Structure of PDB 7qvp Chain SH Binding Site BS01

Receptor Information

>7qvp Chain SH (length=183) Species: 9606 (Homo sapiens)

VKPNGEKPDEFESGISQALLELEMNSDLKAQLRELNITAAKEIEVGGGRK
AIIIFVPVPQLKSFQKIQVRLVRELEKKFSGKHVVFIAQRRILPKPTRKS
KNKQKRPRSRTLTAVHDAILEDLVFPSEIVGKRIRVKLDGSRLIKVHLDK
AQQNNVEHKVETFSGVYKKLTGKDVNFEFPEFQ

Ligand information

>7qvp Chain S2 (length=1714)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgcacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacg
ccccccguggcggcgacgacccauucgaacgucugcccuaucaacuuucg
augguagucgccgugccuaccauggugaccacgggugacggggaaucagg
guucgauuccggagagggagccugagaaacggcuaccacauccaaggaag
gcagcaggcgcgcaaauuacccacucccgacccggggagguagugacgaa
aaauaacaauacaggacucuuucgaggcccuguaauuggaaugaguccac
uuuaaauccuuuaacgaggauccauuggagggcaagucuggugccagcag
ccgcgguaauuccagcuccaauagcguauauuaaaguugcugcaguuaaa
aagcucguaguuggaucuugggagcgggcguccccgccccucucggcgcc
cgaagcguuuacuuugaaaaaauuagaguguucaaagcaggcccgagccg
ccuggauaccgcagcuaggaauaauggaauaggaccgcgguucuauuuug
uugguuuucggaacugaggccaugauuaagagggacggccgggggcauuc
guauugcgccgcuagaggugaaauucuuggaccggcgcaagacggaccag
agcgaaagcauuugccaagaauguuuucauuaaucaagaacgaaagucgg
agguucgaagacgaucagauaccgucguaguuccgaccauaaacgaugcc
gaccggcgaugcggcggcguuauucccaugacccgccgggcagcuuccgg
gaaaccaaagucuuuggguuccggggggaguaugguugcaaagcugaaac
uuaaaggaauugacggaagggcaccaccaggaguggagccugcggcuuaa
uuugacucaacacgggaaaccucacccggcccggacacggacaggauuga
cagauugauagcucuuucucgauuccgugggugguggugcauggccguuc
uuaguugguggagcgauuugucugguuaauuccgauaacgaacgagacuc
uggcaugcuaacuaguuacgcgacccccgagcggucggcguccaacuucu
uagagggacaaguggcguucagccacccgagauugagcaauaacaggucu
gugaugcccuuagauguccggggcugcacgcgcgcuacacugacuggcuc
agcgugugccuacccuacgccggcaggcgcggguaacccguugaacccca
uucgugauggggaucggggauugcaauuauuccccaugaacgaggaauuc
ccaguaagugcgggucauaagcuugcguugauuaagucccugcccuuugu
acacaccgcccgucgcuacuaccgauuggaugguuuagugaggcccucgg
aucggccccgccggggcccuggcggagcgcugagaagacggucgaacuug
acuaucuagaggaaguaaaagucguaacaagguuuccguaggugaaccug
cggaaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7qvp A distinct mammalian disome collision interface harbors K63-linked polyubiquitination of uS10 to trigger hRQT-mediated subunit dissociation.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): V66 R98 R99 R106 K107 S108 N112 Q114 K115 R116 R118 S119 R120 T121 L122 T123 K178 G182
• Binding residue (residue number reindexed from 1): V58 R90 R91 R98 K99 S100 N102 Q104 K105 R106 R108 S109 R110 T111 L112 T113 K168 G172

Gene Ontology

Molecular Function

• GO:0003730 mRNA 3'-UTR binding
• GO:0003735 structural constituent of ribosome
• GO:0019901 protein kinase binding
• GO:0048027 mRNA 5'-UTR binding
• GO:1990948 ubiquitin ligase inhibitor activity

Biological Process

• GO:0001843 neural tube closure
• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0006412 translation
• GO:0010628 positive regulation of gene expression
• GO:0014033 neural crest cell differentiation
• GO:0042274 ribosomal small subunit biogenesis
• GO:0050821 protein stabilization
• GO:1902255 positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator
• GO:1904667 negative regulation of ubiquitin protein ligase activity
• GO:2000059 negative regulation of ubiquitin-dependent protein catabolic process

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005813 centrosome
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005856 cytoskeleton
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0032040 small-subunit processome
• GO:0032991 protein-containing complex
• GO:0045202 synapse
• GO:0098794 postsynapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7qvp, PDBe:7qvp, PDBj:7qvp
• PDBsum: 7qvp
• PubMed: 36302773
• UniProt: P62082|RS7_MOUSE Small ribosomal subunit protein eS7 (Gene Name=Rps7)