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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi526 – 5261MagnesiumUniRule annotation
Metal bindingi532 – 5321MagnesiumUniRule 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

BioCyciMSME246196:GJ4Y-2656-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
Synonyms:gpsI
Ordered Locus Names:MSMEG_2656, MSMEI_2593
OrganismiMycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Taxonomic identifieri246196 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeMycobacteriaceaeMycobacterium
ProteomesiUP000000757: Chromosome, UP000006158: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 763762Polyribonucleotide nucleotidyltransferasePRO_0000329720Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi246196.MSMEG_2656.

Structurei

3D structure databases

ProteinModelPortaliA0QVQ5.
SMRiA0QVQ5. Positions 13-726.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini592 – 65160KHUniRule annotationAdd
BLAST
Domaini663 – 73270S1 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.
OMAiRFMFHYN.
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.
IPR014069. pppGpp_PNP.
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]
SUPFAMiSSF46915. SSF46915. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsiTIGR03591. polynuc_phos. 1 hit.
TIGR02696. pppGpp_PNP. 1 hit.
PROSITEiPS50084. KH_TYPE_1. 1 hit.
PS50126. S1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

A0QVQ5-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSVVELEDGV YESTAVIDNG SFGTRTIRFE TGRLAQQAAG SAVAYLDDET
60 70 80 90 100
MLLSATTASK NPKDHFDFFP LTVDVEERMY AAGRIPGSFF RREGRPSTDA
110 120 130 140 150
ILTCRLIDRP LRPSFVDGLR NEIQVVVTVM SLDPKDLYDV LAINAASMST
160 170 180 190 200
QLAGLPFSGP VGGARIALID GTWVAFPTVE QLERAVFDMV VAGRIVGDGD
210 220 230 240 250
SADVAIMMVE AEATENVVEL VAGGAQAPTE AVVAEGLEAA KPFIKALCAA
260 270 280 290 300
QQELADRAAK PAGEYPVFPD YEADVYDAVA SVATEALAEA LTIAGKTERN
310 320 330 340 350
DRTDEIKVEV LERLAEPYAG REKEIGAAFR SLTKKLVRQR ILTDHFRIDG
360 370 380 390 400
RGITDIRALS AEVAVIPRAH GSALFERGET QILGVTTLDM IKMAQQIDSL
410 420 430 440 450
GPENTKRYMH HYNFPPYSTG ETGRVGSPKR REIGHGALAE RALVPVLPSI
460 470 480 490 500
EEFPYAIRQV SEALGSNGST SMGSVCASTL ALLNAGVPLK APVAGIAMGL
510 520 530 540 550
VSDDVDVDGK VEKRYVALTD ILGAEDAFGD MDFKVAGTKD FVTALQLDTK
560 570 580 590 600
LDGIPSQVLA GALSQAKDAR LTILDVMAEA IDRPDEMSPY APRITTIKVP
610 620 630 640 650
VDKIGEVIGP KGKMINSITE ETGAQISIED DGTVFVGAAD GLSAQAAIDK
660 670 680 690 700
INAIANPQLP KVGERFLGTV VKTTDFGAFV SLLPGRDGLV HISKLGKGKR
710 720 730 740 750
IAKVEDVVKV GDKLRVEIAD IDNRGKISLV LVAEESAESA ESAGDKGAEK
760
AEGAAADVTP AEA
Length:763
Mass (Da):81,027
Last modified:January 9, 2007 - v1
Checksum:i0F11A001A82BAC12
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000480 Genomic DNA. Translation: ABK73464.1.
CP001663 Genomic DNA. Translation: AFP39061.1.
RefSeqiYP_006567356.1. NC_018289.1.
YP_886993.1. NC_008596.1.

Genome annotation databases

EnsemblBacteriaiABK73464; ABK73464; MSMEG_2656.
AFP39061; AFP39061; MSMEI_2593.
GeneIDi4532155.
KEGGimsm:MSMEG_2656.
PATRICi18077740. VBIMycSme59918_2622.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000480 Genomic DNA. Translation: ABK73464.1.
CP001663 Genomic DNA. Translation: AFP39061.1.
RefSeqiYP_006567356.1. NC_018289.1.
YP_886993.1. NC_008596.1.

3D structure databases

ProteinModelPortaliA0QVQ5.
SMRiA0QVQ5. Positions 13-726.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi246196.MSMEG_2656.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK73464; ABK73464; MSMEG_2656.
AFP39061; AFP39061; MSMEI_2593.
GeneIDi4532155.
KEGGimsm:MSMEG_2656.
PATRICi18077740. VBIMycSme59918_2622.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciMSME246196:GJ4Y-2656-MONOMER.

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.
IPR014069. pppGpp_PNP.
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]
SUPFAMiSSF46915. SSF46915. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF54211. SSF54211. 2 hits.
SSF54791. SSF54791. 1 hit.
SSF55666. SSF55666. 2 hits.
TIGRFAMsiTIGR03591. polynuc_phos. 1 hit.
TIGR02696. pppGpp_PNP. 1 hit.
PROSITEiPS50084. KH_TYPE_1. 1 hit.
PS50126. S1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Fleischmann R.D., Dodson R.J., Haft D.H., Merkel J.S., Nelson W.C., Fraser C.M.
    Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  2. "Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?"
    Deshayes C., Perrodou E., Gallien S., Euphrasie D., Schaeffer C., Van-Dorsselaer A., Poch O., Lecompte O., Reyrat J.-M.
    Genome Biol. 8:R20.1-R20.9(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700084 / mc(2)155.
  3. "Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol."
    Gallien S., Perrodou E., Carapito C., Deshayes C., Reyrat J.-M., Van Dorsselaer A., Poch O., Schaeffer C., Lecompte O.
    Genome Res. 19:128-135(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE.
    Strain: ATCC 700084 / mc(2)155.

Entry informationi

Entry nameiPNP_MYCS2
AccessioniPrimary (citable) accession number: A0QVQ5
Secondary accession number(s): I7G725
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: January 9, 2007
Last modified: February 4, 2015
This is version 66 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.