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Protein

Pup--protein ligase

Gene

pafA

Organism
Actinosynnema mirum (strain ATCC 29888 / DSM 43827 / NBRC 14064 / IMRU 3971)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Catalyzes the covalent attachment of the prokaryotic ubiquitin-like protein modifier Pup to the proteasomal substrate proteins, thereby targeting them for proteasomal degradation. This tagging system is termed pupylation. The ligation reaction involves the side-chain carboxylate of the C-terminal glutamate of Pup and the side-chain amino group of a substrate lysine.UniRule annotation

Miscellaneous

The reaction mechanism probably proceeds via the activation of Pup by phosphorylation of its C-terminal glutamate, which is then subject to nucleophilic attack by the substrate lysine, resulting in an isopeptide bond and the release of phosphate as a good leaving group.UniRule annotation

Catalytic activityi

ATP + [prokaryotic ubiquitin-like protein]-L-glutamate + [protein]-L-lysine = ADP + phosphate + N6-([prokaryotic ubiquitin-like protein]-gamma-L-glutamyl)-[protein]-L-lysine.UniRule annotation

Pathwayi: proteasomal Pup-dependent pathway

This protein is involved in the pathway proteasomal Pup-dependent pathway, which is part of Protein degradation.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway proteasomal Pup-dependent pathway and in Protein degradation.

Pathwayi: protein pupylation

This protein is involved in the pathway protein pupylation, which is part of Protein modification.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway protein pupylation and in Protein modification.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi9MagnesiumUniRule annotation1
Binding sitei53ATPUniRule annotation1
Metal bindingi55MagnesiumUniRule annotation1
Active sitei57Proton acceptorUniRule annotation1
Metal bindingi63MagnesiumUniRule annotation1
Binding sitei66ATP; via carbonyl oxygenUniRule annotation1
Binding sitei419ATPUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigase
Biological processUbl conjugation pathway
LigandATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciAMIR446462:G1GEY-2272-MONOMER
UniPathwayi
UPA00997

UPA00998

Protein family/group databases

MEROPSiU72.001

Names & Taxonomyi

Protein namesi
Recommended name:
Pup--protein ligaseUniRule annotation (EC:6.3.1.19UniRule annotation)
Alternative name(s):
Proteasome accessory factor AUniRule annotation
Pup-conjugating enzymeUniRule annotation
Gene namesi
Name:pafAUniRule annotation
Ordered Locus Names:Amir_2247
OrganismiActinosynnema mirum (strain ATCC 29888 / DSM 43827 / NBRC 14064 / IMRU 3971)
Taxonomic identifieri446462 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaPseudonocardialesPseudonocardiaceaeActinosynnema
Proteomesi
  • UP000002213 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003958911 – 452Pup--protein ligaseAdd BLAST452

Proteomic databases

PRIDEiC6WIE4

Interactioni

Protein-protein interaction databases

STRINGi446462.Amir_2247

Structurei

3D structure databases

SMRiC6WIE4
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the Pup ligase/Pup deamidase family. Pup-conjugating enzyme subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105DVV Bacteria
ENOG410XPTE LUCA
HOGENOMiHOG000264267
KOiK13571
OMAiCVSQRAE
OrthoDBiPOG091H0B56

Family and domain databases

HAMAPiMF_02111 Pup_ligase, 1 hit
InterProiView protein in InterPro
IPR022279 Pup_ligase
IPR004347 Pup_ligase/deamidase
PANTHERiPTHR42307 PTHR42307, 1 hit
PfamiView protein in Pfam
PF03136 Pup_ligase, 1 hit
PIRSFiPIRSF018077 UCP018077, 1 hit
TIGRFAMsiTIGR03686 pupylate_PafA, 1 hit

Sequencei

Sequence statusi: Complete.

C6WIE4-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MQRRIFGIET EFGVTCTFHG QRRLSPDEVA RYLFRRVVSW GRSSNVFLRN
60 70 80 90 100
GSRLYLDVGS HPEYATAECD DLAQLVSHDK AGERILEDLL VDAERRLADE
110 120 130 140 150
GIGGDIFLFK NNTDSAGNSY GCHENYLVAR AGEFSRIADV LLPFLVTRQL
160 170 180 190 200
ICGAGKVLQT PRGAVYCLSQ RAEHIWEGVS SATTRSRPII NTRDEPHADA
210 220 230 240 250
ERYRRLHVIV GDSNMSEVTT LLKVGSANLV LEMIEQGVQF RDFSLDNPIR
260 270 280 290 300
AIREISHDLT GRRTVKLAGG KEASALDIQR EYYERAVEHV AKRSPDPMAE
310 320 330 340 350
RVLELWGRTL DAIAAQDLSK IDREIDWAIK HRLLERYQAK HDMDLSNPRI
360 370 380 390 400
AQLDLAYHDI RRGRGVFDLL QRKGQVERVT DDGEIEAAKD TPPQTTRAKL
410 420 430 440 450
RGDFIAAAQA AGRDFTVDWV HLKLNDQAQR TVLCKDPFRA VDERVERLIA

SL
Length:452
Mass (Da):51,144
Last modified:September 22, 2009 - v1
Checksum:iB3D3D861D86BCC59
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001630 Genomic DNA Translation: ACU36187.1
RefSeqiWP_015801076.1, NC_013093.1

Genome annotation databases

EnsemblBacteriaiACU36187; ACU36187; Amir_2247
KEGGiami:Amir_2247

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001630 Genomic DNA Translation: ACU36187.1
RefSeqiWP_015801076.1, NC_013093.1

3D structure databases

SMRiC6WIE4
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi446462.Amir_2247

Protein family/group databases

MEROPSiU72.001

Proteomic databases

PRIDEiC6WIE4

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACU36187; ACU36187; Amir_2247
KEGGiami:Amir_2247

Phylogenomic databases

eggNOGiENOG4105DVV Bacteria
ENOG410XPTE LUCA
HOGENOMiHOG000264267
KOiK13571
OMAiCVSQRAE
OrthoDBiPOG091H0B56

Enzyme and pathway databases

UniPathwayi
UPA00997

UPA00998

BioCyciAMIR446462:G1GEY-2272-MONOMER

Family and domain databases

HAMAPiMF_02111 Pup_ligase, 1 hit
InterProiView protein in InterPro
IPR022279 Pup_ligase
IPR004347 Pup_ligase/deamidase
PANTHERiPTHR42307 PTHR42307, 1 hit
PfamiView protein in Pfam
PF03136 Pup_ligase, 1 hit
PIRSFiPIRSF018077 UCP018077, 1 hit
TIGRFAMsiTIGR03686 pupylate_PafA, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiPAFA_ACTMD
AccessioniPrimary (citable) accession number: C6WIE4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 10, 2010
Last sequence update: September 22, 2009
Last modified: October 10, 2018
This is version 57 of the entry and version 1 of the sequence. See 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
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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