Structure of PDB 8eui Chain j Binding Site BS01

Receptor Information

>8eui Chain j (length=83) Species: 4896 (Schizosaccharomyces pombe)

TKGTQSFGMRHNKSHTICRRCGKRSFHIQKSTCACCGYPAAKTRSYNWGA
KAKRRRTTGTGRMSYLKKVHRSFKNGFRSGKPA

Ligand information

>8eui Chain 1 (length=2855)

uugaccucaaaucagguaggacuacgcgcugaacuuaagcauaucaauaa
gcgcaggaaaagaaaauaaccaugauucccucaguaacggcgagugaagc
gggaaaagcucaaauuugaaaucuggcaacauuucuuuuguuguccgagu
uguaauuucaagaagcugcuuugaguguagacgaucggucuaaguuccuu
ggaacaggacgucagagagggugagaaccccgucuuuggucgauuggaua
ugccauauaaagcgcuuucgaagagucgaguuguuugggaaugcagcucu
aaaugggugguaaauuucaucuaaagcuaaauauuggcgagagaccgaua
gcgaacaaguagagugaucgaaagaugaaaagaacuuugaaaagagaguu
aaauaguacgugaaauugcugaaagggaagcauuggaaaucagucuuaua
ggucagcaucaguuuucgggggcggaaaaagaauaagggaagguggcugu
uuauagcccuuguuguaauacguccacuggggacugaggacugcggcuug
ccaaggaugcugacauaaugguuuucaauggcccgucuugaaacacggac
caaggagucuagcaucuaugcgaguguuugggugaaaaacccauccgcga
aaugaaagugaaugcaggugggaacgcccuggcgugcaccaucgaccgac
ccggaaguuugucaauggaaggguuugaguaagagcauagcuguugggac
ccgaaagauggugaacuaugccugaauagggugaagccagaggaaacucu
gguggaggcucguagagauucugacgugcaaaucgaucuucaaauuuggg
uauaggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaa
guuucccucaggauagcagaaacucagaucaguuuuaugagguaaagcga
augauuagagguaccuauucucaaacuuuaaauauguaagacgcccuugu
cgcuuaauuggacgugggccaucgaaugagaguuucuagugggccauuuu
ugguaagcagaacuggcgaugcgggaugaaccgaacgugagguuaaggug
ccggaauguacgcucaucagacaccagaaaagguguuaguucgaacuagc
ccugaaaauggauggcgcuuaagcguacuacccauaccucaccgucuggg
uuaagaagcucagacgaguaggcaggcguggagguuugugacgaagccuu
gggcgugagccugggucgaacagccucuagugcagaucuugguggaagua
gcaaauauucaaaugagaacuuugaagacugaaguggggaaagguuccau
gugaacagcaguuggacauggguuagucgauccuaagagauagggaagcu
ccguaugaaaggcacgauuuuucgugccuaucgaaagggaauccgguuaa
uauuccggaaccagaagguggaaucaacacggcaacguaaaugaaguugg
agacgucggcgggagcccugggaagaguucucuuuucuuuuuaacaaacc
acacccugaaaucgguuuauccggagcuaggguaugguguuuggaagagu
ucagcggcugaauccggugcgcucucgacggcccuugaaaauccaacgga
aguguuuucacaucuggucguacucauaaccgcagcaggucuccaaggug
aacagccucuaguugauagaacaauguagauaagggaagucggcaaaaug
gauccguaacuucgggauaaggauuggcucuaaggguaucaacuuagaac
ugguacggacaaggggaaucugacugucuaauuaaaacauagcauugcga
uggccagaaagugguguugacgcaaugugauuucugcccagugcucgaau
gucaaagugaagaaauucaaccaagcgcggguaaacggcaagguagccaa
augccucgucaucuaacuagugacgcgcaugaauggauuaacgagauucc
cacugucccuaucuacuaucuagcgaaaccacagccuggggaacgggcca
ggcaaaaucagcggggaaagaagacccuguugagcuugacucuaguuuga
cauugugaauuacuuaaucaaugaagcggaauuucuagcguuaaaguuuc
gcgaacugauccgcguugaugacauugucagguggggaguuuggcugggg
cggcacaucuguuaaaagauaacgcagguguccuaagggggacucaucga
gaaucucgaguagaauaaaaggguaaaaguccccuugauuuugauuuuca
gugugaauacaaaccaugaaaguguggccuaucgauccuuuguucccucg
aaauuugaggacagaggugccagaaaaguuaccacagggauaacuggcuu
cagccaagacguugcauucuucgaugucggcucuuccuaucauaccgaau
ucgguaagcguuggauuguucacccacuaauagggaacgugagcuggguu
uagaccgucgugagacagguuaguuuuacccuacugaugaagugucgucg
caaugguaauucaacuuaguacgggaaccguugauucagaucauugguau
uugcggcugccugacaaggcaaugccgcggagcuaucaucugccggauaa
cggcugagccagaauccgugccagaaagcgacgauuuauguauaaaaaua
gaguccuguaucguagaagaugggcgaugguugaacggaaguguuuugac
uuguccaugaaauuccagaauccauugcauacgacuuuaauguggaacgg
gguauuguaagcaguagagaucugcugagauuaagccuuuguucccaaga
uuugu

