Structure of PDB 6y57 Chain SL Binding Site BS01

Receptor Information

>6y57 Chain SL (length=140) Species: 9606 (Homo sapiens)

ADIQTERAYQKQPTIFQNKKRVKLPRYYKNIGLGFKTPKEAIEGTYIDKK
CPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNM
SVHLSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKAA

Ligand information

>6y57 Chain S2 (length=1658)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgacuuggauaacugugguaau
ucuagagcuaauacaugccgacgggcgcugacccccuugggggggaugcg
ugcauuuaucaguggugacucuagauaaccucgggccgaucgcacgcccg
uggcggcgacgacccauucgaacgucugcccuaucaacuuucgaugguag
ucgccgugccuaccauggugaccacgggugacggggaaucaggguucgau
uccggagagggagccugagaaacggcuaccacauccaaggaaggcagcag
gcgcgcaaauuacccacucccgacccggggagguagugacgaaaaauaca
auacaggagcccuguaauuggaaugaguccacuuuaaauccuuccgcgag
gauccauuggagggcaagucuggugccagcagccgcgguaauuccagcuc
caauagcguauauuaaaguugcugcaguuaaaaagcucguaguuggaucu
ugggagcgcccgccgcauuuacuuugaaaaaauuagaguguucaaagcag
gcccccgccuggauaccgcagcuaggaauaauggaauaggaccgcgguuc
uauuuuuuuucggaacugaggccaugauuaagagggacggccgggggcau
ucguauugcgccgcuagaggugaaauucuuggaccggcgcaagacggacc
agagcgaaagcauuugccaagaauguuuucauuaaucaagaacgaaaguc
ggagguucgaagacgaucagauaccgucguaguuccgaccauaaacgaug
ccgacuggcgaugcggcggcguuauucccaugacccgccgggcagcuucc
gggaaaccaaagucuuuggguuccggggggaguaugguugcaaagcugaa
acuuaaaggaauugacggaagggcaccaccaggaguggagccugcggcuu
aauuugacucaacacgggaaaccucacccggcccggacacggacaggauu
gacagauugauagcucuuucucgauuccgugggugguggugcauggccgu
ucuuaguugguggagcgauuugucugguuaauuccgauaacgaacgagac
ucuggcaugcuaacuaguuacgcgaccccgcggucggcgucaacuucuua
gagggacaaguggcguucagccacccgagauugagcaauaacaggucugu
gaugcccuuagauguccggggcugcacgcgcgcuacacugacuggcucag
cgugugccuacccuacgccggcaggcgcggguaacccguugaaccccauu
cgugauggggaucggggauugcaauuauuccccaugaacgaggaauuccc
aguaagugcgggucauaagcuugcguugauuaagucccugcccuuuguac
acaccgcccgucgcuacuaccgauuggaugguuuagugaggcccucggau
cggccccgccggggugcggagcgcugagaagacggucgaacuugacuauc
uagaggaaguaaaagucguaacaagguuuccguaggugaaccugcggaag
gaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6y57 Dynamics of uS19 C-Terminal Tail during the Translation Elongation Cycle in Human Ribosomes.
• Resolution: 3.5 Å
• Binding residue (original residue number in PDB): E7 Q11 P14 T15 F17 K20 Y36 I40 G41 L42 K58 K59 N65 S67 I68 R69 G70 R71 K79 K81 M82 Q83 T85 R90 Y92 H94 R97 K98 Y99 K104 R105 H106 K107 N108 R132 P133 L134 S135 K136 T137 R139 F140
• Binding residue (residue number reindexed from 1): E6 Q10 P13 T14 F16 K19 Y27 I31 G32 L33 K49 K50 N56 S58 I59 R60 G61 R62 K70 K72 M73 Q74 T76 R81 Y83 H85 R88 K89 Y90 K95 R96 H97 K98 N99 R123 P124 L125 S126 K127 T128 R130 F131

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0016020 membrane
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0032040 small-subunit processome
• GO:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6y57, PDBe:6y57, PDBj:6y57
• PDBsum: 6y57
• PubMed: 32268098
• UniProt: P62280|RS11_HUMAN Small ribosomal subunit protein uS17 (Gene Name=RPS11)