEQSR
KTLKQIKKERYFPLRKYALKA

Ligand information

>8esr Chain 1 (length=2143)

uugaccucaaaucagguaggacuacgcgcugaacaauaagcgcaggaaaa
gaaaauaaccaugauucccucaguaacggugaagcgggaaaagcucaaau
uugaaaucuggcaacauuucuuuuguuguccgaguuguaauuucaagaag
cugcuuugaguguagacgaucggucuaaguuccuuggaacaggacgucag
agagggugagaaccccgucuuuggucgauuggauaugccauauaaagcgc
uuucgaagagucgaguugugcagcucuaaaugggugguucaucuaaagcu
aaauauuggcgagagaccgauagcgaacaaguagagugaucgaaagauga
aaagaacuuugaaaagagaguuaaauaguacgugaaauugcugaaaggga
agcauuggaaaucaggucagcaucaguuuucgggggcggaaaaagaauaa
gggaagguggcuguuuauagcccuuguuguaauacguccacuggggacug
aggacugcggcuugccaaggaugcugacauaaugguuuucaauggcccgu
cuugaaacacggaccaaggagucuagcaucuaugcgaguguuugggugau
gaaaacccauccgcgaaauggugaaugcaggugggaacgcccuggcgugc
accaucgaccguaagagcauagcuguugggacccgaaagauggugaacua
ugccugaauuggguauaggaaccaucuaguagcugguuccugccgaaguu
uccggauagcagaaacucagaucaguuuuauguguaaaaugagaguuucu
agugggccauuuuugguaagcagaacuggcgaugcgggaugaaccgaacg
ugagguuaaggugccggaauguacgcucaucagagaaaagguguuaguuc
aucuagacagcaggacgguggccauggaagucggaauccgcuaaggagug
uguaacaacucaccugccgaaugaacuagcccugaaaauggauggcgcuu
aagcguacuacccauaccucaccgucuggguuagagaagcucagacgagu
aggcaggcguggagguuugugacgaagccuugggcgugagccugggucga
acagccucuagugcagaucuugguggaaguagcauucaaaugagaacuuu
gaagacugaaguggggaaagguuccaugugaacagcaguuggacaugggu
uagucgauccuaagagauagggaagcuccguaugaaaguugcacgauuuu
ucgugccuaucgaaagggaauccgguuaauauuccggaaccagaaggugg
aaucacggcaacguaaaugaaguuggagacgucggcgggagcccugggaa
gaguucucuuuucuuuuuaacaaaccacacccugaaaucgguuuauccgg
agcuaggguaugguguuuggaagaguucagcggcugaauccggugcgcuc
ucgacggcccuugaaaauccaacggaagguuuucacaucuggucguacuc
cuccaaggugccucuaguugauagaacaauguagauaagggaagucggca
aaaugggcccacugucccuaucuacuaucuagcgaaaccacagccugggg
aacgggccaggcaaaaucagcggcccuguugagcuugacucuaguuugca
gguggggaguuaaaguuaccacagggaucuuguggcagccaagcgcgacg
uugcuucggcucuuccuaucauaccgaagcagaauucgguaagcguugga
cccacuaauagggaacgugagcugggaccgucgugagacgguuagucuac
ugaugaagugucgucgcaaugguaauucaacuuaguacgagaggaaccgu
ugauucagaucauugguauuugcggcugccugacaaggcaaugccgcgga
gcuaucaucugccggauaacggcugaacgccucuaagccagaauccgugc
cagaaagcgacgauauguauaaaaauagagguaggcuacucuccuguauc
guagaagaugggcgaugguugaugaaacggaaguguuuuauugacuuguc
caugaaauuccaugaauccauugcauacgacuuuaauguggaacggggua
uuguaagcagcugcugagauuaagccuuuguucccaagauuug

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8esr Chromatin localization of nucleophosmin organizes ribosome biogenesis.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): L66 R69 E70 K73 K76 Y77 L82 R83 Q84 K86 R88 R92 T95 Y97 E98 R101 K102 L104 K105 I107 K108 K109 R111 Y112 F113
• Binding residue (residue number reindexed from 1): L65 R68 E69 K72 K75 Y76 L81 R82 Q83 K85 R87 R91 T94 Y96 E97 R100 K101 L103 K104 I106 K107 K108 R110 Y111 F112

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8esr, PDBe:8esr, PDBj:8esr
• PDBsum: 8esr
• PubMed: 36423630
• UniProt: O74904|RL35_SCHPO Large ribosomal subunit protein uL29 (Gene Name=rpl35)