Structure of PDB 8etg Chain F Binding Site BS01

Receptor Information

>8etg Chain F (length=214) Species: 4896 (Schizosaccharomyces pombe)

AAEKKSARQKKRELIAKRAEAYEAEYRAAEREQIELARKARAEGNYFVPH
EPKLIFVVRIRGINNIPPKARKIMQLLRLLQINNGIFVKFNKAIKEMLQV
VEPYVTYGIPNHKTVRELIYKRGFGKVNKQRIPLSDNAIIEAALGKYSIL
SVEDLIHEIYTVGPNFKQAANFLWPFKLSSPLGGWRERKFKHFIEGGDAG
KRDEHINGLVQKML

Ligand information

>8etg Chain 1 (length=2018)

uugaccucaaaucagguaggacuacgcgcugaaaauaagcgcaggaaaag
aaaauaaccaugauucccucaguaacgugaagcgggaaaagcucaaauuu
gaaaucuggcaacauuucuuuuguuguccgaguuguaauuucaagaagcu
gcuuugaguguagacgaucggucuaaguuccuuggaacaggacgucagag
agggugagaaccccgucuuuggucgauuggauaugccauauaaagcgcuu
ucgaagagucgaguugugcagcucuaaauggguggucaucuaaagcuaaa
uauuggcgagagaccgauagcgaacaaguagagugaucgaaagaugaaaa
gaacuuugaaaagagaguuaaauaguacgugaaauugcugaaagggaagc
auuggaaaucaggucagcaucaguuuucgggggcggaaaaagaauaaggg
aagguggcuguuuauagcccuuguuguaauacguccacuggggacugagg
acugcggcuucgugccaaggaugcugacauaaugguuuucaauggcccgu
ccacggaccaaggagucuagcaucuaugcgaguguuugggugaugaaaac
ccauccgcgaaaugaaagugaggugggaacgcccuuguggcgugcaccau
cgaccguaagagcauagcuguugggacccgaaagauggugaaaccaucua
guagcugguuccugccgaaguuucccucaggauagcagaaacucagauca
guuuuaugaguauguaaaaugagaguuucuagugggccauuuuugguaag
cagaacuggcgaugcgggaugaaccgaacgugagguuaaggugccggaau
guacgcucaucagaagaaaagguguuaguucaucuagacagcaggacggu
ggccauggaagucggaauccgcuaaggaguguguaacaacucaccugccg
aaugaacuagcccugaaaauggauggcgcuuaagcguacuacccauaccu
caccgucuggguuaggaagcucagacgaguaggcaggcguggagguuugu
gacgaagccuugggcgugagccugggucgaacagccucuagugcagaucu
ugguggaaguagcuucaaaugagaacuuugaagacugaaguggggaaagg
uuccaugugaacagcaguuggacauggguuagucgauccuaagagauagg
gaagcuccguaugaaaggcacgauuuuucgugccuaucgagggaauccgg
uuaauauuccggaaccagaagguggaauacggcaacguaaaugaaguugg
agacgucggcgggagcccugggaagaguucucuuuucuuuuuaacaaacc
auuacccugacuaggguaugguguuuggaagaguucagcgccucaugcug
aauccggugcgcucucgacggccaaaauccaacggaaguuuucacaucug
gucguacucuccaaggugaacagccucuaguugauagaacaauguagaua
agggaagaaugggcccacugucccuaucuacuaucuagcgaaaccacagc
cuggggggccaggcaaaaucagcggcuuguggcagccaagcgcgacguug
cucggcucuuccuaucauaccgaagcagaauucgguaagcguuggaccca
cuaauagggaacgugagcuggccuacugaugaagugucgucgcaauggua
auucaacuuaguacgagaggaaccguugauucagaucauugguauuugcg
gcugccugacaaggcaaugccgcggagcuaucaucugcuggauaacggcu
gaacgccucuaagccagaauccgugccagaaagcgacgauuuguauaaaa
auagagguaggcuacucuccuguaucguagaagaugggcgaugguugaug
aaacggaaguguuuuauugacuuguccaugaaauuccagaauccauugca
uacgacuuuaauguggaacgggguauuguaagcagcugcugagauuaagc
cuuuguucccaagauuug

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

Receptor-Ligand Complex Structure

Structure summary

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• PDB: 8etg Chromatin localization of nucleophosmin organizes ribosome biogenesis.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): R44 R48 R67 I70 R74 R77 R97 G98 N100 P104 K105 K108 L112 Q117 I118 N119 K128 E132 M133 K149 R152 R158 K162 K165 Q166 R167 I168 D172 K203 N207 K213 L214 S215 S216 P217 L218 G219 G220 W221 E223 R224 K225
• Binding residue (residue number reindexed from 1): R8 R12 R31 I34 R38 R41 R61 G62 N64 P68 K69 K72 L76 Q81 I82 N83 K92 E96 M97 K113 R116 R122 K126 K129 Q130 R131 I132 D136 K167 N171 K177 L178 S179 S180 P181 L182 G183 G184 W185 E187 R188 K189

Gene Ontology

Molecular Function

• GO:0003723 RNA 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

Cellular Component

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

External links

• PDB: RCSB:8etg, PDBe:8etg, PDBj:8etg
• PDBsum: 8etg
• PubMed: 36423630
• UniProt: P25457|RL7B_SCHPO Large ribosomal subunit protein uL30B (Gene Name=rpl702)

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