Reviewed, UniProtKB/Swiss-Prot Q0BDC6 (PNP_BURCM)

Names and origin

Protein names

Recommended name:
    Polyribonucleotide nucleotidyltransferase
    EC=2.7.7.8
Alternative name(s):
    Polynucleotide phosphorylase
      Short name=PNPase

Gene names

Name:	pnp
Ordered Locus Names:	Bamb_2291

Organism

Burkholderia ambifaria (strain ATCC BAA-244 / AMMD) (Burkholderia cepacia (strain AMMD)) [Complete proteome] [HAMAP]

Taxonomic identifier

339670 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Betaproteobacteria › Burkholderiales › Burkholderiaceae › Burkholderia › Burkholderia cepacia complex

Protein attributes

Sequence length	714 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3'- to 5'-direction By similarity.
Catalytic activity	RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate. HAMAP MF_01595
Subunit structure	Homotrimer. Organized into a structure (processome or RNA degradosome) containing a number of RNA-processing enzymes By similarity.
Subcellular location	Cytoplasm By similarity.
Sequence similarities	Belongs to the polyribonucleotide nucleotidyltransferase family. Contains 1 KH domain. Contains 1 S1 motif domain.

Ontologies

Keywords
Cellular component	Cytoplasm
Ligand	RNA-binding
Molecular function	Nucleotidyltransferase Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	RNA processing Inferred from electronic annotation. Source: InterPro mRNA catabolic process Inferred from electronic annotation. Source: HAMAP
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	3'-5'-exoribonuclease activity Inferred from electronic annotation. Source: InterPro RNA binding Inferred from electronic annotation. Source: UniProtKB-KW polyribonucleotide nucleotidyltransferase 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 – 714	714	Polyribonucleotide nucleotidyltransferase HAMAP MF_01595		PRO_0000329553
Regions
	Domain	560 – 619	60	KH
	Domain	629 – 697	69	S1 motif

Sequences

	Sequence		Length	Mass (Da)
	Q0BDC6-1 [UniParc]. Last modified October 17, 2006. Version 1. Checksum: 113B5BE21B149D57	FASTA	714	77,008
	10 20 30 40 50 60 MSMFNKVVKE FQWGQHKVRL ETGEVARQAS GAVIVDVEDT VVLATVVGAK SAKPGQDFFP 70 80 90 100 110 120 LTVDYLEKTY SAGKIPGGFF RREGRPSEHE TLTSRLIDRP LRPLFPEGFY NEVQVVIHVL 130 140 150 160 170 180 SVNPEIPADI PALIGASAAL AVSGLPFNGP VGAARVAYID NAYVLNPTRD QLKASSLDLV 190 200 210 220 230 240 VAGTERAVLM VESEADQLPE DVMLGAVVFG HEQMQTAIDA IHELVREGGK PEWDWQPAPK 250 260 270 280 290 300 NEALIARVTE LAHGDLLAAY QLRDKQARST KLKEVYAATS AKLEEDAQAA GTVAADKATV 310 320 330 340 350 360 GNVLFDIEAK IVRSQILNGE PRIDGRDTRT VRPIEIRTGV LPRTHGSALF TRGETQALVV 370 380 390 400 410 420 ATLGTKGDEQ IIDALEGEYR ERFMLHYNMP PFATGETGRV GSPKRREIGH GRLAKRALVK 430 440 450 460 470 480 CLPSADEFGY SIRVVSEITE SNGSSSMASV CGGCLALMDA GVPMKAHVAG IAMGLILEGN 490 500 510 520 530 540 KFAVLTDILG DEDHLGDMDF KVAGTEQGVT ALQMDIKIQG ITKEIMQVAL AQAKEGRMHI 550 560 570 580 590 600 LGKMTSAVSG ANTQLSEFAP RMITIKINPE KIRDVIGKGG SVIRALTEET GTTIDISDDG 610 620 630 640 650 660 VVTIASTSSE GMAEAKKRIE NITVEIEVGQ VYEGTVLKLL DFGAIVNLLP GKDGLLHISE 670 680 690 700 710 IVNERVKDIN DYLKEGQQVK VKVIQTDEKG RVRLSAKALL NEAAASQSDT PPQQ

References

[1]

"Complete sequence of chromosome 1 of Burkholderia cepacia AMMD." Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Pitluck S., Bruce D., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M., Hauser L. , Kyrpides N., Kim E., Parke J., Coenye T., Konstantinidis K., Ramette A., Tiedje J., Richardson P. Submitted (AUG-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000440 Genomic DNA. Translation: ABI87847.1.
RefSeq	YP_774181.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4309088.
GenomeReviews	Gene locus Bamb_2291 in contig CP000440_GR.
KEGG	bam:Bamb_2291.
NMPDR	fig|339670.3.peg.5589.
Organism-specific databases
CMR	Search...
Phylogenomic databases
OMA	Q0BDC6. GHGNLAK.
Family and domain databases
HAMAP	MF_01595. [Tree]
InterPro	IPR001247. ExoRNase_PH_dom1. IPR015847. ExoRNase_PH_dom2. IPR004087. KH. IPR004088. KH_type_1. IPR018111. KH_type_1_subgr. IPR012340. NA-bd_OB-fold. IPR012162. PNPase. IPR015848. PNPase_PH_RNA-bd_bac/org-type. IPR003029. Rbsml_prot_S1_RNA-bd_dom. [Graphical view]
Gene3D	G3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit. G3DSA:1.10.10.400. PNPase_PH_RNA-bd_bac/org-type. 1 hit.
PANTHER	PTHR11252. PNPase. 1 hit.
Pfam	PF00013. KH_1. 1 hit. PF03726. PNPase. 1 hit. PF01138. RNase_PH. 2 hits. PF03725. RNase_PH_C. 2 hits. PF00575. S1. 1 hit. [Graphical view]
PIRSF	PIRSF005499. PNPase. 1 hit.
SMART	SM00322. KH. 1 hit. [Graphical view]
TIGRFAMs	TIGR03591. Polynuc_phos. 1 hit.
PROSITE	PS50084. KH_TYPE_1. 1 hit. PS50126. S1. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

PNP_BURCM

Accession

Primary (citable) accession number: Q0BDC6

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 29, 2008
Last sequence update:	October 17, 2006
Last modified:	June 16, 2009
This is version 18 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)