Structure of PDB 4fk5 Chain A

Receptor sequence
>4fk5A (length=437) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence]
AAMSICPHIQQVFQNEKSKDGVLKTCNAARYILNHSVPKEKFLNTMKCGT
CHEINSGATFMCLQCGFCGCWNHSHFLSHSKQIGHIFGINSNNGLLFCFK
CEDYIGNIDLINDAILAKYWDDVCTKTMVPSMERRDGLSGLINMGNTCFM
SSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGAL
STNRQTGFIYLLTCAWKINQQQDAHEFWQFIINQIHQSYVLDLPNAKEVS
RANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKDKK
KLYECLDSFHKKEQCGECNSAIKQLGIHKLPSVLVLQLKRFEHLLNGSNR
KLDDFIEFPTYLNMKNYCSTKVPDIIYELIGIVSHKGTVNEGHYIAFCKI
SGGQWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN
3D structure
PDB4fk5 A Role for Intersubunit Interactions in Maintaining SAGA Deubiquitinating Module Structure and Activity.
ChainA
Resolution2.032 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) N143 C148 H393 N409
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 C6 H8 C98 C101
BS02 ZN A C46 C49 C68 H73 C48 C51 C70 H75
BS03 ZN A C60 C63 H77 H83 C62 C65 H79 H85
BS04 ZN A H170 C174 C182 C185 H172 C176 C184 C187
BS05 ZN A H250 C271 C273 H276 H236 C257 C259 H262
BS06 ZN A C289 C292 C336 C275 C278 C315
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:4fk5, PDBe:4fk5, PDBj:4fk5
PDBsum4fk5
PubMed22771212
UniProtP50102|UBP8_YEAST Ubiquitin carboxyl-terminal hydrolase 8 (Gene Name=UBP8)

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