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C4K3E6

- PNP_HAMD5

UniProt

C4K3E6 - PNP_HAMD5

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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Hamiltonella defensa subsp. Acyrthosiphon pisum (strain 5AT)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'-direction.UniRule annotation

Catalytic activityi

RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate.UniRule annotation

Cofactori

Magnesium.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi486 – 4861MagnesiumUniRule annotation
Metal bindingi492 – 4921MagnesiumUniRule annotation

GO - Molecular functioni

  1. 3'-5'-exoribonuclease activity Source: InterPro
  2. magnesium ion binding Source: UniProtKB-HAMAP
  3. polyribonucleotide nucleotidyltransferase activity Source: UniProtKB-HAMAP
  4. RNA binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. mRNA catabolic process Source: UniProtKB-HAMAP
  2. RNA processing Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Ligandi

Magnesium, Metal-binding, RNA-binding

Enzyme and pathway databases

BioCyciHDEF572265:GJAB-327-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Polyribonucleotide nucleotidyltransferaseUniRule annotation (EC:2.7.7.8UniRule annotation)
Alternative name(s):
Polynucleotide phosphorylaseUniRule annotation
Short name:
PNPaseUniRule annotation
Gene namesi
Name:pnpUniRule annotation
Ordered Locus Names:HDEF_0327
OrganismiHamiltonella defensa subsp. Acyrthosiphon pisum (strain 5AT)
Taxonomic identifieri572265 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeaphid secondary symbiontsCandidatus Hamiltonella
ProteomesiUP000002334: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 716716Polyribonucleotide nucleotidyltransferasePRO_1000215662Add
BLAST

Interactioni

Subunit structurei

Component of the RNA degradosome, which is a multiprotein complex involved in RNA processing and mRNA degradation.UniRule annotation

Protein-protein interaction databases

STRINGi572265.HDEF_0327.

Structurei

3D structure databases

ProteinModelPortaliC4K3E6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini553 – 61260KHUniRule annotationAdd
BLAST
Domaini622 – 69069S1 motifUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the polyribonucleotide nucleotidyltransferase family.UniRule annotation
Contains 1 KH domain.UniRule annotation
Contains 1 S1 motif domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG1185.
KOiK00962.
OMAiPRWDWVA.
OrthoDBiEOG6WT8CC.

Family and domain databases

Gene3Di1.10.10.400. 1 hit.
2.40.50.140. 1 hit.
3.30.1370.10. 1 hit.
3.30.230.70. 2 hits.
HAMAPiMF_01595. PNPase.
InterProiIPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR012162. PNPase.
IPR027408. PNPase/RNase_PH_dom.
IPR015848. PNPase_PH_RNA-bd_bac/org-type.
IPR003029. Rbsml_prot_S1_RNA-bd_dom.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR022967. S1_dom.
[Graphical view]
PANTHERiPTHR11252. PTHR11252. 1 hit.
PfamiPF00013. 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]
PIRSFiPIRSF005499. PNPase. 1 hit.
SMARTiSM00322. KH. 1 hit.
SM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsiTIGR03591. polynuc_phos. 1 hit.
PROSITEiPS50084. KH_TYPE_1. 1 hit.
PS50126. S1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

