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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)DescriptionActionsGraphical viewLength
Active sitei166Schiff-base intermediate with acetaldehydeUniRule annotation1
Active sitei198UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Ligandi

Schiff base

Enzyme and pathway databases

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)DescriptionActionsGraphical viewLength
ChainiPRO_10000824191 – 257Deoxyribose-phosphate aldolaseAdd BLAST257

Interactioni

Protein-protein interaction databases

STRINGi458817.Shal_3136.

Structurei

Secondary structure

1257
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi2 – 13Combined sources12
Beta strandi15 – 18Combined sources4
Helixi26 – 36Combined sources11
Beta strandi44 – 47Combined sources4
Helixi50 – 52Combined sources3
Helixi53 – 62Combined sources10
Beta strandi68 – 75Combined sources8
Turni76 – 78Combined sources3
Helixi83 – 96Combined sources14
Beta strandi99 – 104Combined sources6
Helixi107 – 111Combined sources5
Helixi116 – 129Combined sources14
Turni130 – 132Combined sources3
Beta strandi134 – 138Combined sources5
Helixi141 – 144Combined sources4
Helixi147 – 159Combined sources13
Beta strandi163 – 166Combined sources4
Beta strandi170 – 173Combined sources4
Helixi178 – 191Combined sources14
Beta strandi195 – 198Combined sources4
Helixi206 – 220Combined sources15
Turni227 – 229Combined sources3
Beta strandi232 – 237Combined sources6
Helixi238 – 244Combined sources7

3D structure databases

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

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: November 2, 2016
This is version 61 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.