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Protein

Deoxyribose-phosphate aldolase

Gene

deoC

Organism
Shewanella halifaxensis (strain HAW-EB4)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes a reversible aldol reaction between acetaldehyde and D-glyceraldehyde 3-phosphate to generate 2-deoxy-D-ribose 5-phosphate.UniRule annotation

Catalytic activityi

2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde.UniRule annotation

Pathwayi: 2-deoxy-D-ribose 1-phosphate degradation

This protein is involved in step 2 of the subpathway that synthesizes D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-alpha-D-ribose 1-phosphate.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. Deoxyribose-phosphate aldolase (deoC)
This subpathway is part of the pathway 2-deoxy-D-ribose 1-phosphate degradation, which is itself part of Carbohydrate degradation.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-alpha-D-ribose 1-phosphate, the pathway 2-deoxy-D-ribose 1-phosphate degradation and in Carbohydrate degradation.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei166 – 1661Schiff-base intermediate with acetaldehydeUniRule annotation
Active sitei198 – 1981UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Ligandi

Schiff base

Enzyme and pathway databases

BioCyciSHAL458817:GH1X-3236-MONOMER.
UniPathwayiUPA00002; UER00468.

Names & Taxonomyi

Protein namesi
Recommended name:
Deoxyribose-phosphate aldolaseUniRule annotation (EC:4.1.2.4UniRule annotation)
Short name:
DERAUniRule annotation
Alternative name(s):
2-deoxy-D-ribose 5-phosphate aldolaseUniRule annotation
PhosphodeoxyriboaldolaseUniRule annotation
Short name:
DeoxyriboaldolaseUniRule annotation
Gene namesi
Name:deoCUniRule annotation
Ordered Locus Names:Shal_3136
OrganismiShewanella halifaxensis (strain HAW-EB4)
Taxonomic identifieri458817 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella
Proteomesi
  • UP000001317 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 – 257257Deoxyribose-phosphate aldolasePRO_1000082419Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi458817.Shal_3136.

Structurei

Secondary structure

1
257
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi2 – 1312Combined sources
Beta strandi15 – 184Combined sources
Helixi26 – 3611Combined sources
Beta strandi44 – 474Combined sources
Helixi50 – 523Combined sources
Helixi53 – 6210Combined sources
Beta strandi68 – 758Combined sources
Turni76 – 783Combined sources
Helixi83 – 9614Combined sources
Beta strandi99 – 1046Combined sources
Helixi107 – 1115Combined sources
Helixi116 – 12914Combined sources
Turni130 – 1323Combined sources
Beta strandi134 – 1385Combined sources
Helixi141 – 1444Combined sources
Helixi147 – 15913Combined sources
Beta strandi163 – 1664Combined sources
Beta strandi170 – 1734Combined sources
Helixi178 – 19114Combined sources
Beta strandi195 – 1984Combined sources
Helixi206 – 22015Combined sources
Turni227 – 2293Combined sources
Beta strandi232 – 2376Combined sources
Helixi238 – 2447Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
5C6MX-ray1.76A/B/C/D1-257[»]
ProteinModelPortaliB0TQ91.
SMRiB0TQ91. Positions 1-233.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the DeoC/FbaB aldolase family. DeoC type 2 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105FCI. Bacteria.
COG0274. LUCA.
HOGENOMiHOG000241644.
KOiK01619.
OMAiKIATVTN.
OrthoDBiPOG091H00TV.

Family and domain databases

CDDicd00959. DeoC. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00592. DeoC_type2. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR011343. DeoC.
IPR002915. DeoC/FbaB/lacD_aldolase.
IPR023649. DeoC_typeII.
[Graphical view]
PANTHERiPTHR10889. PTHR10889. 1 hit.
PfamiPF01791. DeoC. 1 hit.
[Graphical view]
PIRSFiPIRSF001357. DeoC. 1 hit.
SMARTiSM01133. DeoC. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00126. deoC. 1 hit.

Sequencei

Sequence statusi: Complete.

B0TQ91-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDLKKAAQQ AISLMDLTTL NDDDTDQKVI ELCHKAKTPA GDTAAICIYP
60 70 80 90 100
RFIPIARKTL NEIGGDDIKI ATVTNFPHGN DDIAIAVLET RAAVAYGADE
110 120 130 140 150
VDVVFPYRAL MEGNETVGFE LVKACKEACG EDTILKVIIE SGVLADPALI
160 170 180 190 200
RKASELSIDA GADFIKTSTG KVAVNATLEA AEIMMTVISE KNPKVGFKPA
210 220 230 240 250
GGVKDAAAAA EFLGVAARLL GDDWATPATF RFGASSLLTN LLHTLELADA

PQGAQGY
Length:257
Mass (Da):27,082
Last modified:April 8, 2008 - v1
Checksum:i40C6A6DAA78C3A79
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000931 Genomic DNA. Translation: ABZ77683.1.
RefSeqiWP_012278208.1. NC_010334.1.

Genome annotation databases

EnsemblBacteriaiABZ77683; ABZ77683; Shal_3136.
KEGGishl:Shal_3136.
PATRICi23509163. VBISheHal24697_3289.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000931 Genomic DNA. Translation: ABZ77683.1.
RefSeqiWP_012278208.1. NC_010334.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
5C6MX-ray1.76A/B/C/D1-257[»]
ProteinModelPortaliB0TQ91.
SMRiB0TQ91. Positions 1-233.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi458817.Shal_3136.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABZ77683; ABZ77683; Shal_3136.
KEGGishl:Shal_3136.
PATRICi23509163. VBISheHal24697_3289.

Phylogenomic databases

eggNOGiENOG4105FCI. Bacteria.
COG0274. LUCA.
HOGENOMiHOG000241644.
KOiK01619.
OMAiKIATVTN.
OrthoDBiPOG091H00TV.

Enzyme and pathway databases

UniPathwayiUPA00002; UER00468.
BioCyciSHAL458817:GH1X-3236-MONOMER.

Family and domain databases

CDDicd00959. DeoC. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00592. DeoC_type2. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR011343. DeoC.
IPR002915. DeoC/FbaB/lacD_aldolase.
IPR023649. DeoC_typeII.
[Graphical view]
PANTHERiPTHR10889. PTHR10889. 1 hit.
PfamiPF01791. DeoC. 1 hit.
[Graphical view]
PIRSFiPIRSF001357. DeoC. 1 hit.
SMARTiSM01133. DeoC. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00126. deoC. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiDEOC_SHEHH
AccessioniPrimary (citable) accession number: B0TQ91
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: April 8, 2008
Last modified: September 7, 2016
This is version 59 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

3D-structure, Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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.