Structure of PDB 6y0g Chain LV Binding Site BS02

Receptor Information

>6y0g Chain LV (length=131) Species: 9606 (Homo sapiens)

SGAKFRISLGLPVGAVINCADNTGAKNLYIISVKGIKGRLNRLPAAGVGD
MVMATVKKGKPELRKKVHPAVVIRQRKSYRRKDGVFLYFEDNAGVIVNNK
GEMKGSAITGPVAKECADLWPRIASNAGSIA

Ligand information

>6y0g Chain S2 (length=1697)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgacuuggauaacugugguaau
ucuagagcuaauacaugccgacgggcgcugacccccuucgcgggggggau
gcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacgc
ccguggcggcgacgacccauucgaacgucugcccuaucaacuuucgaugg
uagucgccgugccuaccauggugaccacgggugacggggaaucaggguuc
gauuccggagagggagccugagaaacggcuaccacauccaaggaaggcag
caggcgcgcaaauuacccacucccgacccggggagguagugacgaaaaau
aacaauacaggacucuuucgaggcccuguaauuggaaugaguccacuuua
aauccuuccgcgaggauccauuggagggcaagucuggugccagcagccgc
gguaauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagc
ucguaguuggaucuugggaggccucucggcgcccgaagcauuuacuuuga
aaaaauuagaguguucaaagcaggcccgagccgccuggauaccgcagcua
ggaauaauggaauaggaccgcgguucuauuuuguugguuuucggaacuga
ggccaugauuaagagggacggccgggggcauucguauugcgccgcuagag
gugaaauucuuggaccggcgcaagacggaccagagcgaaagcauuugcca
agaauguuuucauuaaucaagaacgaaagucggagguucgaagacgauca
gauaccgucguaguuccgaccauaaacgaugccgacuggcgaugcggcgg
cguuauucccaugacccgccgggcagcuuccgggaaaccaaagucuuugg
guuccggggggaguaugguugcaaagcugaaacuuaaaggaauugacgga
agggcaccaccaggaguggagccugcggcuuaauuugacucaacacggga
aaccucacccggcccggacacggacaggauugacagauugauagcucuuu
cucgauuccgugggugguggugcauggccguucuuaguugguggagcgau
uugucugguuaauuccgauaacgaacgagacucuggcaugcuaacuaguu
acgcgacccccgagcggucgcgucccccaacuucuuagagggacaagugg
cguucagccacccgagauugagcaauaacaggucugugaugcccuuagau
guccggggcugcacgcgcgcuacacugacuggcucagcgugugccuaccc
uacgccggcaggcgcggguaacccguugaaccccauucgugauggggauc
ggggauugcaauuauuccccaugaacgaggaauucccaguaagugcgggu
cauaagcuugcguugauuagucccugcccuuuguacacaccgcccgucgc
uacuaccgauuggaugguuuagugaggcccucggaucggccccgccgggg
ccuggcggagcgcugagaagacggucgaacuugacuaucuagaggaagua
aaagucguaacaagguuuccguaggugaaccugcggaaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6y0g Dynamics of uS19 C-Terminal Tail during the Translation Elongation Cycle in Human Ribosomes.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): N31 K35 P70 I139
• Binding residue (residue number reindexed from 1): N22 K26 P61 I130

Gene Ontology

Molecular Function

• GO:0001223 transcription coactivator binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0031625 ubiquitin protein ligase binding
• GO:0070180 large ribosomal subunit rRNA binding
• GO:1990948 ubiquitin ligase inhibitor activity

Biological Process

• GO:0000122 negative regulation of transcription by RNA polymerase II
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0006610 ribosomal protein import into nucleus
• GO:0008284 positive regulation of cell population proliferation
• GO:0010628 positive regulation of gene expression
• GO:0032986 protein-DNA complex disassembly
• GO:0050821 protein stabilization
• GO:0070314 G1 to G0 transition
• GO:0072717 cellular response to actinomycin D
• GO:1901798 positive regulation of signal transduction by p53 class mediator
• GO:1903450 regulation of G1 to G0 transition
• GO:1904667 negative regulation of ubiquitin protein ligase activity
• GO:2000059 negative regulation of ubiquitin-dependent protein catabolic process

Cellular Component

• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0032991 protein-containing complex
• GO:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6y0g, PDBe:6y0g, PDBj:6y0g
• PDBsum: 6y0g
• PubMed: 32268098
• UniProt: P62829|RL23_HUMAN Large ribosomal subunit protein uL14 (Gene Name=RPL23)