Structure of PDB 7cpu Chain LQ Binding Site BS01

Receptor Information

>7cpu Chain LQ (length=187) Species: 10090 (Mus musculus)

GVDIRHNKDRKVRRKEPKSQDIYLRLLVKLYRFLARRTNSTFNQVVLKRL
FMSRTNRPPLSLSRMIRKMKLPGRENKTAVVVGTVTDDVRILEVPKLKVC
ALRVSSRARSRILKAGGKILTFDQLALESPKGRGTVLLSGPRKGREVYRH
FGKAPGTPHSHTKPYVRSKGRKFERARGRRASRGYKN

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): G2 V3 H7 N8 D10 R11 K12 V13 R14 R15 K16 S20 K30 F34 R37 R38 N40 T42 F43 M53 S54 R55 T56 N57 S62 S64 R65 R68 K71 L72 P73 R75 K78 T85 T87 D88 D89 V90 R91 I92 R104 S106 S107 R108 R134 G135 T136 L138 L139 S140 P142 R143 K144 R146 E147 V148 R150 F152 K154 T158 P159 H160 H162 K164 P165 Y166 V167 R168 S169 K173 F174 E175 R176 R178 R180 R181 S183 R184 G185 Y186 K187 N188
• Binding residue (residue number reindexed from 1): G1 V2 H6 N7 D9 R10 K11 V12 R13 R14 K15 S19 K29 F33 R36 R37 N39 T41 F42 M52 S53 R54 T55 N56 S61 S63 R64 R67 K70 L71 P72 R74 K77 T84 T86 D87 D88 V89 R90 I91 R103 S105 S106 R107 R133 G134 T135 L137 L138 S139 P141 R142 K143 R145 E146 V147 R149 F151 K153 T157 P158 H159 H161 K163 P164 Y165 V166 R167 S168 K172 F173 E174 R175 R177 R179 R180 S182 R183 G184 Y185 K186 N187

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005791 rough endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0043232 intracellular non-membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7cpu, PDBe:7cpu, PDBj:7cpu
• PDBsum: 7cpu
• PubMed: 36517592
• UniProt: P35980|RL18_MOUSE Large ribosomal subunit protein eL18 (Gene Name=Rpl18)