Structure of PDB 7ls2 Chain D1 Binding Site BS01

Receptor Information

>7ls2 Chain D1 (length=208) Species: 10090 (Mus musculus)

GRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGH
MVSDEYEQLSSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINK
MLDRLQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAK
FKFPGRQKIHISKKWGFTKFNADEFEDKVAAKRLIPDGCGVKYIPERGPL
DKWRALHS

Ligand information

>7ls2 Chain A2 (length=3706)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccgcgcgucgcggcgugggaaau
guggcguacggaagacccacuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcucgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcguccggccgugccggugguc
cggcggaucuuucccgcgcgggggaccgcccccggccggcgaccggccgc
cgccgggcgcacuuccaccguggcggugcgccgcgaccggcuccgggacg
gccgggaaggcccgguggggaagguggcucggggggggcucaccccgagu
guuacagcccuccggccgcgcuuuucgccgaaucccggggccgaggaaga
ccgucgccgcgcucucccucucccgggugggggccgggccgccccuccca
cggcgcgaccgcuccggggcggacuguccccagugcgccccgggcgucgu
cgcgccgucgggucccgggggcgucggucacgcgugacgaagccgagcgc
acggggucggcggcgaugucggcuacccacccgacccgucuugaaacacg
gaccaaggagucuaacgcgugcgcgagucaggggcucguccgaaagccgc
cguggcgcaaugaaggugaagggccccgcccgggggcccgaggugggauc
ccgaggccucuccaguccgccgagggcgcaccaccggcccgucucgcccg
ccgcgccggggagguggagcacgagcguacgcguuaggacccgaaagaug
gugaacuaugcuugggcagggcgaagccagaggaaacucugguggagguc
cguagcgguccugacgugcaaaucggucguccgaccuggguauaggggcg
aaagacuaaucgaaccaucuaguagcugguucccuccgaaguuucccuca
ggauagcuggcgcucucgcuacgcaguuuuauccgguaaagcgaaugauu
agaggucuuggggccgaaacgaucucaaccuauucucaaacuuuaaaugg
guaagaagcccggcucgcuggcguggagccgggcguggaaugcgagugcc
uagugggccacuuuugguaagcagaacuggcgcugcgggaugaaccgaac
gccggguuaaggcgcccgaugccgacgcucaucagaccccagaaaaggug
uugguugauauagacagcaggacgguggccauggaagucggaauccgcua
aggaguguguaacaacucaccugccgaaucaacuagcccugaaaauggau
ggcgcuggagcgucgggcccauacccggccgucgccggcagucggaacgg
aacgggacgggagcggcgucgggccccgcggagccuacgccgcgacgagu
aggagggccgcugcggugagccuugaagccuagggcgcgggcccgggugg
agccgccgcaggugcagaucuuggugguaguagcaaauauucaaacgaga
acuuugaaggccgaaguggagaaggguuccaugugaacagcaguugaaca
ugggucagucgguccugagagaugggcgagugccguuccgaagggacggg
cgauggccuccguugcccucggccgaucgaaagggagucggguucagauc
cccgaauccggaguggcggagaugggcgccgcgaggcguccagugcggua
acgcgaccgaucccggagaagccggcgggagccucggggagaguucucuu
uucuuugugaagggcagggcgcccuggaauggguucgccccgagagaggg
gcccgugccuuggaaagcgucgcgguuccggcggcguccggugagcucuc
gcuggcccuugaaaauccgggggagaggguguaaaucucgcgccgggccg
uacccauauccgcagcaggucuccaaggugaacagccucuggcauguugg
aacaauguagguaagggaagucggcaagccggauccguaacuucgggaua
aggauuggcucuaagggcugggucggucgcggccggcgccuagcagccga
cuuagaacuggugcggaccaggggaauccgacuguuuaauuaaaacaaag
caucgcgaaggcccgcggcggguguugacgcgaugugauuucugcccagu
gcucugaaugucaaagugaagaaauucaaugaagcgcggguaaacggcgg
gaguaacuaugacucucuuaagguagccaaaugccucgucaucuaauuag
ugacgcgcaugaauggaugaacgagauucccacugucccuaccuacuauc
cagcgaaaccacagccaagggaacgggcuuggcggaaucagcggggaaag
aagacccuguugagcuugacucuagucuggcacggugaagagacaugaga
gguguagaauaagugggaggcccggccgccggugaaauaccacuacucuc
aucguuuuuucacugacccggugaggcgggggggcgagccccgaggggcu
cucgcuucuggcgccaagcguccgucccgcgcgugcgggcgggcgcgacc
cgcuccggggacagugccagguggggaguuugacuggggcgguacaccug
ucaaacgguaacgcagguguccuaaggcgagcucagggaggacagaaacc
ucccguggagcagaagggcaaaagcucgcuugaucuugauuuucaguacg
aauacagaccgugaaagcggggccucacgauccuucugaccuuuuggguu
uuaagcaggaggugucagaaaaguuaccacagggauaacuggcuuguggc
ggccaagcguucauagcgacgucgcuuuuugauccuucgaugucggcucu
uccuaucauugugaagcagaauucaccaagcguuggauuguucacccacu
aauagggaacgugagcuggguuuagaccgucgugagacagguuaguuuua
cccuacugaugauguguuguugccaugguaauccugcucaguacgagagg
aaccgcagguucagacauuugguguaugugcuuggcugaggagccaaugg
ggcgaagcuaccaucugugggauuaugacugaacgccucuaagucagaau
cccgcccaggcggaacgauacggcagcgccgaggagccucgguuggcccc
ggauagccggguccccguccguccccgcucccgggcgucgggaccggggu
ccggugcggagagccguucgucuugggaaacggggugcggccggaaaggg
ggccgcccucucgcccgucacguugacgcacguucguguggaaccuggcg
cuaaaccauucguagacgaccugcuucugggucgggguuucguacguagc
agagcagcucccucgcugcgaucuauugaaagucagcccucgacacaagg
guuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7ls2 Functionally distinct roles for eEF2K in the control of ribosome availability and p-body abundance.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): R3 R4 A6 R7 C8 Y9 K13 N14 K15 P16 Y17 F22 D35 K39 S61 E63 A64 K74 R90 H92 F94 R98 I99 N100 Q112 G114 M115 R116 G117 A118 F119 R153 R154 F157 K158 P160 R162 G194 K198
• Binding residue (residue number reindexed from 1): R2 R3 A5 R6 C7 Y8 K12 N13 K14 P15 Y16 F21 D34 K38 S60 E62 A63 K73 R89 H91 F93 R97 I98 N99 Q106 G108 M109 R110 G111 A112 F113 R147 R148 F151 K152 P154 R156 G188 K192

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006412 translation
• GO:0007141 male meiosis I
• GO:0007283 spermatogenesis
• GO:0030154 cell differentiation
• GO:0051321 meiotic cell cycle

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7ls2, PDBe:7ls2, PDBj:7ls2
• PDBsum: 7ls2
• PubMed: 34815424
• UniProt: P86048|RL10L_MOUSE Large ribosomal subunit protein uL16-like (Gene Name=Rpl10l)