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A4XYD6

- PNP_PSEMY

UniProt

A4XYD6 - PNP_PSEMY

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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Pseudomonas mendocina (strain ymp)
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 bindingi488 – 4881MagnesiumUniRule annotation
Metal bindingi494 – 4941MagnesiumUniRule 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

BioCyciPMEN399739:GHR6-3665-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:Pmen_3604
OrganismiPseudomonas mendocina (strain ymp)
Taxonomic identifieri399739 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
ProteomesiUP000000229: 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 – 702702Polyribonucleotide nucleotidyltransferasePRO_0000329783Add
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

STRINGi399739.Pmen_3604.

Structurei

3D structure databases

ProteinModelPortaliA4XYD6.
SMRiA4XYD6. Positions 619-693.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini555 – 61460KHUniRule annotationAdd
BLAST
Domaini624 – 69269S1 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.
HOGENOMiHOG000218326.
KOiK00962.
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.

A4XYD6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNPVIKQFKF GQSTVTLETG RIARQASGAV LVTVDNDVTV LVTVVGAKTA
60 70 80 90 100
DPSKGFFPLS VHYQEKTYAA GKIPGGFFKR EGRPSEKETL TSRLIDRPIR
110 120 130 140 150
PLFPEGFMNE VQVVCTVVST SKKTDPDIAS MIGTSAALAV SGIPFNGPIG
160 170 180 190 200
AARVAFHPDT GYLLNPNYEQ LKASSLDMVV AGTETAVLMV ESEADELTED
210 220 230 240 250
QMLGAVLFAH QEFQAVIQAV KEFAAEAGKP TWNWQAPAAN TPLLDAIRSQ
260 270 280 290 300
FGEAISQAYT ITIKQDRYNR LDELREQVIA ALAGEGEGKF AADEVKAAFG
310 320 330 340 350
EIEYRTVRQN IVDGKPRIDG RDTRTVRPLK IEVGVLDKTH GSALFTRGET
360 370 380 390 400
QALVVATLGT ARDAQLLDTL EGEKKDPFML HYNFPPFSVG ECGRMGGAGR
410 420 430 440 450
REIGHGRLAR RGVAAMLPKD DEFPYTIRVV SEITESNGSS SMASVCGASL
460 470 480 490 500
ALMDAGVPMK APVAGIAMGL VLEGEKFAVL TDILGDEDHL GDMDFKVAGT
510 520 530 540 550
AKGVTALQMD IKIQGITEEI MEQALEQALE ARLNILGQMN QVISQSRTEL
560 570 580 590 600
SANAPTMLAM KIDQDKIRDV IGKGGATIRA ICEETKASID IEDDGSIKIF
610 620 630 640 650
GETKDAAEAA KQRVLAITAE AEIGKIYVGK VERIVDFGAF VNILPGKDGL
660 670 680 690 700
VHISMLSDQR VEKVTDVLKE GQEVKVLVLD VDNRGRIKLS IKDVAAAEAS

GV
Length:702
Mass (Da):75,496
Last modified:April 29, 2008 - v2
Checksum:i50649D1BE23BCD37
GO

Sequence cautioni

The sequence ABP86352.1 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000680 Genomic DNA. Translation: ABP86352.1. Different initiation.
RefSeqiYP_001189084.1. NC_009439.1.

Genome annotation databases

EnsemblBacteriaiABP86352; ABP86352; Pmen_3604.
GeneIDi5106151.
KEGGipmy:Pmen_3604.
PATRICi19913832. VBIPseMen131592_3653.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000680 Genomic DNA. Translation: ABP86352.1 . Different initiation.
RefSeqi YP_001189084.1. NC_009439.1.

3D structure databases

ProteinModelPortali A4XYD6.
SMRi A4XYD6. Positions 619-693.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 399739.Pmen_3604.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABP86352 ; ABP86352 ; Pmen_3604 .
GeneIDi 5106151.
KEGGi pmy:Pmen_3604.
PATRICi 19913832. VBIPseMen131592_3653.

Phylogenomic databases

eggNOGi COG1185.
HOGENOMi HOG000218326.
KOi K00962.
OrthoDBi EOG6WT8CC.

Enzyme and pathway databases

BioCyci PMEN399739:GHR6-3665-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ymp.

Entry informationi

Entry nameiPNP_PSEMY
AccessioniPrimary (citable) accession number: A4XYD6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: April 29, 2008
Last modified: October 29, 2014
This is version 52 of the entry and version 2 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