Structure of PDB 4wa6 Chain A

Receptor sequence
>4wa6A (length=440) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence]
MSICPHIQQVFQNEKSKDGVLKTCNAARYILNHSVPKEKFLNTMKCGTCH
EINSGATFMCLQCGFCGCWNHSHFLSHSKQIGHIFGINSNNGLLFCFKCE
DYIGNIDLINDAILAKYWDDVCTKTMVPSMERRDGLSGLINMGSTCFMSS
ILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGALNR
QTGFIYLLTCAWKIQDAHEFWQFIINQIHQSYVLDLPNAKEVSRANNKQC
ECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKDKKKLYECLD
SFHKKEQLKDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNG
SNRKLDDFIEFPTYLNMKNYCSTKVPDIIYELIGIVSHKGTVNEGHYIAF
CKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN
3D structure
PDB4wa6 Structure of yeast SAGA DUBm with Sgf73 N59D mutant at 2.36 angstroms resolution
ChainA
Resolution2.36 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) N141 C146 H427 N443
Catalytic site (residue number reindexed from 1) N141 C146 H396 N412
Enzyme Commision number 3.4.19.12: ubiquitinyl hydrolase 1.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 ZN A C4 H6 C96 C99 C4 H6 C96 C99
BS02 ZN A C46 C49 C68 H73 C46 C49 C68 H73
BS03 ZN A C60 C63 H77 H83 C60 C63 H77 H83
BS04 ZN A H170 C174 C182 C185 H170 C174 C182 C185
BS05 ZN A H250 C271 C273 H276 H229 C250 C252 H255
BS06 ZN A C289 C292 C336 C339 C268 C271 C315 C318
Gene Ontology
Molecular Function
GO:0004843 cysteine-type deubiquitinase activity
GO:0005515 protein binding
GO:0008234 cysteine-type peptidase activity
GO:0008270 zinc ion binding
GO:0046872 metal ion binding
GO:0060090 molecular adaptor activity
Biological Process
GO:0006357 regulation of transcription by RNA polymerase II
GO:0006508 proteolysis
GO:0008380 RNA splicing
GO:0016579 protein deubiquitination
Cellular Component
GO:0000124 SAGA complex
GO:0005634 nucleus
GO:0046695 SLIK (SAGA-like) complex
GO:0071819 DUBm complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:4wa6, PDBe:4wa6, PDBj:4wa6
PDBsum4wa6
PubMed
UniProtP50102|UBP8_YEAST Ubiquitin carboxyl-terminal hydrolase 8 (Gene Name=UBP8)

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