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B5EMD4

- PNP_ACIF5

UniProt

B5EMD4 - PNP_ACIF5

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Protein
Polyribonucleotide nucleotidyltransferase
Gene
pnp, Lferr_0559
Organism
Acidithiobacillus ferrooxidans (strain ATCC 53993) (Leptospirillum ferrooxidans (ATCC 53993))
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 By similarity.UniRule annotation

Catalytic activityi

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

Cofactori

Magnesium By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi484 – 4841Magnesium By similarity
Metal bindingi490 – 4901Magnesium By similarity

GO - Molecular functioni

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

GO - Biological processi

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

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Ligandi

Magnesium, Metal-binding, RNA-binding

Enzyme and pathway databases

BioCyciAFER380394:GHE0-572-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Polyribonucleotide nucleotidyltransferase (EC:2.7.7.8)
Alternative name(s):
Polynucleotide phosphorylase
Short name:
PNPase
Gene namesi
Name:pnp
Ordered Locus Names:Lferr_0559
OrganismiAcidithiobacillus ferrooxidans (strain ATCC 53993) (Leptospirillum ferrooxidans (ATCC 53993))
Taxonomic identifieri380394 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAcidithiobacillalesAcidithiobacillaceaeAcidithiobacillus
ProteomesiUP000001856: Chromosome

Subcellular locationi

Cytoplasm By similarity 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 – 692692Polyribonucleotide nucleotidyltransferaseUniRule annotation
PRO_1000147876Add
BLAST

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi380394.Lferr_0559.

Structurei

3D structure databases

ProteinModelPortaliB5EMD4.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini551 – 61060KH
Add
BLAST
Domaini620 – 68869S1 motif
Add
BLAST

Sequence similaritiesi

Contains 1 KH domain.
Contains 1 S1 motif domain.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218327.
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. RNA-binding_domain_S1.
[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.

B5EMD4-1 [UniParc]FASTAAdd to Basket

« Hide

MTMIRKEVDF GGRRLQLETG RMARQADGAV LVSSGDTVVL VTAVGRREMK    50
PGQDFFPLTV NYQEKAYAAG KIPGGFFKRE GRPTEKETLT SRLIDRPIRP 100
LFPKGFMNEV QVIATVVSVD RDNDPDILAL VGASAALAVS GIPFNGPIGA 150
ARVAYIDGKY VLNPSYAQLT TSQLDLVVAG TRQAVLMVES EAQQLSEEIM 200
LEAVMFGHAQ FQPVIETIEA LAREAGKPRW EWVAPVADEA LGVQVREKAT 250
PLLQEAYALT EKQARSKRLE DVQQAMAVEF GSDDAGRGDM VRGLLKKIET 300
GIVRGRILDG APRIDGRDSK TVRPITIEAG VLPRTHGSAL FTRGETQALV 350
VATLGTKGDE QIIDALQGES RDRFMLHYNF PPFSTGETGM VGSPKRREIG 400
HGRLAKRAIA AVLPTDSEFP YSLRVVSEVL ESNGSSSMAT VCGASLALMD 450
AGVPLKAPVA GVAMGLIKEG ARFAVLTDIL GDEDHLGDMD FKVAGTEQGV 500
TALQMDIKID GITREIMAQA LQQALAGRLH ILGLMNGVLS RGRGELSDYA 550
PRIITIQINP DRIRDVIGPG GKVIRALTEE TGATIDIQDN GTVTIASVDG 600
EAGAAAKRRI ELLTADVQVD TIYDGKVAKI MDFGAFVTIL PGRDGLLHIS 650
QISNERVSDV HDHLKEGQAV RVKVLEVDRQ GKIKLSMKDI PQ 692
Length:692
Mass (Da):74,623
Last modified:October 14, 2008 - v1
Checksum:iBA9077A497930C75
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001132 Genomic DNA. Translation: ACH82813.1.
RefSeqiYP_002219020.1. NC_011206.1.

Genome annotation databases

EnsemblBacteriaiACH82813; ACH82813; Lferr_0559.
GeneIDi6876521.
KEGGiafe:Lferr_0559.
PATRICi20658664. VBIAciFer6930_0547.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001132 Genomic DNA. Translation: ACH82813.1 .
RefSeqi YP_002219020.1. NC_011206.1.

3D structure databases

ProteinModelPortali B5EMD4.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 380394.Lferr_0559.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACH82813 ; ACH82813 ; Lferr_0559 .
GeneIDi 6876521.
KEGGi afe:Lferr_0559.
PATRICi 20658664. VBIAciFer6930_0547.

Phylogenomic databases

eggNOGi COG1185.
HOGENOMi HOG000218327.
KOi K00962.
OMAi PRWDWVA.
OrthoDBi EOG6WT8CC.

Enzyme and pathway databases

BioCyci AFER380394:GHE0-572-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. RNA-binding_domain_S1.
[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. "Complete sequence of Acidithiobacillus ferrooxidans ATCC 53993."
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Brettin T., Detter J.C., Han C., Kuske C.R., Larimer F., Land M., Hauser L., Kyrpides N., Lykidis A., Borole A.P.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 53993.

Entry informationi

Entry nameiPNP_ACIF5
AccessioniPrimary (citable) accession number: B5EMD4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: October 14, 2008
Last modified: May 14, 2014
This is version 40 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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