C6WIE4 (PAFA_ACTMD) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Pup--protein ligase
EC=6.3.2.n2

Alternative name(s):
Proteasome accessory factor A
Pup-conjugating enzyme

Gene names

Name:	pafA
Ordered Locus Names:	Amir_2247

Organism

Actinosynnema mirum (strain ATCC 29888 / DSM 43827 / NBRC 14064 / IMRU 3971) [Complete proteome] [HAMAP]

Taxonomic identifier

446462 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Actinobacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Pseudonocardineae › Pseudonocardiaceae › Actinosynnema › Actinosynnema mirum

Protein attributes

Sequence length	452 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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 By similarity. HAMAP-Rule MF_02111
Catalytic activity	ATP + [Pup] + [protein]-lysine = ADP + phosphate + [protein]-N-pupyllysine. HAMAP-Rule MF_02111
Pathway	Protein degradation; proteasomal pup-dependent pathway. HAMAP-Rule MF_02111 Protein modification; protein pupylation. HAMAP-Rule MF_02111
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 By similarity. HAMAP-Rule MF_02111
Sequence similarities	Belongs to the Pup ligase/Pup deamidase family. Pup-conjugating enzyme subfamily.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Ligand	ATP-binding Nucleotide-binding
Molecular function	Ligase
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	modification-dependent protein catabolic process Inferred from electronic annotation. Source: HAMAP proteasomal protein catabolic process Inferred from electronic annotation. Source: HAMAP protein pupylation Inferred from electronic annotation. Source: HAMAP
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP small conjugating protein ligase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 452	452	Pup--protein ligase HAMAP-Rule MF_02111		PRO_0000395891
Regions
	Nucleotide binding	7 – 11	5	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	C6WIE4 [UniParc]. Last modified September 22, 2009. Version 1. Checksum: B3D3D861D86BCC59	FASTA	452	51,144
	10 20 30 40 50 60 MQRRIFGIET EFGVTCTFHG QRRLSPDEVA RYLFRRVVSW GRSSNVFLRN GSRLYLDVGS 70 80 90 100 110 120 HPEYATAECD DLAQLVSHDK AGERILEDLL VDAERRLADE GIGGDIFLFK NNTDSAGNSY 130 140 150 160 170 180 GCHENYLVAR AGEFSRIADV LLPFLVTRQL ICGAGKVLQT PRGAVYCLSQ RAEHIWEGVS 190 200 210 220 230 240 SATTRSRPII NTRDEPHADA ERYRRLHVIV GDSNMSEVTT LLKVGSANLV LEMIEQGVQF 250 260 270 280 290 300 RDFSLDNPIR AIREISHDLT GRRTVKLAGG KEASALDIQR EYYERAVEHV AKRSPDPMAE 310 320 330 340 350 360 RVLELWGRTL DAIAAQDLSK IDREIDWAIK HRLLERYQAK HDMDLSNPRI AQLDLAYHDI 370 380 390 400 410 420 RRGRGVFDLL QRKGQVERVT DDGEIEAAKD TPPQTTRAKL RGDFIAAAQA AGRDFTVDWV 430 440 450 HLKLNDQAQR TVLCKDPFRA VDERVERLIA SL

References

[1]

"Complete genome sequence of Actinosynnema mirum type strain (101)." Land M., Lapidus A., Mayilraj S., Chen F., Copeland A., Del Rio T.G., Nolan M., Lucas S., Tice H., Cheng J.F., Chertkov O., Bruce D., Goodwin L., Pitluck S., Rohde M., Goker M., Pati A., Ivanova N. , Mavromatis K., Chen A., Palaniappan K., Hauser L., Chang Y.J., Jeffries C.C., Brettin T., Detter J.C., Han C., Chain P., Tindall B.J., Bristow J., Eisen J.A., Markowitz V., Hugenholtz P., Kyrpides N.C., Klenk H.P. Stand. Genomic Sci. 1:46-53(2009) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 29888 / DSM 43827 / NBRC 14064 / IMRU 3971.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001630 Genomic DNA. Translation: ACU36187.1.
RefSeq	YP_003100033.1. NC_013093.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	446462.Amir_2247.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ACU36187; ACU36187; Amir_2247.
GeneID	8326436.
KEGG	ami:Amir_2247.
PATRIC	20767401. VBIActMir80567_2309.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	NOG04175.
HOGENOM	HOG000264267.
KO	K13571.
OMA	HDKAGER.
ProtClustDB	CLSK872004.
Enzyme and pathway databases
BioCyc	AMIR446462:GH7R-2292-MONOMER.
UniPathway	UPA00997. UPA00998.
Family and domain databases
HAMAP	MF_02111. Pup_ligase.
InterPro	IPR022279. Pup_ligase. IPR004347. Pup_ligase/deamidase. [Graphical view]
Pfam	PF03136. Pup_ligase. 1 hit. [Graphical view]
PIRSF	PIRSF018077. UCP018077. 1 hit.
TIGRFAMs	TIGR03686. pupylate_PafA. 1 hit.
ProtoNet	Search...

Entry information

Entry name

PAFA_ACTMD

Accession

Primary (citable) accession number: C6WIE4

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 10, 2010
Last sequence update:	September 22, 2009
Last modified:	May 1, 2013
This is version 30 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program