Structure of PDB 8c83 Chain x Binding Site BS01

Receptor Information

>8c83 Chain x (length=259) Species: 4932 (Saccharomyces cerevisiae)

MEDILARHRKENKDLQNKITGMKKQATKSKRKEVNSKCLDLQDKLKTKQE
NEIRDWKIANVTPEKLLEQLSNRQKERLAKRDAAIAKMKEEAALEASKQP
DLKKMEQESIDQLCELKKLKQFDIQPDGHSLFASILDQLKLRHDPKKLDQ
DMDVMKLRWLSCNYVQEHRDDFIPYLFDEETMKMKDIDEYTKEMEHTAQW
GGEIEILALSHVFDCPISILMSGRPIQVYNECGKNPELKLVYYKHSYALG
EHYNSLHDS

Ligand information

>8c83 Chain 2 (length=1177)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguucacaugguauaacugugguaa
uucuagagcuaauacaugcuuaaaaucucgacccuuuggaagagauguau
uuauuagauaaaaaaucaaugucuucggacucuuugaugauucauaauaa
cuuuucgaaucgcauggccuugugcuggcgaugguucauucaaauuucug
cccuaucaacuuucgaugguaggauaguggccuaccaugguuucaacggg
uaacggggaauaaggguucgauuccggagagggagccugagaaacggcua
ccacauccaaggaaggcagcaggcgcgcaaauuacccaauccuaauucag
ggagguagugacaauaaauaacgauacagggcccauucgggucuuguaau
uggaaugaguacaauguaaauaccuuaacgaggaacaauuggagggcaag
ucuggugccagcagccgcgguaauuccagcuccaauagcguauauuaaag
uuguugcaguuaaaaagcucguaguugaacuuugggcccgguuggccggu
cggauuuccaacggggccuuuccuucuggcuaaccuugagcuuggcgaac
caggacuuuuacuuugaaaaaauuagaguguucaaagcaggcguauugcu
cgaauauauuagcauggaauaauagaauaggacguuugguucuauuuugu
ugguuucuaggaccaucguaaugauuaauagggacggucgggggcaucca
aggacguuuucauuaaucaagaacgacauaaacuaugccgacuagggauc
gggugguguuuuuuuaaugacccacucggcaccuuacgagaaaucaaagu
cuuuggguucuggggggaguauggucgcaaggcugaaacuuaaaggaauu
gacuuuguacacaccgcccgucgcuaguaccgauugaauggcuuagugag
gccucaggaucugcuuagagaagggggcaacuccaucucagagcggagaa
uuuggacaaacuuggucauuuagaggaacuaaaagucguaacaagguuuc
cguaggugaaccugcggaaggaucauu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8c83 Molecular basis for recognition and deubiquitination of 40S ribosomes by Otu2.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): D26 N29 K30 T32 G33 M34 K36 Q37 T39 K40 K42 R43 K44 E45 R121 Q122 R125
• Binding residue (residue number reindexed from 1): D14 N17 K18 T20 G21 M22 K24 Q25 T27 K28 K30 R31 K32 E33 R73 Q74 R77

Gene Ontology

Molecular Function

• GO:0003674 molecular_function
• GO:0004843 cysteine-type deubiquitinase activity

Biological Process

• GO:0008150 biological_process
• GO:0016579 protein deubiquitination

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:8c83, PDBe:8c83, PDBj:8c83
• PDBsum: 8c83
• PubMed: 37169754
• UniProt: P38747|OTU2_YEAST OTU domain-containing protein 2 (Gene Name=OTU2)