Structure of PDB 8eug Chain g Binding Site BS01

Receptor Information

>8eug Chain g (length=106) Species: 4896 (Schizosaccharomyces pombe)

QRVTYRRRLAYNTRSNRTRIIKTPGNNIRYLHIKKLGTIPRCGDTGVPLQ
GIPALRPREFARLSHNKKTVQRAYGGCLSANAVKDRIVRAFLIEEQKIVK
QKLKQL

Ligand information

>8eug Chain 1 (length=2869)

uugaccucaaaucagguaggacuacgcgcugaacuuaagcauaucaauaa
gcgcaggaaaagaaaauaaccaugauucccucaguaacggcgagugaagc
gggaaaagcucaaauuugaaaucuggcaacauuucuuuuguuguccgagu
uguaauuucaagaagcugcuuugaguguagacgaucggucuaaguuccuu
ggaacaggacgucagagagggugagaaccccgucuuuggucgauuggaua
ugccauauaaagcgcuuucgaagagucgaguuguuugggaaugcagcucu
aaaugggugguaaauuucaucuaaagcuaaauauuggcgagagaccgaua
gcgaacaaguagagugaucgaaagaugaaaagaacuuugaaaagagaguu
aaauaguacgugaaauugcugaaagggaagcauuggaaaucagucuuacg
uaggucagcaucaguuuucgggggcggaaaaagaauaagggaagguggcu
guuuauagcccuuguuguaauacguccacuggggacugaggacugcggcu
ugccaaggaugcugacauaaugguuuucaauggcccgucuugaaacacgg
accaaggagucuagcaucuaugcgaguguuugggugaaaaacccauccgc
gaaaugaaagugaaugcaggugggaacgcccuggcgugcaccaucgaccg
acccggaaguuugucaauggaaggguuugaguaagagcauagcuguuggg
acccgaaagauggugaacuaugccugaauagggugaagccagaggaaacu
cugguggaggcucguagagauucugacgugcaaaucgaucuucaaauuug
gguauaggggcgaaagacuaaucgaaccaucuaguagcugguuccugccg
aaguuucccucaggauagcagaaacucagaucaguuuuaugagguaaagc
gaaugauuagagguaccuauucucaaacuuuaaauauguaagacgcccuu
gucgcuuaauuggacgugggccaucgaaugagaguuucuagugggccauu
uuugguaagcagaacuggcgaugcgggaugaaccgaacgugagguuaagg
ugccggaauguacgcucaucagacaccagaaaagguguuaguucgaacua
gcccugaaaauggauggcgcuuaagcguacuacccauaccucaccgucug
gguuaagaagcucagacgaguaggcaggcguggagguuugugacgaagcc
uugggcgugagccugggucgaacagccucuagugcagaucuugguggaag
uagcaaauauucaaaugagaacuuugaagacugaaguggggaaagguucc
augugaacagcaguuggacauggguuagucgauccuaagagauagggaag
cuccguaugaaaggcacgauuuuucgugccuaucgaaagggaauccgguu
aauauuccggaaccagaagguggaaucaacacggcaacguaaaugaaguu
ggagacgucggcgggagcccugggaagaguucucuuuucuuuuuaacaaa
ccacacccugaaaucgguuuauccggagcuaggguaugguguuuggaaga
guucagcggcugaauccggugcgcucucgacggcccuugaaaauccaacg
gaaguuguuuucacaucuggucguacucauaaccgcagcaggucuccaag
gugaacagccucuaguugauagaacaauguagauaagggaagucggcaaa
auggauccguaacuucgggauaaggauuggcucuaaggguaucaacuuag
aacugguacggacaaggggaaucugacugucuaauuaaaacauagcauug
cgauggccagaaagugguguugacgcaaugugauuucugcccagugcucg
aaugucaaagugaagaaauucaaccaagcgcggguaaacggcaagguagc
caaaugccucgucaucuaacuagugacgcgcaugaauggauuaacgagau
ucccacugucccuaucuacuaucuagcgaaaccacagccuggggaacggg
ccaggcaaaaucagcggggaaagaagacccuguugagcuugacucuaguu
ugacauugugaauuuacuuaaucaaugaagcggaauuucuagcguuaaag
uuucgcgaacugauccgcguugaugacauugucagguggggaguuuggcu
ggggcggcacaucuguuaaaagauaacgcagguguccuaagggggacuca
ucgagaaucucgaguagaauaaaaggguaaaaguccccuugauuuugauu
uucagugugaauacaaaccaugaaaguguggccuaucgauccuuuguucc
cucgaaauuugaggacagaggugccagaaaaguuaccacagggauaacug
gcuucagccaagacguugcauucuucgaugucggcucuuccuaucauacc
gaauucgguaagcguuggauuguucacccacuaauagggaacgugagcug
gguuuagaccgucgugagacagguuaguuuuacccuacugaugaaguguc
gucgcaaugguaauucaacuuaguacgggaaccguugauucagaucauug
guauuugcggcugccugacaaggcaaugccgcggagcuaucaucugccgg
auaacggcugagccagaauccgugccagaaagcgacgauuuauguauaaa
aauagagguaacucuccuguaucguagaagaugggcgaugguugaacgga
aguguuuugacuuguccaugaaauuccagaauccauugcauacgacuuua
auguggaacgggguauuguaagcaguagagucgaucugcugagauuaagc
cuuuguucccaagauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8eug Chromatin localization of nucleophosmin organizes ribosome biogenesis.
• Resolution: 2.8 Å
• Binding residue (original residue number in PDB): R4 V5 T6 Y7 R8 R9 R10 L11 Y13 N14 T15 R16 S17 R19 R21 I22 K24 T25 P26 G27 N28 R31 Y32 L33 K37 T40 P42 R43 Q52 G53 P55 R58 P59 R60 A63 R64 S66 H67 N68 K70 T71 V72 Q73 R74 Y76 G77 G78 A82 N83 R88 R91 A92 I95 E96 Q98 K102
• Binding residue (residue number reindexed from 1): R2 V3 T4 Y5 R6 R7 R8 L9 Y11 N12 T13 R14 S15 R17 R19 I20 K22 T23 P24 G25 N26 R29 Y30 L31 K35 T38 P40 R41 Q50 G51 P53 R56 P57 R58 A61 R62 S64 H65 N66 K68 T69 V70 Q71 R72 Y74 G75 G76 A80 N81 R86 R89 A90 I93 E94 Q96 K100

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042254 ribosome biogenesis

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:8eug, PDBe:8eug, PDBj:8eug
• PDBsum: 8eug
• PubMed: 36423630
• UniProt: O42846|RL34A_SCHPO Large ribosomal subunit protein eL34A (Gene Name=rpl3401)