Structure of PDB 8eug Chain a Binding Site BS01

Receptor Information

>8eug Chain a (length=147) Species: 4896 (Schizosaccharomyces pombe)

PTHVSKTRKLRGHVSAGHGRIGKHRKHPGGRGKAGGLQHLRSHFDKYHPG
YFGKVGMRRFHLMKNPLWRPTVNLDRLWTLLPNEARDKYLGKNTEVAPVI
NVLQSGYGKVLGKGRLPETPVIVQTRYVSRRAEEKIKQAGGVVELIA

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): P2 T3 H4 S6 K7 T8 R9 K10 R12 G13 H14 S16 A17 G18 H19 G20 R21 I22 H25 R26 K27 H28 P29 G30 G31 R32 G33 K34 Q39 H40 R42 S43 H44 K47 Y48 Y52 F53 G54 K55 V56 G57 M58 R59 R60 F61 H62 L63 M64 K65 N66 T72 N74 R77 Y108 K110 L112 G113 K114 G115 R116 S130 R131 R132 K136
• Binding residue (residue number reindexed from 1): P1 T2 H3 S5 K6 T7 R8 K9 R11 G12 H13 S15 A16 G17 H18 G19 R20 I21 H24 R25 K26 H27 P28 G29 G30 R31 G32 K33 Q38 H39 R41 S42 H43 K46 Y47 Y51 F52 G53 K54 V55 G56 M57 R58 R59 F60 H61 L62 M63 K64 N65 T71 N73 R76 Y107 K109 L111 G112 K113 G114 R115 S129 R130 R131 K135

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:0043232 intracellular non-membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8eug, PDBe:8eug, PDBj:8eug
• PDBsum: 8eug
• PubMed: 36423630
• UniProt: P36585|RL28A_SCHPO Large ribosomal subunit protein uL15A (Gene Name=rpl2802)