Structure of PDB 7cpu Chain LV Binding Site BS01

Receptor Information

>7cpu Chain LV (length=130) Species: 10090 (Mus musculus)

GAKFRISLGLPVGAVINCADNTGAKNLYIISVKGIKGRLNRLPAAGVGDM
VMATVKKGKPELRKKVHPAVVIRQRKSYRRKDGVFLYFEDNAGVIVNNKG
EMKGSAITGPVAKECADLWPRIASNAGSIA

Ligand information

>7cpu Chain L5 (length=3539)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccgcgcgucgcggcgugggaaau
guggcguacggaagacccacuccccgggggggcccaaguccuucugaucg
aggcccagcccguggacggugugaggccgguagcggccccggcgcgccgg
gcucgggucuucccggagucggguugcuugggaaugcagcccaaagcggg
ugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagucaaca
aguaccguaagggaaaguugaaaagaacuuugaagagagaguucaagagg
gcgugaaaccguuaagagguaaacgggugggguccgcgcaguccgcccgg
aggauucaacccggcggcggccggccgugcccggggcggaucugcggggg
accgucccccggccggcgaccggccgccgccgggcgcacuuccaccgugg
cggugcgccgcgaccggcuccgggacggccgggaaggcccgguggggaag
guggcucgggcccgaguguuacagcccuccggccgcgcuuucgccgaauc
ccggggccgaggaagcgucgccgcgcucucccucgggggccgggccgccc
cucccacggcgcgaccgcucggggcggacuguccccagugcgccccgggc
guggucgcgccgucggguccgggggcggucacgcgugagcgcacgggguc
ggcggcgaugucggcuacccacccgacccgucuugaaacacggaccaagg
agucuaacgcgugcgcgagucaggggcucguccgaaagccgccguggcgc
aaugaaggugaagggccccgcccgggggcccgaggugggaucccgaggcc
ucuccaguccgccgagggcgcaccaccggcccgucucgcccgccgcgccg
gggagguggagcacgagcguacgcguuaggacccgaaagauggugaacua
ugcuugggcagggcgaagccagaggaaacucugguggagguccguagcgg
uccugacgugcaaaucggucguccgaccuggguauaggggcgaaagacua
aucgaaccaucuaguagcugguucccuccgaaguuucccucaggauagcu
ggcgcucucgccgcaguuuuauccgguaaagcgaaugauuagaggucuug
gggccgaaacgaucucaaccuauucucaaacuuuaaauggguaagaagcc
cggcucgcuggcguggagccgggcguggaaugcgagugccuagugggcca
cuuuugguaagcagaacuggcgcugcgggaugaaccgaacgccggguuaa
ggcgcccgaugccgacgcucaucagaccccagaaaagguguugguugaua
uagacagcaggacgguggccauggaagucggaauccgcuaaggagugugu
aacaacucaccugccgaaucaacuagcccugaaaauggauggcgcuggag
cgucgggcccauacccggccgucgccggcaguggaacgggacgggagccc
cgcggacgcuacgccgcgacgaguaggagggccgcugcggugagccuuga
agccuagggcgcgggcccggguggagccgccgcaggugcagaucuuggug
guaguagcaaauauucaaacgagaacuuugaaggccgaaguggagaaggg
uuccaugugaacagcaguugaacaugggucagucgguccugagagauggg
cgagugccguuccgaagggacgggcgauggccuccguugcccucggccga
ucgaaagggagucggguucagauccccgaauccggaguggcggagauggg
cgccgcgaggccagugcgguaacgcgaccgaucccggagaagccggcggg
agccccggggagaguucucuuuucuuugugaagggcagggcgcccuggaa
uggguucgccccgagagaggggcccgugccuuggaaagcgucgcgguucc
ggcggcguccggugagcucucgcuggcccuugaaaauccgggggagaggg
uguaaaucucgcgccgggccguacccauauccgcagcaggucuccaaggu
gaacagccucuggcauguuggaacaauguagguaagggaagucggcaagc
cggauccguaacuucgggauaaggauuggcucuaagggcugggucggccg
gcgccuagcagccgacuuagaacuggugcggaccaggggaauccgacugu
uuaauuaaaacaaagcaucgcgaaggcccgcggcggguguugacgcgaug
ugauuucugcccagugcucugaaugucaaagugaagaaauucaaugaagc
gcggguaaacggcgggaguaacuaugacucucuuaagguagccaaaugcc
ucgucaucuaauuagugacgcgcaugaauggaugaacgagauucccacug
ucccuaccuacuauccagcgaaaccacagccaagggaacgggcuuggcgg
aaucagcggggaaagaagacccuguugagcuugacucuagucuggcacgg
ugaagagacaugcucaucguuuuuucacugacccggugaggcgggggggc
gagccccgaggggcucucgcuucuggcgccaagcguccgucccgggcggg
cgcgacccgcuccggggacagugccagguggggaguuugacuggggcggu
acaccugucaaacgguaacgcagguguccuaaggcgagcucagggaggac
agaaaccucccguggagcagaagggcaaaagcucgcuugaucuugauuuu
caguacgaauacagaccgugaaagcggggccucacgauccuucugaccuu
uuggguuuuaagcaggaggugucagaaaaguuaccacagggauaacuggc
uuguggcggccaagcguucauagcgacgucgcuuuuugauccuucgaugu
cggcucuuccuaucauugugaagcagaauucaccaagcguuggauuguuc
acccacuaauagggaacgugagcuggguuuagaccgucgugagacagguu
aguuuuacccuacugaugauguguuguugccaugguaauccugcucagua
cgagaggaaccgcagguucagacauuugguguaugugcuuggcugaggag
ccaauggggcgaagcuaccaucugugggauuaugacugaacgccucuaag
ucagaaucccgcccaggcggaacgauacggcagcgccgaaggagccucgg
uuggccccggauagccggguccccgccgggguccggugcggagagccguu
cgucuugggaaacggggugcggccggaaaggcggccgcccucucgcccgu
cacguugaacgcacguucguguggaaccuggcgcuaaaccauucguagac
gaccugcuucugggucgggguuucguacguagcagagcagcucccucgcu
gcgaucuauugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7cpu A male germ-cell-specific ribosome controls male fertility.
• Resolution: 2.82 Å
• Binding residue (original residue number in PDB): A12 K13 F14 R15 S17 G19 P21 G23 A24 V25 I40 S41 V42 K43 G44 I45 K46 R48 L49 N50 R51 L52 M62 T64 K66 K74 V76 R85 K86 R89 F95
• Binding residue (residue number reindexed from 1): A2 K3 F4 R5 S7 G9 P11 G13 A14 V15 I30 S31 V32 K33 G34 I35 K36 R38 L39 N40 R41 L42 M52 T54 K56 K64 V66 R75 K76 R79 F85