........................<<<<<<.....<......>......>
>>>>.>...<.....<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<...........<<.<<<<<<<.......>>>>>>>.>>..
...........<<<<<.<<<<<..<<<<<..<<<<.<<<<.....<<<<.
.....>>>>.((......<<<.....))>>>......>>>>.>>>>..>>
>>>.....>>>>>>>>.>>........<<<<<<<........>>>>>>>.
....<<<<<..((((((>>>>>..>>>....>..................
...........<<....>>...............<<<<....>>>>....
..............................<<<<<<<<<<<.<...<..>
.<<<<<<<.<<<<<<<<<<<<<<<.....<.<<<<<<<<.....<....>
......>>>>>>>>....>.>>>>>.>>>>>>>>>>........<<<..>
>>.....>>>>>>>....>>>>>>>>>>>>..<<<<........>>>><<
<<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>..
.<<....>>.......<<<<<..<<<<<..>>>>>...>>>>>.<<<<<<
<<....<<<....>>>....>>>.>>>.>>....>>>>>>.>>>>>>..<
<.<...<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>
>>>.....>>>...<<<..<<.<<........>>>>.>>>....>>>>>>
>>>...<<.......>>......>>>>>>......>.>>..<<<<<<...
.<.<<<....>>>.><<<<<<<<<<...<<<.<<<<<<<.....<<<...
.<<<....<<<..>>>....>>>..>.>>.....>>>>>...<<<<.<<<
<.<......>>>>>.>>>>.....>>>>>>>>>>>>>.>>..<<<<.<<<
<<.....>>>>>.>>>>....<<<......>>>...<<<<<<<...<<<(
((.....<<<<<<......<..........<<<.<<<<<<<..>>>>>>>
>>>..........))).>....>>>>>>.>>>...>>>>>>><<<<<<<<
<......>>>>>>>>>....>>>>>><.<<<<<<<<.<<......<<<<.
<<<<....>>>>>>>>...>>>>>>>>>>..>.....>>>>>><<.....
<<.....<<<<<<.......>>>>>><<<<.....<<<<<.<<...<<<<
<....<<.....>>..>>>>>....((<<<<<<...<<....<<<....>
>>........<<<<<<......>>>>>>..>>....>>...<<<<<....
....>>>>>))<<<<..<<<<<<<....<<<....>>>.....((<<<<<
<...<<<<.<<<<<<<.<<<<<<<<<<...[[..>>>>>><...<<<<<.
..<<<<<<....<<<.....>>>....>>>>>>.....>>>>>....><<
<<<<<.>>>>>>>>>>>...>>>>>>>.>>>>.........>>>>>>...
...>>>>.>>>.>>>>>>>>..>>.....<<......>>>>>>>.<<<<.
....>>>>..>>>>..<<<<.....<<<<<<<.<<...............
<<<<<....<....>.....>>>>><<.<<<<<<<<..>>..>>>>>>.>
>............<<<<<<<<<..<<<.........>>>..<<<<<<<..
..<<<<.....>>>>......>>>>>>>...<<...<<..<<<<<<<..<
<<....<<<<<....>>>>.>...>>>>>>>>..>>>>.......<....
.......<<<<<.......>>>>>.....>.....>>....>>.>>>>>>
>.....>>.>>>>>>>..>>>>>>....>>....<<<<<........>>>
>>....<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<<<<<<
<<..<<<...>>>...<<<<<.....<<<<..........))..<<<<<.
..>>>>>..>>>>..>>>>>.....>>>>>>>>..>>>>>...<<<....
.>>>..<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<
<<.>>>>>>.....<<...(((>>....>>>>>>>...<<<.<<<<<...
....>>>>.>>>>.<<<....>>>.>>)))......<<<<<<<..<<<<.
))))))>>>>>>>>>>>.........>>>>..>>>>>>.......<<...
<<<<......>>>>..>.>.......<<<<<.<<<<<<..<.<<<<<<..
>>>>>>...>.<<<.........>>>.....>>>>>..>...>>>.>>..
..<<<<<<<....>>>.>>>>....>>..>>>.>>>>>.....<<<<<<<
<..<<<<...<<<<<..............>>>>>..<<<<<...<<<<..
..<<<<<<<<<<]]..>>>>>..>>>>>...>>>>..>>>>>.<<<<...
.<<<<.>>>>....>>>>.>>>>....>>>>>>>>......<<.......
<<.>>....>>........<<<<<....<<<<.<<<......>>>..>>>
>..>>>>>.........<<<<<.<.............>.....<<<<<<<
<<.<<<....<<<<.<....>>>>>...>>>....>>>>.>>>>>...>>
>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8eui Chromatin localization of nucleophosmin organizes ribosome biogenesis.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): T2 K3 G4 T5 Q6 S7 F8 G9 M10 R11 H12 N13 K14 S15 H16 K24 S26 H28 Q30 K31 A35 K43 T44 R45 Y47 N48 W49 K52 A53 R55 R56 T59 H71 G77 S80 G81
• Binding residue (residue number reindexed from 1): T1 K2 G3 T4 Q5 S6 F7 G8 M9 R10 H11 N12 K13 S14 H15 K23 S25 H27 Q29 K30 A34 K42 T43 R44 Y46 N47 W48 K51 A52 R54 R55 T58 H70 G76 S79 G80

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

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:8eui, PDBe:8eui, PDBj:8eui
• PDBsum: 8eui
• PubMed: 36423630
• UniProt: P05733|RL37B_SCHPO Large ribosomal subunit protein eL37B (Gene Name=rpl3702)