Structure of PDB 8etg Chain N Binding Site BS01

Receptor Information

>8etg Chain N (length=166) Species: 4896 (Schizosaccharomyces pombe)

GAYKYLEELAKKKQSDVNLFLSRVRAWEYRQMNVIHRASRPSRPDKARRL
GYKAKQGYVIYRIRVRRGRSARCTAEERVGRYCSNLRVLNSYWVNQDATY
KFFEVILVDPSHKAIRRDPRINWIVNPVHKHRESRGLTSIGKKSRGIGKG
HRFWLRHNTLSLRRYR

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

• PDB: 8etg Chromatin localization of nucleophosmin organizes ribosome biogenesis.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): G2 Y4 K5 K14 Q15 N34 V35 S40 R41 R44 K47 R49 R50 L51 K54 A55 K56 Q57 R67 R68 G69 R96 S97 R105 S111 N112 N117 S138 K140 A141 R144 R147 W150 P154 V155 H156 K157 H158 S161 R162 S166 K169 K170 S171 R172 I174 K176 G177 H178 R179 W189 R198 R199 Y200 R201
• Binding residue (residue number reindexed from 1): G1 Y3 K4 K13 Q14 N33 V34 S39 R40 R43 K46 R48 R49 L50 K53 A54 K55 Q56 R66 R67 G68 R69 S70 R78 S84 N85 N90 S111 K113 A114 R117 R120 W123 P127 V128 H129 K130 H131 S134 R135 S139 K142 K143 S144 R145 I147 K149 G150 H151 R152 W154 R163 R164 Y165 R166

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8etg, PDBe:8etg, PDBj:8etg
• PDBsum: 8etg
• PubMed: 36423630
• UniProt: O74895|RL15A_SCHPO Large ribosomal subunit protein eL15A (Gene Name=rpl15)