Structure of PDB 8eup Chain h Binding Site BS01

Receptor Information

>8eup Chain h (length=120) Species: 4896 (Schizosaccharomyces pombe)

ALKTFELRKQSQENLAEQLQELRQELASLRVQKIAGGSGSKLSKIKTTRK
DIARILTVINESNRLAAREAYKNKKYIPLDLRQKKTRAIRRALTPYEQSR
KTLKQIKKERYFPLRKYALK

Ligand information

>8eup Chain 1 (length=1422)

uugaccucaaaucagguaggacuacgcgcugaacaauaagcgcaggaaaa
gaaaauaaccaugauucccucaguaacggugaagcgggaaaagcucaaau
uugaaaucuggcaacauuucuuuuguuguccgaguuguaauuucaagaag
cugcuuugaguguagacgaucggucuaaguuccuuggaacaggacgucag
agagggugagaaccccgucuuuggucgauuggauaugccauauaaagcgc
uuucgaagagucgaguuguuugcagcucuaaauggguggucaucuaaagc
uaaauauuggcgagagaccgauagcgaacaaguagagugaucgaaagaug
aaaagaacuuugaaaagagaguuaaauaguacgugaaauugcugaaaggg
aagcauuggaaaucagucuuaccugggugagaucaguagucucucgagac
uaugcacucugaaccugugguaggucagcaucaguuuucgggggcggaaa
aagaauaagggaagguggcuguuuauagcccuuguuguaauacguccacu
ggggacugaggacugcggcuugccaaggaugcugacauaaugguuuucaa
uggcccgucuugaaacacggaccaaggagucuagcaucuaugcgaguguu
ugggugaugaaaacccauccgcgaaggugggaacgcccuuguggcgugca
ccaucgaagagcauagcuguugggacccgaaagauggugaaccaucuagu
agcugguuccugccgaaguuuccggauagcagaaacucagaucaguuuua
uguguaaaaugagaguuucuagugggccauuuuugguaagcagaacuggc
gaugcgggaugaaccgaacgugagguuaaggugccggaauguacgcucau
cagaaagguguuaguucauaugaacuagcccugggcgcuuaagcguacua
cccauaccucaccgucuggguuagcuuugagaagcucagacgaguaggca
ggcguggagguuugugacgaagccuugggcgugagccugggucgaacagc
cucuagugcagaucuugguggaaguagcuagaucuagcgaaaccacagcc
uggggaacgggccaggcaaucgucgcaaugguaauucaacuuaguacgag
aggaaccguugauucagaucauugguauuugcggccgcggagcuaucauc
ugccggauaacggcugaacgccucuaagccagaauccgugccagaaagcg
acgauuauguauaaaaauagagguaggcuacucuccuguaucguagaaga
ugggcgaugguugaugaaacggaaguguuuuauugacuuguccaugaaau
uccaugaauccauugcauacgacuuuaauguggaacgggguauugagauu
aagccuuuguucccaagauuug

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8eup Chromatin localization of nucleophosmin organizes ribosome biogenesis.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): L66 R69 E70 K73 N74 Y77 L82 R83 Q84 R88 R92 T95 Y97 R101 K102 K105 I107 K108 K109 R111 Y112 F113
• Binding residue (residue number reindexed from 1): L65 R68 E69 K72 N73 Y76 L81 R82 Q83 R87 R91 T94 Y96 R100 K101 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:8eup, PDBe:8eup, PDBj:8eup
• PDBsum: 8eup
• PubMed: 36423630
• UniProt: O74904|RL35_SCHPO Large ribosomal subunit protein uL29 (Gene Name=rpl35)