Structure of PDB 7cpv Chain Lj Binding Site BS01

Receptor Information

>7cpv Chain Lj (length=86) Species: 10090 (Mus musculus)

TKGTSSFGKRRNKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSA
KAKRRNTTGTGRMRHLKIVYRRFRHGFREGTTPKPK

Ligand information

>7cpv Chain L5 (length=3541)

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
cggauccguaacuucgggauaaggauuggcucuaagggcugggucggggc
cggcgccuagcagccgacuuagaacuggugcggaccaggggaauccgacu
guuuaauuaaaacaaagcaucgcgaaggcccgcggcggguguugacgcga
ugugauuucugcccagugcucugaaugucaaagugaagaaauucaaugaa
gcgcggguaaacggcgggaguaacuaugacucucuuaagguagccaaaug
ccucgucaucuaauuagugacgcgcaugaauggaugaacgagauucccac
ugucccuaccuacuauccagcgaaaccacagccaagggaacgggcuuggc
ggaaucagcggggaaagaagacccuguugagcuugacucuagucuggcac
ggugaagagacaugcucaucguuuuuucacugacccggugaggcgggggg
gcgagccccgaggggcucucgcuucuggcgccaagcguccgucccgggcg
ggcgcgacccgcuccggggacagugccagguggggaguuugacuggggcg
guacaccugucaaacgguaacgcagguguccuaaggcgagcucagggagg
acagaaaccucccguggagcagaagggcaaaagcucgcuugaucuugauu
uucaguacgaauacagaccgugaaagcggggccucacgauccuucugacc
uuuuggguuuuaagcaggaggugucagaaaaguuaccacagggauaacug
gcuuguggcggccaagcguucauagcgacgucgcuuuuugauccuucgau
gucggcucuuccuaucauugugaagcagaauucaccaagcguuggauugu
ucacccacuaauagggaacgugagcuggguuuagaccgucgugagacagg
uuaguuuuacccuacugaugauguguuguugccaugguaauccugcucag
uacgagaggaaccgcagguucagacauuugguguaugugcuuggcugagg
agccaauggggcgaagcuaccaucugugggauuaugacugaacgccucua
agucagaaucccgcccaggcggaacgauacggcagcgccgaaggagccuc
gguuggccccggauagccggguccccgccgggguccggugcggagagccg
uucgucuugggaaacggggugcggccggaaaggcggccgcccucucgccc
gucacguugaacgcacguucguguggaaccuggcgcuaaaccauucguag
acgaccugcuucugggucgggguuucguacguagcagagcagcucccucg
cugcgaucuauugaaagucagcccucgacacaaggguuugu

