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Protein

NAD-dependent protein deacylase

Gene

cobB

Organism
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form. Deacetylates the N-terminal lysine residue of Alba, the major archaeal chromatin protein and that, in turn, increases Alba's DNA binding affinity, thereby repressing transcription.UniRule annotation

Catalytic activityi

NAD+ + an acetylprotein = nicotinamide + O-acetyl-ADP-ribose + a protein.UniRule annotation
NAD+ + a succinylprotein = nicotinamide + O-succinyl-ADP-ribose + a protein.UniRule annotation

Cofactori

Zn2+UniRule annotationNote: Binds 1 zinc ion per subunit.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei64SubstrateUniRule annotation1
Binding sitei67SubstrateUniRule annotation1
Active sitei116Proton acceptorUniRule annotation1
Metal bindingi124ZincUniRule annotation1
Metal bindingi127ZincUniRule annotation1
Metal bindingi151ZincUniRule annotation1
Metal bindingi154ZincUniRule annotation1
Binding sitei235NAD; via amide nitrogenUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi20 – 39NADUniRule annotationAdd BLAST20
Nucleotide bindingi98 – 101NADUniRule annotation4
Nucleotide bindingi191 – 193NADUniRule annotation3
Nucleotide bindingi217 – 219NADUniRule annotation3

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, NAD, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
NAD-dependent protein deacylaseUniRule annotation (EC:3.5.1.-UniRule annotation)
Alternative name(s):
Regulatory protein SIR2 homologUniRule annotation
Gene namesi
Name:cobBUniRule annotation
Ordered Locus Names:TK0685
OrganismiThermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Taxonomic identifieri69014 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
Proteomesi
  • UP000000536 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001103861 – 257NAD-dependent protein deacylaseAdd BLAST257

Interactioni

Protein-protein interaction databases

STRINGi69014.TK0685.

Structurei

3D structure databases

ProteinModelPortaliQ5JG47.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 251Deacetylase sirtuin-typeUniRule annotationAdd BLAST249

Domaini

2 residues (Tyr-64 and Arg-67) present in a large hydrophobic pocket are probably involved in substrate specificity. They are important for desuccinylation activity, but dispensable for deacetylation activity.UniRule annotation

Sequence similaritiesi

Belongs to the sirtuin family. Class III subfamily.UniRule annotation
Contains 1 deacetylase sirtuin-type domain.UniRule annotation

Phylogenomic databases

eggNOGiarCOG04248. Archaea.
COG0846. LUCA.
HOGENOMiHOG000085950.
InParanoidiQ5JG47.
KOiK12410.
OMAiLIHMHGE.

Family and domain databases

CDDicd01412. SIRT5_Af1_CobB. 1 hit.
Gene3Di3.30.1600.10. 2 hits.
3.40.50.1220. 3 hits.
HAMAPiMF_01121. Sirtuin_ClassIII. 1 hit.
InterProiIPR029035. DHS-like_NAD/FAD-binding_dom.
IPR003000. Sirtuin.
IPR026591. Sirtuin_cat_small_dom.
IPR027546. Sirtuin_class_III.
IPR026590. Ssirtuin_cat_dom.
[Graphical view]
PANTHERiPTHR11085. PTHR11085. 1 hit.
PfamiPF02146. SIR2. 1 hit.
[Graphical view]
SUPFAMiSSF52467. SSF52467. 1 hit.
PROSITEiPS50305. SIRTUIN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5JG47-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLGHAAKLLA RARFAIAFTG AGISAESGIP TFRGRNGLWK TYRAEELATP
60 70 80 90 100
EAFKRDPHLV WEFYKWRMRK ILKAEPNPAH KALAELENMG VLKAVITQNV
110 120 130 140 150
DDLHREAGSR KVVELHGNIF RVRCVSCSYR ENLKESGRVF EFVREKELPK
160 170 180 190 200
CPKCGSLLRP DVVWFGEPLP REALEEAFSL AERADVVLVV GTSGVVYPAA
210 220 230 240 250
YVPYIVKERG GKVIEVNVER SGITPIADVF IRGKAGEVMP ELLRRVKDIM

AERNHYG
Length:257
Mass (Da):28,899
Last modified:February 15, 2005 - v1
Checksum:i4488A0BDB3D822D5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA. Translation: BAD84874.1.
RefSeqiWP_011249636.1. NC_006624.1.

Genome annotation databases

EnsemblBacteriaiBAD84874; BAD84874; TK0685.
GeneIDi3235398.
KEGGitko:TK0685.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA. Translation: BAD84874.1.
RefSeqiWP_011249636.1. NC_006624.1.

3D structure databases

ProteinModelPortaliQ5JG47.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi69014.TK0685.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAD84874; BAD84874; TK0685.
GeneIDi3235398.
KEGGitko:TK0685.

Phylogenomic databases

eggNOGiarCOG04248. Archaea.
COG0846. LUCA.
HOGENOMiHOG000085950.
InParanoidiQ5JG47.
KOiK12410.
OMAiLIHMHGE.

Family and domain databases

CDDicd01412. SIRT5_Af1_CobB. 1 hit.
Gene3Di3.30.1600.10. 2 hits.
3.40.50.1220. 3 hits.
HAMAPiMF_01121. Sirtuin_ClassIII. 1 hit.
InterProiIPR029035. DHS-like_NAD/FAD-binding_dom.
IPR003000. Sirtuin.
IPR026591. Sirtuin_cat_small_dom.
IPR027546. Sirtuin_class_III.
IPR026590. Ssirtuin_cat_dom.
[Graphical view]
PANTHERiPTHR11085. PTHR11085. 1 hit.
PfamiPF02146. SIR2. 1 hit.
[Graphical view]
SUPFAMiSSF52467. SSF52467. 1 hit.
PROSITEiPS50305. SIRTUIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNPD_THEKO
AccessioniPrimary (citable) accession number: Q5JG47
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: February 15, 2005
Last modified: November 2, 2016
This is version 86 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.