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Protein

RNA 3'-terminal phosphate cyclase

Gene

rtcA

Organism
Staphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. The mechanism of action of the enzyme occurs in 3 steps: (A) adenylation of the enzyme by ATP; (B) transfer of adenylate to an RNA-N3'P to produce RNA-N3'PP5'A; (C) and attack of the adjacent 2'-hydroxyl on the 3'-phosphorus in the diester linkage to produce the cyclic end product. The biological role of this enzyme is unknown but it is likely to function in some aspects of cellular RNA processing.UniRule annotation

Catalytic activityi

ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei102 – 1021ATPUniRule annotation
Active sitei319 – 3191Tele-AMP-histidine intermediateUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi293 – 2964ATPUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciSMAR399550:GHK2-963-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA 3'-terminal phosphate cyclaseUniRule annotation (EC:6.5.1.4UniRule annotation)
Short name:
RNA cyclaseUniRule annotation
Short name:
RNA-3'-phosphate cyclaseUniRule annotation
Gene namesi
Name:rtcAUniRule annotation
Ordered Locus Names:Smar_0935
OrganismiStaphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1)
Taxonomic identifieri399550 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeStaphylothermus
ProteomesiUP000000254 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 357357RNA 3'-terminal phosphate cyclasePRO_0000325193Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi399550.Smar_0935.

Structurei

3D structure databases

ProteinModelPortaliA3DN24.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RNA 3'-terminal cyclase family. Type 1 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0430.
HOGENOMiHOG000015264.
KOiK01974.

Family and domain databases

Gene3Di3.30.360.20. 1 hit.
3.65.10.20. 2 hits.
HAMAPiMF_00200. RTC.
InterProiIPR013791. RNA3'-term_phos_cycl_insert.
IPR023797. RNA3'_phos_cyclase_dom.
IPR000228. RNA3'_term_phos_cyc.
IPR017770. RNA3'_term_phos_cyc_type_1.
IPR020719. RNA3'_term_phos_cycl-like_CS.
IPR013792. RNA3'P_cycl/enolpyr_Trfase_a/b.
[Graphical view]
PANTHERiPTHR11096. PTHR11096. 1 hit.
PfamiPF01137. RTC. 1 hit.
PF05189. RTC_insert. 1 hit.
[Graphical view]
PIRSFiPIRSF005378. RNA3'_term_phos_cycl_euk. 1 hit.
SUPFAMiSSF52913. SSF52913. 1 hit.
SSF55205. SSF55205. 1 hit.
TIGRFAMsiTIGR03399. RNA_3prim_cycl. 1 hit.
PROSITEiPS01287. RTC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A3DN24-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEIIEIDGSM GEGGGQILRY SLGFSAVTLK PVRIYNIRAK RSNPGLRPQH
60 70 80 90 100
LTAVKALQMI TDAVVKGAKV GSMEIYFEPK RRKPGNYRFN IGTAGSTTLV
110 120 130 140 150
IQAILPALLF SKGYSSVEII GGTDVPWSPP IDYMRYVFIY NLRFFGVDVE
160 170 180 190 200
IELYRRGHYP RGGGRVVLKV KPLLGKMKPI NIVERGKLIS IYGISHAVRL
210 220 230 240 250
PRHVAERQAR SAATVIREKL GVEPNILIES YPPGRDPHLG PGSGIVLYAD
260 270 280 290 300
VEAGTRLGGD ALGARGKRAE IVGREAAEKL IDELSSGMAF DSHMGDMLIP
310 320 330 340 350
YMFLAGGESI AGVSKLTNHT LTAIEVSKIF LPNSKVSIVG NKGEKGIIRI

HGVGLSP
Length:357
Mass (Da):38,755
Last modified:March 18, 2008 - v2
Checksum:i784A6E393E0C382E
GO

Sequence cautioni

The sequence ABN70034.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000575 Genomic DNA. Translation: ABN70034.1. Different initiation.
RefSeqiYP_001040942.1. NC_009033.1.

Genome annotation databases

EnsemblBacteriaiABN70034; ABN70034; Smar_0935.
GeneIDi4907365.
KEGGismr:Smar_0935.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000575 Genomic DNA. Translation: ABN70034.1. Different initiation.
RefSeqiYP_001040942.1. NC_009033.1.

3D structure databases

ProteinModelPortaliA3DN24.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi399550.Smar_0935.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABN70034; ABN70034; Smar_0935.
GeneIDi4907365.
KEGGismr:Smar_0935.

Phylogenomic databases

eggNOGiCOG0430.
HOGENOMiHOG000015264.
KOiK01974.

Enzyme and pathway databases

BioCyciSMAR399550:GHK2-963-MONOMER.

Family and domain databases

Gene3Di3.30.360.20. 1 hit.
3.65.10.20. 2 hits.
HAMAPiMF_00200. RTC.
InterProiIPR013791. RNA3'-term_phos_cycl_insert.
IPR023797. RNA3'_phos_cyclase_dom.
IPR000228. RNA3'_term_phos_cyc.
IPR017770. RNA3'_term_phos_cyc_type_1.
IPR020719. RNA3'_term_phos_cycl-like_CS.
IPR013792. RNA3'P_cycl/enolpyr_Trfase_a/b.
[Graphical view]
PANTHERiPTHR11096. PTHR11096. 1 hit.
PfamiPF01137. RTC. 1 hit.
PF05189. RTC_insert. 1 hit.
[Graphical view]
PIRSFiPIRSF005378. RNA3'_term_phos_cycl_euk. 1 hit.
SUPFAMiSSF52913. SSF52913. 1 hit.
SSF55205. SSF55205. 1 hit.
TIGRFAMsiTIGR03399. RNA_3prim_cycl. 1 hit.
PROSITEiPS01287. RTC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The complete genome sequence of Staphylothermus marinus reveals differences in sulfur metabolism among heterotrophic Crenarchaeota."
    Anderson I.J., Dharmarajan L., Rodriguez J., Hooper S., Porat I., Ulrich L.E., Elkins J.G., Mavromatis K., Sun H., Land M., Lapidus A., Lucas S., Barry K., Huber H., Zhulin I.B., Whitman W.B., Mukhopadhyay B., Woese C., Bristow J., Kyrpides N.
    BMC Genomics 10:145-145(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43588 / DSM 3639 / F1.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43588 / DSM 3639 / F1.

Entry informationi

Entry nameiRTCA_STAMF
AccessioniPrimary (citable) accession number: A3DN24
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 18, 2008
Last sequence update: March 18, 2008
Last modified: May 27, 2015
This is version 52 of the entry and version 2 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.