C4K3E6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MFTPTICRFD YGQLKVTIET GMMARQATAA VMVIIEGTAV LVTVVAQKEA
60 70 80 90 100
KPGQTFFPLS VHYQERSYAV GRIPSNFFRR ETRPNEGETL TSRLIDRPIR
110 120 130 140 150
PLFPKDFLNE VQVIATVVSV NPKVNPDIVA MIGASAVLSL SGIPFHEPIG
160 170 180 190 200
AARVGFINGA YVLNPTPEEL KQSDLNLVVA GTKNAVLMVE SEANILTEEQ
210 220 230 240 250
MLGAIIFGHE QQQIVIESIN DLVKKAGKLK WPFTPKIVDE KLRSCITEED
260 270 280 290 300
KKDLSNAYLI TDKQERYAKL NEIKTNIIER ILKENETVNA EQIQDILYNF
310 320 330 340 350
EKNLVRQRIL KDEPRIDGRD KDMIRALHAC TGILPRTHGS ALFTRGETQA
360 370 380 390 400
LVTTTLGTSR DLQTIDDLMG ERSDSFLFHY NFPPYSVGET GMLGSPKRRE
410 420 430 440 450
IGHARLAKRA LMAVMPNIEE FPYTVRVVSE ITESNGSSSM ASVCGASLAL
460 470 480 490 500
MDAGVPIKSA VAGIAMGLVK EEDKFVVLSD ILGDEDHLGD MDFKVAGTSE
510 520 530 540 550
GITALQMDMK IQGITPEIMQ SALHHAKAAR LHILSVMNQV ISSASSTISQ
560 570 580 590 600
YAPHIYNIKI NPEKIKDVIG KGGAVIRALS DETDTKIDIS DDGNITIAAL
610 620 630 640 650
SQKSAAFAQQ RIEEITANIE VGRIYQGTVT RIADYGAFVS IASAKEGLVH
660 670 680 690 700
ISQIAEGRVE KVTDHLKLKQ QVSVKVLEID RQGRIRLSIK DAIADTSEHK
710
IEDTPVDSSF EESQKQ
Length:716
Mass (Da):78,838
Last modified:July 7, 2009 - v1
Checksum:i44FEC906A6FB6811
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001277 Genomic DNA. Translation: ACQ67089.1.
RefSeqiYP_002923237.1. NC_012751.1.

Genome annotation databases

EnsemblBacteriaiACQ67089; ACQ67089; HDEF_0327.
GeneIDi7949930.
KEGGihde:HDEF_0327.
PATRICi31972095. VBICanHam112931_0343.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001277 Genomic DNA. Translation: ACQ67089.1 .
RefSeqi YP_002923237.1. NC_012751.1.

3D structure databases

ProteinModelPortali C4K3E6.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 572265.HDEF_0327.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACQ67089 ; ACQ67089 ; HDEF_0327 .
GeneIDi 7949930.
KEGGi hde:HDEF_0327.
PATRICi 31972095. VBICanHam112931_0343.

Phylogenomic databases

eggNOGi COG1185.
KOi K00962.
OMAi PRWDWVA.
OrthoDBi EOG6WT8CC.

Enzyme and pathway databases

BioCyci HDEF572265:GJAB-327-MONOMER.

Family and domain databases

Gene3Di 1.10.10.400. 1 hit.
2.40.50.140. 1 hit.
3.30.1370.10. 1 hit.
3.30.230.70. 2 hits.
HAMAPi MF_01595. PNPase.
InterProi IPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR012162. PNPase.
IPR027408. PNPase/RNase_PH_dom.
IPR015848. PNPase_PH_RNA-bd_bac/org-type.
IPR003029. Rbsml_prot_S1_RNA-bd_dom.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR022967. S1_dom.
[Graphical view ]
PANTHERi PTHR11252. PTHR11252. 1 hit.
Pfami 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 ]
PIRSFi PIRSF005499. PNPase. 1 hit.
SMARTi SM00322. KH. 1 hit.
SM00316. S1. 1 hit.
[Graphical view ]
SUPFAMi SSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsi TIGR03591. polynuc_phos. 1 hit.
PROSITEi PS50084. KH_TYPE_1. 1 hit.
PS50126. S1. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Hamiltonella defensa, genome evolution of protective bacterial endosymbiont from pathogenic ancestors."
    Degnan P.H., Yu Y., Sisneros N., Wing R.A., Moran N.A.
    Proc. Natl. Acad. Sci. U.S.A. 106:9063-9068(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 5AT.

Entry informationi

Entry nameiPNP_HAMD5
AccessioniPrimary (citable) accession number: C4K3E6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 7, 2009
Last modified: October 29, 2014
This is version 39 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

External Data

Dasty 3