.........................<<<<<<.....<......>......
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..>>>>>..<<<<<<<<<....<<<<..<<<<<<<....<<<<......>
>>>.....((......<<<.....))>>>...>.>>>>>>.......>>>
>...>>>>>>>>>.......<<<<<<<........>>>>>>>.....<<<
<<..((((((>>>>>..>>>..............................
....<<....>>...............<<<......>>>...........
.......................<<<<<<<<..<<<.<<...<<<<<<<<
.<<<.....<<<<<<<<<<<<<<<<<<..<..<<<<<<<.<<<.....>>
>>>>>>>>..>..>>>>...>>>>>>>>>>>>>>......>>>.>>>.>>
>>>...<<<<<<<<<<<<<<<<<<<<<<<...<<.<<<<.<<.<<<<...
...<<<<<<..>>>>>>.......>>>>>>>>>>......>>>>>>..>>
>>>>>>>>>.............<<<<<<.<<<<..>>>>.<<<<<<<<<<
<.<<<<<<<<<<..<<<<<.<<<<<.<...........>..>>>>>.>>>
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.>>>>>...>>>>>...>>>>>>>>..<<<<........>>>><<<<<<.
...<<<<<<<<<<<<<..<<<...<<<<........>>>>.....>>>..
.<<....>>...<<<<<<<.....>>>>>>>..<<<<<...<<<..<<<.
..[[...{[[>>>..>>>....>>>>>.<<<<<<<<<.<<<<......>>
>>>>>>>>>.>>....>>>>>>>>>>>>>..<<.<..<<<<<<<.....<
<<<<<<<<..<<<....<<<<<<<....>>>>>>>.....>>>...<<<.
.<<.<<........>>>>.>>>....>>>>>>>>>...<<.......>>.
.....>>>>>>...>..>.>>..<<<<<<....<.<<<....>>>.><<.
<<<<<<<.....<<<.<<<<<<<<<...<<<....<<<..<.<<<....<
<.............>>..>>>.>..>>>..>.>>...>>>>>>>...<<<
<<<<<<.........>>>>>>>>>....>>>>>>>>>>>>..>>..<<<<
.<<<<<.....>>>>>.>>>>....<<<......>>>...<<<<<<<...
<<<(((.......<<<<<.....<<..........<<<.<<<<<<<<<<.
......<..<........................................
...........>.>...>>>>>>>>>>>>>..........))).>>...>
>>>>..>>>...>>>>>>><<<<<<.<<<...]].}..]]..........
............>>>>>>>>>....>>>>>>...<<<<<<<<.<<.....
.<<<<.<<<<....>>>>>>>>...>>>>>>>>>>........>>>>>><
<.....<<.....<<<<<<.......>>>>>>.<<<.....<<<<<.<<.
..<<<<<<...<<.....>>.>>>>>>....((<<<<<<...<<....<<
<....>>>..........<<.<<<<<...........>>>>>>>......
>>....>>>..<<<<<........>>>>>))<<<<....<<<<<..<<<.
<.<...>..>>>>..<<<....>>>...<..<<<<<<<...<<<<<<<<<
<<<.<<<<<<<<<<..[[[..>>>>>>....<<<<<.<<<<.<<<<....
.<<<.....>>>.....>>>>>>>>..>>>>>.....<<<<<<<......
.>>>>>>>>>>>...>>>>>>>>>>>>.........>>>>>>>..>....
......>>.>>>.>>>>.>>>..>>.....<<......>>>>>>>.<<<<
.....>>>>..>>>....<<<<.....<<<<<<<.<<.............
..<<<<<....<<..>>.....>>>>><<.<<<<<<<<<<<.........
..........>>>>>..>>>>>>.>>............<<<<<<<<<..<
<<.........>>>..<<<<<<<....<<<<.....>>>>......>>>>
>>>...<<..<<<..<<<<<<....<<<.....<<<<....>>>>.....
>>>.>>>>..>>>>><<<<<<.......>>>>>>........<.......
....<<<<<.......>>>>>.....>.....>>....>>.>>>>>>>..
...>>.>>>>>>>..>>>>>>....>>....<<<<<........>>>>>.
...<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<<<<<<<<<
.<<<<<<<<<<<<....>>.>>>>>>>>>>...<<<<<.....<<<<...
..................................<<<<<<<<<..>>.>>
>>>>>..>>>>..>>>>>....>>>>>>>>>..>>>>>...<<<.....>
>>..<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<
.......>>>>>>.....<<.[.(((>>....>>>>>>>...<<<..<<<
<.......>>>>..>>><<<<....>>>>>>)))].....<<<<<<<..<
<<..)))))).>>>>>>>>>>.........>>>>..>>>>>>.......<
<.<...<<<<<<...<<.......>>...>>>>>>....>.>.>......
.<<<<<.<<<<<<..<.<.<<<<<......>>>>>...>.>.<<<.....
....>>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>
>>....>>..>>>.>>>>>.....<<<<<<.<..<<<....<<<<<....
.............>>>>>..<<<<....<<<<...<<<.<<<<<<<]]].
>>>>>..>>.>>>..>>>>...>>>><<<<<...<<<<<...........
>>>>>...>>>>>.>>>...>.>>>>>>.....<<<<<<...<<..<<.<
....<<<........<<<<<<<<<<....>>>>>>>>>>.......>>>.
..<<<..<<<<....<<<<...<<<<<......>>>>>..>>>>...>>>
>..>>>................>.>>..>>.>>>>>><<<<<.<......
.......>....<<.<<<<<<<.<<.....<<<<....<<<<<......>
>>>>...>>>>....>>....>>>>.>>>.>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7cpv A male germ-cell-specific ribosome controls male fertility.
• Resolution: 3.03 Å
• Binding residue (original residue number in PDB): T2 K3 G4 T5 S6 F8 G9 K10 R11 R12 N13 K14 T15 H16 K25 H28 Q30 K31 G35 K36 R43 K44 R45 K46 Y47 N48 W49 K52 R55 R56 T58 T59 Y71
• Binding residue (residue number reindexed from 1): T1 K2 G3 T4 S5 F7 G8 K9 R10 R11 N12 K13 T14 H15 K24 H27 Q29 K30 G34 K35 R42 K43 R44 K45 Y46 N47 W48 K51 R54 R55 T57 T58 Y70

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0140236 translation at presynapse
• GO:0140242 translation at postsynapse

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0045202 synapse
• GO:0098793 presynapse
• GO:0098794 postsynapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7cpv, PDBe:7cpv, PDBj:7cpv
• PDBsum: 7cpv
• PubMed: 36517592
• UniProt: Q9D823|RL37_MOUSE Large ribosomal subunit protein eL37 (Gene Name=Rpl37)