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Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Magnetospirillum magneticum (strain AMB-1 / ATCC 700264)
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 bindingi487 – 4871MagnesiumUniRule annotation
Metal bindingi493 – 4931MagnesiumUniRule 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

BioCyciMMAG342108:GJNU-4166-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:amb4117
OrganismiMagnetospirillum magneticum (strain AMB-1 / ATCC 700264)
Taxonomic identifieri342108 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodospirillalesRhodospirillaceaeMagnetospirillum
ProteomesiUP000007058: 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
Chaini1 – 720720Polyribonucleotide nucleotidyltransferasePRO_0000329706Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi342108.amb4117.

Structurei

3D structure databases

ProteinModelPortaliQ2VZQ4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini554 – 61360KHUniRule annotationAdd
BLAST
Domaini623 – 69169S1 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.
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.

Q2VZQ4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSMFNVHRKE ITWGGRKLVL ETGKVARQAD GAVMVTYGET SVLCTVVGAK
60 70 80 90 100
SQKPGIDFFP LTVNYQEKAF AAGKIPGGFF KREGRPSEKE TLVSRLIDRP
110 120 130 140 150
IRPLFADGFR NEVQVVCTVL SHDLENDPDI AALVGTSAAL TISGLPFMGP
160 170 180 190 200
VGAARVGYVD GAYVLNPLVG DLPKSELDLV VAGTVEGVLM VESEAKQLSE
210 220 230 240 250
DVMLGAVMFG HREFQAVIQA IIDLAEECAK DPWDLPEPPA EVAVVTGKFN
260 270 280 290 300
DAGVPAELAE AYKIIKKQDR YAAVGAVKKK ALALLTEAAE IAVAGGILKH
310 320 330 340 350
LEADVVRGNI LKTGVRIDGR DTKTVRAIEV EVGVLPRAHG SALFTRGETQ
360 370 380 390 400
ALVVATLGTG QDEQIIDQLA GEYREHFMLH YNFPPYSVGE AGRMGSPGRR
410 420 430 440 450
EIGHGKLAWR AMRPCLPAKE SFPYTMRVVS EITESNGSSS MASVCGSSLA
460 470 480 490 500
LMDAGVPLPK PVAGIAMGLI KEGTDFAVLS DILGDEDHLG DMDFKVAGTV
510 520 530 540 550
DGVTALQMDI KITSITEEIM KIALGQAKDG RIHILGEMNK GLDHARDSVS
560 570 580 590 600
GNAPRITTIS IPKEKIREVI GTGGKVIREI CEQTGAKIDI DDDGTIKVAS
610 620 630 640 650
VDADAAQRAI DWIRGIVAEP ELGVIYNGKV VKVVDFGAFV NFLGSRDGLV
660 670 680 690 700
HISELARERV AKTADVVKQG DVVKVKVLGF DDRGKVKLSM KQVDQTTGED
710 720
ISAQLEAERA ASKRERHHED
Length:720
Mass (Da):77,231
Last modified:January 10, 2006 - v1
Checksum:iB5DD60A9ACFF31F2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP007255 Genomic DNA. Translation: BAE52921.1.
RefSeqiWP_011386466.1. NC_007626.1.
YP_423480.1. NC_007626.1.

Genome annotation databases

EnsemblBacteriaiBAE52921; BAE52921; amb4117.
GeneIDi3806265.
KEGGimag:amb4117.
PATRICi22442550. VBIMagMag129836_4094.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP007255 Genomic DNA. Translation: BAE52921.1.
RefSeqiWP_011386466.1. NC_007626.1.
YP_423480.1. NC_007626.1.

3D structure databases

ProteinModelPortaliQ2VZQ4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi342108.amb4117.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAE52921; BAE52921; amb4117.
GeneIDi3806265.
KEGGimag:amb4117.
PATRICi22442550. VBIMagMag129836_4094.

Phylogenomic databases

eggNOGiCOG1185.
HOGENOMiHOG000218326.
KOiK00962.
OMAiRFMFHYN.
OrthoDBiEOG6WT8CC.

Enzyme and pathway databases

BioCyciMMAG342108:GJNU-4166-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 genome sequence of the facultative anaerobic magnetotactic bacterium Magnetospirillum sp. strain AMB-1."
    Matsunaga T., Okamura Y., Fukuda Y., Wahyudi A.T., Murase Y., Takeyama H.
    DNA Res. 12:157-166(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AMB-1 / ATCC 700264.

Entry informationi

Entry nameiPNP_MAGSA
AccessioniPrimary (citable) accession number: Q2VZQ4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: January 10, 2006
Last modified: February 4, 2015
This is version 68 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.