Gene Ontology

Molecular Function

• GO:0001223 transcription coactivator binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0031625 ubiquitin protein ligase binding
• GO:1990948 ubiquitin ligase inhibitor activity

Biological Process

• GO:0000122 negative regulation of transcription by RNA polymerase II
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0008284 positive regulation of cell population proliferation
• GO:0010628 positive regulation of gene expression
• GO:0032986 protein-DNA complex disassembly
• GO:0050821 protein stabilization
• GO:0070314 G1 to G0 transition
• GO:0072717 cellular response to actinomycin D
• GO:0140236 translation at presynapse
• GO:0140242 translation at postsynapse
• GO:1901798 positive regulation of signal transduction by p53 class mediator
• GO:1903450 regulation of G1 to G0 transition
• GO:1904667 negative regulation of ubiquitin protein ligase activity
• GO:2000059 negative regulation of ubiquitin-dependent protein catabolic process

Cellular Component

• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0032991 protein-containing complex
• GO:0045202 synapse
• GO:0098793 presynapse
• GO:0098794 postsynapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7cpu, PDBe:7cpu, PDBj:7cpu
• PDBsum: 7cpu
• PubMed: 36517592
• UniProt: P62830|RL23_MOUSE Large ribosomal subunit protein uL14 (Gene Name=Rpl23)