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Protein

Ribulose-phosphate 3-epimerase

Gene

rpe

Organism
Synechocystis sp. (strain PCC 6803 / Kazusa)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the reversible epimerization of D-ribulose 5-phosphate to D-xylulose 5-phosphate.By similarity

Catalytic activityi

D-ribulose 5-phosphate = D-xylulose 5-phosphate.

Cofactori

Co2+By similarity, Fe2+By similarity, Mn2+By similarity, Zn2+By similarityNote: Binds 1 divalent metal cation per subunit. Active with Co2+, Fe2+, Mn2+ and Zn2+.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei10 – 101SubstrateBy similarity
Metal bindingi35 – 351Divalent metal cationBy similarity
Active sitei37 – 371Proton acceptorBy similarity
Metal bindingi37 – 371Divalent metal cationBy similarity
Metal bindingi68 – 681Divalent metal cationBy similarity
Binding sitei68 – 681SubstrateBy similarity
Active sitei179 – 1791Proton donorBy similarity
Metal bindingi179 – 1791Divalent metal cationBy similarity
Binding sitei181 – 1811Substrate; via amide nitrogenBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Carbohydrate metabolism

Keywords - Ligandi

Cobalt, Iron, Manganese, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Ribulose-phosphate 3-epimerase (EC:5.1.3.1)
Alternative name(s):
Pentose-5-phosphate 3-epimerase
Short name:
PPE
R5P3E
Gene namesi
Name:rpe
Ordered Locus Names:sll0807
OrganismiSynechocystis sp. (strain PCC 6803 / Kazusa)
Taxonomic identifieri1111708 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechocystis
Proteomesi
  • UP000001425 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemoved1 Publication
Chaini2 – 230229Ribulose-phosphate 3-epimerasePRO_0000171582Add
BLAST

Interactioni

Subunit structurei

Homohexamer.1 Publication

Protein-protein interaction databases

IntActiP74061. 1 interaction.

Structurei

Secondary structure

1
230
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi6 – 105Combined sources
Helixi11 – 133Combined sources
Helixi16 – 183Combined sources
Helixi19 – 2810Combined sources
Beta strandi32 – 4514Combined sources
Helixi51 – 577Combined sources
Helixi58 – 603Combined sources
Beta strandi63 – 7311Combined sources
Helixi74 – 763Combined sources
Helixi78 – 847Combined sources
Beta strandi87 – 926Combined sources
Turni95 – 973Combined sources
Helixi101 – 11010Combined sources
Beta strandi114 – 1196Combined sources
Helixi125 – 1284Combined sources
Turni129 – 1313Combined sources
Helixi132 – 1343Combined sources
Beta strandi136 – 1438Combined sources
Helixi154 – 1563Combined sources
Helixi157 – 17014Combined sources
Beta strandi175 – 1817Combined sources
Turni184 – 1874Combined sources
Helixi188 – 1936Combined sources
Beta strandi197 – 2015Combined sources
Helixi202 – 2054Combined sources
Helixi210 – 2189Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1TQJX-ray1.60A/B/C/D/E/F1-230[»]
ProteinModelPortaliP74061.
SMRiP74061. Positions 3-225.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP74061.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni146 – 1494Substrate bindingBy similarity
Regioni201 – 2022Substrate bindingBy similarity

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000259348.
InParanoidiP74061.
KOiK01783.
OMAiGANYITF.
OrthoDBiEOG67HK17.
PhylomeDBiP74061.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR026019. Ribul_P_3_epim.
IPR000056. Ribul_P_3_epim-like.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PANTHERiPTHR11749. PTHR11749. 1 hit.
PfamiPF00834. Ribul_P_3_epim. 1 hit.
[Graphical view]
PIRSFiPIRSF001461. RPE. 1 hit.
SUPFAMiSSF51366. SSF51366. 1 hit.
TIGRFAMsiTIGR01163. rpe. 1 hit.
PROSITEiPS01085. RIBUL_P_3_EPIMER_1. 1 hit.
PS01086. RIBUL_P_3_EPIMER_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P74061-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKNIVVAPS ILSADFSRLG EEIKAVDEAG ADWIHVDVMD GRFVPNITIG
60 70 80 90 100
PLIVDAIRPL TKKTLDVHLM IVEPEKYVED FAKAGADIIS VHVEHNASPH
110 120 130 140 150
LHRTLCQIRE LGKKAGAVLN PSTPLDFLEY VLPVCDLILI MSVNPGFGGQ
160 170 180 190 200
SFIPEVLPKI RALRQMCDER GLDPWIEVDG GLKPNNTWQV LEAGANAIVA
210 220 230
GSAVFNAPNY AEAIAGVRNS KRPEPQLATV
Length:230
Mass (Da):24,971
Last modified:January 23, 2007 - v3
Checksum:i6BE4D0930084B96B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA. Translation: BAA18137.1.
PIRiS75576.

Genome annotation databases

EnsemblBacteriaiBAA18137; BAA18137; BAA18137.
KEGGisyn:sll0807.
PATRICi23840321. VBISynSp132158_1719.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA. Translation: BAA18137.1.
PIRiS75576.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1TQJX-ray1.60A/B/C/D/E/F1-230[»]
ProteinModelPortaliP74061.
SMRiP74061. Positions 3-225.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP74061. 1 interaction.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA18137; BAA18137; BAA18137.
KEGGisyn:sll0807.
PATRICi23840321. VBISynSp132158_1719.

Phylogenomic databases

HOGENOMiHOG000259348.
InParanoidiP74061.
KOiK01783.
OMAiGANYITF.
OrthoDBiEOG67HK17.
PhylomeDBiP74061.

Miscellaneous databases

EvolutionaryTraceiP74061.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR026019. Ribul_P_3_epim.
IPR000056. Ribul_P_3_epim-like.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PANTHERiPTHR11749. PTHR11749. 1 hit.
PfamiPF00834. Ribul_P_3_epim. 1 hit.
[Graphical view]
PIRSFiPIRSF001461. RPE. 1 hit.
SUPFAMiSSF51366. SSF51366. 1 hit.
TIGRFAMsiTIGR01163. rpe. 1 hit.
PROSITEiPS01085. RIBUL_P_3_EPIMER_1. 1 hit.
PS01086. RIBUL_P_3_EPIMER_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions."
    Kaneko T., Sato S., Kotani H., Tanaka A., Asamizu E., Nakamura Y., Miyajima N., Hirosawa M., Sugiura M., Sasamoto S., Kimura T., Hosouchi T., Matsuno A., Muraki A., Nakazaki N., Naruo K., Okumura S., Shimpo S.
    , Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
    DNA Res. 3:109-136(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PCC 6803 / Kazusa.
  2. "Towards a proteome project of cyanobacterium Synechocystis sp. strain PCC6803: linking 130 protein spots with their respective genes."
    Sazuka T., Ohara O.
    Electrophoresis 18:1252-1258(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-21.
  3. "Structure of D-ribulose 5-phosphate 3-epimerase from Synechocystis to 1.6 A resolution."
    Wise E.L., Akana J., Gerlt J.A., Rayment I.
    Acta Crystallogr. D 60:1687-1690(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS), SUBUNIT.

Entry informationi

Entry nameiRPE_SYNY3
AccessioniPrimary (citable) accession number: P74061
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: January 23, 2007
Last modified: March 16, 2016
This is version 103 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Synechocystis PCC 6803
    Synechocystis (strain PCC 6803): entries and gene names

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 one 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.