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D4Z3F0 (D4Z3F0_SPHJU) Unreviewed, UniProtKB/TrEMBL

Last modified May 1, 2013. Version 25. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Ribonuclease R HAMAP-Rule MF_01895
Short name=RNase R HAMAP-Rule MF_01895
EC=3.1.13.1 HAMAP-Rule MF_01895
Gene names
Name:rnr HAMAP-Rule MF_01895
Ordered Locus Names:SJA_C1-22980 EMBL BAI97132.1
OrganismSphingobium japonicum (strain NBRC 101211 / UT26S) [Complete proteome] [HAMAP] EMBL BAI97132.1
Taxonomic identifier452662 [NCBI]
Taxonomic lineageBacteria › Proteobacteria › Alphaproteobacteria › Sphingomonadales › Sphingomonadaceae › Sphingobium ›

Protein attributes

Sequence length787 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs By similarity. HAMAP-Rule MF_01895

Catalytic activity

Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates. HAMAP-Rule MF_01895 SAAS SAAS022966

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_01895.

Sequence similarities

Belongs to the RNR ribonuclease family. RNase R subfamily. HAMAP-Rule MF_01895

Contains 1 S1 motif domain. HAMAP-Rule MF_01895 SAAS SAAS022966

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Regions

Domain667 – 74882S1 motif By similarity HAMAP-Rule MF_01895

Sequences

Sequence LengthMass (Da)Tools
D4Z3F0 [UniParc].

Last modified June 15, 2010. Version 1.
Checksum: C635F26890E0AE02

FASTA78786,402
        10         20         30         40         50         60 
MASTEKKKKT DSARTKVRPA GFPTREQVMD FIATSDQPAG KREIAKAFGL KGQEKIALKA 

        70         80         90        100        110        120 
LLKDMADEGL IDIGPARAFH KMGGVPKVTV LRIVDVDDTT LIATPERWEA EGQPAPRLRI 

       130        140        150        160        170        180 
VERGKRGALT IGDRILARTE EAGRGWVAHP MKKLAKASEE LLGVVEEGDG GKLWLRPVDK 

       190        200        210        220        230        240 
RIRRDTPISD AGAAKKGDLV LAEPVGRPPR ITARVTDILG DPFAPRSFSL IAIHKHGIPH 

       250        260        270        280        290        300 
VFSERVEEEA VAASSLALHE DKREDLRHLP IVAIDPVDAR DHDDAVWAAP DDDPANSGGY 

       310        320        330        340        350        360 
KAIVAIADVS YYVRPGSALD REARKRGNSV YFPDLVVPML PHQLSSDMCS LRAGEDRAAM 

       370        380        390        400        410        420 
ACHLVLDASG KVKNWRFSRA VIRVAAVLAY EDAQAAIDGT LDIAADDAPA RPPTPSRLRA 

       430        440        450        460        470        480 
GELLETALKP LWACWALLRK ARDKREPLAL DLPERRVVLD DYGKIVSVAV RERLDAHMLI 

       490        500        510        520        530        540 
EDYMIAANVA AAKALEAKKA PVMYRVHEPP SRDKLVALKD YLATFGIEFA LGQVVRPATF 

       550        560        570        580        590        600 
NRLIERVGEA EEKPQIMEQI LRSQTQAYYA PSNLGHFGLA LGSYAHFTSP IRRYADLLVH 

       610        620        630        640        650        660 
RALVGAYGLE LPAPKGDIPD RSSLSGEDME NMGRVGEMIS QHERRAMEAE RETIDRYVAA 

       670        680        690        700        710        720 
FLAAHVGDLV EARITGVQSF GFFATVEGLG GDGLVPVSTL GDERFFYDEV GRALEGVESG 

       730        740        750        760        770        780 
DRYTVGQRLA LRLAEADPIN GSLRFELPDA PPQRPSFKKD RVRPGSARRG RPANVRHIGS 


KRGKHRR

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References

[1]"Complete genome sequence of the representative ?-hexachlorocyclohexane-degrading bacterium Sphingobium japonicum UT26."
Nagata Y., Ohtsubo Y., Endo R., Ichikawa N., Ankai A., Oguchi A., Fukui S., Fujita N., Tsuda M.
J. Bacteriol. 192:5852-5853(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: NBRC 101211 / UT26S.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		AP010803 Genomic DNA. Translation: BAI97132.1.
RefSeqYP_003545744.1. NC_014006.1.

3D structure databases

ProteinModelPortalD4Z3F0.
ModBaseSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAI97132; BAI97132; SJA_C1-22980.
GeneID8956664.
KEGGsjp:SJA_C1-22980.
PATRIC35436772. VBISphJap147895_2167.

Organism-specific databases

CMRSearch...

Phylogenomic databases

HOGENOMHOG000071121.
KOK12573.

Enzyme and pathway databases

BioCycSJAP452662:GHEL-2322-MONOMER.

Family and domain databases

Gene3D2.40.50.140. 1 hit.
HAMAPMF_01895. RNase_R.
InterProIPR012340. NA-bd_OB-fold.
IPR003029. Rbsml_prot_S1_RNA-bd_dom.
IPR022967. RNA-binding_domain_S1.
IPR001900. RNase_II/R.
IPR022966. RNase_II/R_CS.
IPR004476. RNase_II/RNase_R.
IPR011805. RNase_R.
[Graphical view]
PfamPF00773. RNB. 1 hit.
PF00575. S1. 1 hit.
[Graphical view]
SMARTSM00955. RNB. 1 hit.
SM00316. S1. 1 hit.
[Graphical view]
SUPFAMSSF50249. Nucleic_acid_OB. 1 hit.
TIGRFAMsTIGR00358. 3_prime_RNase. 1 hit.
TIGR02063. RNase_R. 1 hit.
PROSITEPS01175. RIBONUCLEASE_II. 1 hit.
PS50126. S1. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameD4Z3F0_SPHJU
AccessionPrimary (citable) accession number: D4Z3F0
Entry history
Integrated into UniProtKB/TrEMBL: June 15, 2010
Last sequence update: June 15, 2010
Last modified: May 1, 2013
This is version 25 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info