Structure of PDB 7ls1 Chain d2 Binding Site BS01

Receptor Information

>7ls1 Chain d2 (length=86) Species: 10090 (Mus musculus)

TKGTSSFGKRRNKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSA
KAKRRNTTGTGRMRHLKIVYRRFRHGFREGTTPKPK

Ligand information

>7ls1 Chain A2 (length=3707)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccgcgcgucgcggcgugggaaau
guggcguacggaagacccacuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcucgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcgcguccggccgugccggugg
uccggcggaucuuucccgcgcgggggaccgcccccggccggcgaccggcc
gccgccgggcgcacuuccaccguggcggugcgccgcgaccggcuccggga
cggccgggaaggcccgguggggaagguggcucggggggggcucaccccga
guguuacagcccuccggccgcgcuuuucgccgaaucccggggccgaggaa
gcccgucgccgcgcucucccucucccgggugggggccgggccgccccucc
cacggcgcgaccgcucggggcggacuguccccagugcgccccgggcgucg
ucgcgccgucgggucccgggggcgucggucacgcgugacgaagccgagcg
cacggggucggcggcgaugucggcuacccacccgacccgucuugaaacac
ggaccaaggagucuaacgcgugcgcgagucaggggcucguccgaaagccg
ccguggcgcaaugaaggugaagggccccgcccgggggcccgaggugggau
cccgaggccucuccaguccgccgagggcgcaccaccggcccgucucgccc
gccgcgccggggagguggagcacgagcguacgcguuaggacccgaaagau
ggugaacuaugcuugggcagggcgaagccagaggaaacucugguggaggu
ccguagcgguccugacgugcaaaucggucguccgaccuggguauaggggc
gaaagacuaaucgaaccaucuaguagcugguucccuccgaaguuucccuc
aggauagcuggcgcucucgcuacgcaguuuuauccgguaaagcgaaugau
uagaggucuuggggccgaaacgaucucaaccuauucucaaacuuuaaaug
gguaagaagcccggcucgcuggcguggagccgggcguggaaugcgagugc
cuagugggccacuuuugguaagcagaacuggcgcugcgggaugaaccgaa
cgccggguuaaggcgcccgaugccgacgcucaucagaccccagaaaaggu
guugguugauauagacagcaggacgguggccauggaagucggaauccgcu
aaggaguguguaacaacucaccugccgaaucaacuagcccugaaaaugga
uggcgcuggagcgucgggcccauacccggccgucgccggcagucggaacg
gaacgggacgggagcggcgucgggccccgcggagccuacgccgcgacgag
uaggagggccgcugcggugagccuugaagccuagggcgcgggcccgggug
gagccgccgcaggugcagaucuuggugguaguagcaaauauucaaacgag
aacuuugaaggccgaaguggagaaggguuccaugugaacagcaguugaac
augggucagucgguccugagagaugggcgagugccguuccgaagggacgg
gcgauggccuccguugcccucggccgaucgaaagggagucggguucagau
ccccgaauccggaguggcggagaugggcgccgcgaggcguccagugcggu
aacgcgaccgaucccggagaagccggcgggagccucggggagaguucucu
uuucuuugugaagggcagggcgcccuggaauggguucgccccgagagagg
ggcccgugccuuggaaagcgucgcgguuccggcggcguccggugagcucu
cgcuggcccuugaaaauccgggggagaggguguaaaucucgcgccgggcc
guacccauauccgcagcaggucuccaaggugaacagccucuggcauguug
gaacaauguagguaagggaagucggcaagccggauccguaacuucgggau
aaggauuggcucuaagggcugggucggucgcggccggcgccuagcagccg
acuuagaacuggugcggaccaggggaauccgacuguuuaauuaaaacaaa
gcaucgcgaaggcccgcggcggguguugacgcgaugugauuucugcccag
ugcucugaaugucaaagugaagaaauucaaugaagcgcggguaaacggcg
ggaguaacuaugacucucuuaagguagccaaaugccucgucaucuaauua
gugacgcgcaugaauggaugaacgagauucccacugucccuaccuacuau
ccagcgaaaccacagccaagggaacgggcuuggcggaaucagcggggaaa
gaagacccuguugagcuugacucuagucuggcacggugaagagacaugag
agguguagaauaagugggaggcccggccgccggugaaauaccacuacucu
caucguuuuuucacugacccggugaggcgggggggcgagccccgaggggc
ucucgcuucuggcgccaagcguccgucccgcgcgugcgggcgggcgcgac
ccgcuccggggacagugccagguggggaguuugacuggggcgguacaccu
gucaaacgguaacgcagguguccuaaggcgagcucagggaggacagaaac
cucccguggagcagaagggcaaaagcucgcuugaucuugauuuucaguac
gaauacagaccgugaaagcggggccucacgauccuucugaccuuuugggu
uuuaagcaggaggugucagaaaaguuaccacagggauaacuggcuugugg
cggccaagcguucauagcgacgucgcuuuuugauccuucgaugucggcuc
uuccuaucauugugaagcagaauucaccaagcguuggauuguucacccac
uaauagggaacgugagcuggguuuagaccgucgugagacagguuaguuuu
acccuacugaugauguguuguugccaugguaauccugcucaguacgagag
gaaccgcagguucagacauuugguguaugugcuuggcugaggagccaaug
gggcgaagcuaccaucugugggauuaugacugaacgccucuaagucagaa
ucccgcccaggcggaacgauacggcagcgccgaggagccucgguuggccc
cggauagccggguccccguccugccccgcggccgggcgucgggaccgggg
uccggugcggagagccguucgucuugggaaacggggugcggccggaaagg
gggccgcccucucgcccgucacguugacgcacguucguguggaaccuggc
gcuaaaccauucguagacgaccugcuucugggucgggguuucguacguag
cagagcagcucccucgcugcgaucuauugaaagucagcccucgacacaag
gguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7ls1 Functionally distinct roles for eEF2K in the control of ribosome availability and p-body abundance.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): T2 K3 T5 S6 S7 F8 G9 K10 R11 R12 N13 K14 T15 H16 K25 H28 Q30 K31 K36 K42 R43 K44 R45 K46 Y47 N48 W49 S50 K52 A53 R55 R56 T59 R75 E80 G81
• Binding residue (residue number reindexed from 1): T1 K2 T4 S5 S6 F7 G8 K9 R10 R11 N12 K13 T14 H15 K24 H27 Q29 K30 K35 K41 R42 K43 R44 K45 Y46 N47 W48 S49 K51 A52 R54 R55 T58 R74 E79 G80

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:7ls1, PDBe:7ls1, PDBj:7ls1
• PDBsum: 7ls1
• PubMed: 34815424
• UniProt: Q9D823|RL37_MOUSE Large ribosomal subunit protein eL37 (Gene Name=Rpl37)