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Protein

Polyribonucleotide nucleotidyltransferase 4

Gene

pnp4

Organism
Alkaliphilus metalliredigens (strain QYMF)
Status
Reviewed-Annotation score: 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

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi483 – 4831MagnesiumUniRule annotation
Metal bindingi489 – 4891MagnesiumUniRule 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

BioCyciAMET293826:GI5P-2712-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Polyribonucleotide nucleotidyltransferase 4UniRule annotation (EC:2.7.7.8UniRule annotation)
Alternative name(s):
Polynucleotide phosphorylase 4UniRule annotation
Short name:
PNPase 4UniRule annotation
Gene namesi
Name:pnp4UniRule annotation
Ordered Locus Names:Amet_2667
OrganismiAlkaliphilus metalliredigens (strain QYMF)
Taxonomic identifieri293826 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesClostridiaceaeAlkaliphilus
ProteomesiUP000001572 Componenti: Chromosome

Subcellular locationi

  1. 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
Chaini1 – 704704Polyribonucleotide nucleotidyltransferase 4PRO_0000329494Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi293826.Amet_2667.

Structurei

3D structure databases

ProteinModelPortaliA6TRK1.
SMRiA6TRK1. Positions 617-687.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini550 – 60960KHUniRule annotationAdd
BLAST
Domaini619 – 68769S1 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.
HOGENOMiHOG000218327.
KOiK00962.
OMAiKESKRYM.
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.

A6TRK1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIKQFQTELA GKTLHVEIGK YAEQASGSCM VRYGDTTVLV NATASKSPRE
60 70 80 90 100
GIDFFPLSVD YEEKLYAVGK IPGGFIKREA RPSEKAVLTS RLIDRPIRPL
110 120 130 140 150
FPKGYRNEVQ VIATVMSVDK DYAPDIVAMI GSSIALSISD IPFGGPTGSV
160 170 180 190 200
NVGLVNGEFV LNPTSDQRAI SDIDLVVSGT KDAIMMIESG ANEVTEDQML
210 220 230 240 250
DALMFAHEEI KTIVAFIEEI VAEVGKPKQE VQLFAIDETL DMEVRVFAKD
260 270 280 290 300
KIVTAMKTFD KMERNERLDN VKKEILVHFS KQYENELKSI VEVINSIIKE
310 320 330 340 350
QFRYMITHDK VRPDERALDE IRPITSEVGI LPRTHGTGLF TRGQTQVLTV
360 370 380 390 400
ATLGALGEVQ ILDGLGEEES KRYMHHYNFP PYSVGEAKFL RGPGRREIGH
410 420 430 440 450
GALAERALLP MVPSQDDFPY AIRLVSEVLS SNGSSSQASV CGSTLALLDA
460 470 480 490 500
GVPIKDMVAG IAMGLVKEND KIAILSDIQG MEDALGDMDF KVAGTDKGIT
510 520 530 540 550
AIQMDIKIKG IHKDILKDAL EQARVGRLHI LDKMKKAIDK PRPELSPFAP
560 570 580 590 600
RVLKMKIHPD KIRDVIGSGG KTINRIIDET GVKIDIDNDG TIFIAAESQE
610 620 630 640 650
AVEKAIIIIE NIIKDPEVGQ NYTGKVIKIM NFGAFLEILP GKEGLLHVSN
660 670 680 690 700
IAHERVNKVE DVLEVGQEIE VKVMEIDQQG KINLSRKALL PKESKAENTK

EEKA
Length:704
Mass (Da):77,579
Last modified:August 21, 2007 - v1
Checksum:i8B8AA57435D09D83
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000724 Genomic DNA. Translation: ABR48819.1.
RefSeqiYP_001320478.1. NC_009633.1.

Genome annotation databases

EnsemblBacteriaiABR48819; ABR48819; Amet_2667.
KEGGiamt:Amet_2667.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000724 Genomic DNA. Translation: ABR48819.1.
RefSeqiYP_001320478.1. NC_009633.1.

3D structure databases

ProteinModelPortaliA6TRK1.
SMRiA6TRK1. Positions 617-687.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi293826.Amet_2667.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABR48819; ABR48819; Amet_2667.
KEGGiamt:Amet_2667.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218327.
KOiK00962.
OMAiKESKRYM.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciAMET293826:GI5P-2712-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.
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]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Alkaliphilus metalliredigens QYMF."
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Chertkov O., Brettin T., Bruce D., Han C., Schmutz J., Larimer F., Land M.
    , Hauser L., Kyrpides N., Mikhailova N., Ye Q., Zhou J., Fields M., Richardson P.
    Submitted (JUN-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: QYMF.

Entry informationi

Entry nameiPNP4_ALKMQ
AccessioniPrimary (citable) accession number: A6TRK1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: August 21, 2007
Last modified: April 1, 2015
This is version 56 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.