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B5EMD4

- PNP_ACIF5

UniProt

B5EMD4 - PNP_ACIF5

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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

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.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 bindingi484 – 4841MagnesiumUniRule annotation
Metal bindingi490 – 4901MagnesiumUniRule 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

BioCyciAFER380394:GHE0-572-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:Lferr_0559
OrganismiAcidithiobacillus ferrooxidans (strain ATCC 53993) (Leptospirillum ferrooxidans (ATCC 53993))
Taxonomic identifieri380394 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAcidithiobacillalesAcidithiobacillaceaeAcidithiobacillus
ProteomesiUP000001856: 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 – 692692Polyribonucleotide nucleotidyltransferasePRO_1000147876Add
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

STRINGi380394.Lferr_0559.

Structurei

3D structure databases

ProteinModelPortaliB5EMD4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini551 – 61060KHUniRule annotationAdd
BLAST
Domaini620 – 68869S1 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.
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.

B5EMD4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTMIRKEVDF GGRRLQLETG RMARQADGAV LVSSGDTVVL VTAVGRREMK
60 70 80 90 100
PGQDFFPLTV NYQEKAYAAG KIPGGFFKRE GRPTEKETLT SRLIDRPIRP
110 120 130 140 150
LFPKGFMNEV QVIATVVSVD RDNDPDILAL VGASAALAVS GIPFNGPIGA
160 170 180 190 200
ARVAYIDGKY VLNPSYAQLT TSQLDLVVAG TRQAVLMVES EAQQLSEEIM
210 220 230 240 250
LEAVMFGHAQ FQPVIETIEA LAREAGKPRW EWVAPVADEA LGVQVREKAT
260 270 280 290 300
PLLQEAYALT EKQARSKRLE DVQQAMAVEF GSDDAGRGDM VRGLLKKIET
310 320 330 340 350
GIVRGRILDG APRIDGRDSK TVRPITIEAG VLPRTHGSAL FTRGETQALV
360 370 380 390 400
VATLGTKGDE QIIDALQGES RDRFMLHYNF PPFSTGETGM VGSPKRREIG
410 420 430 440 450
HGRLAKRAIA AVLPTDSEFP YSLRVVSEVL ESNGSSSMAT VCGASLALMD
460 470 480 490 500
AGVPLKAPVA GVAMGLIKEG ARFAVLTDIL GDEDHLGDMD FKVAGTEQGV
510 520 530 540 550
TALQMDIKID GITREIMAQA LQQALAGRLH ILGLMNGVLS RGRGELSDYA
560 570 580 590 600
PRIITIQINP DRIRDVIGPG GKVIRALTEE TGATIDIQDN GTVTIASVDG
610 620 630 640 650
EAGAAAKRRI ELLTADVQVD TIYDGKVAKI MDFGAFVTIL PGRDGLLHIS
660 670 680 690
QISNERVSDV HDHLKEGQAV RVKVLEVDRQ GKIKLSMKDI PQ
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.
RefSeqiWP_009567342.1. NC_011206.1.
YP_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 WP_009567342.1. NC_011206.1.
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. 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. "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: October 29, 2014
This is version 42 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