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Protein

Deoxyribose-phosphate aldolase

Gene

deoC

Organism
Pyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827)
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.By similarity

Catalytic activityi

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

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.
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 sitei146 – 1461Schiff-base intermediate with acetaldehydeBy similarity
Active sitei188 – 1881By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Ligandi

Schiff base

Enzyme and pathway databases

BioCyciPAER178306:GCEO-871-MONOMER.
UniPathwayiUPA00002; UER00468.

Names & Taxonomyi

Protein namesi
Recommended name:
Deoxyribose-phosphate aldolase (EC:4.1.2.4)
Short name:
DERA
Alternative name(s):
2-deoxy-D-ribose 5-phosphate aldolase
Phosphodeoxyriboaldolase
Short name:
Deoxyriboaldolase
Gene namesi
Name:deoC
Ordered Locus Names:PAE1231
OrganismiPyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827)
Taxonomic identifieri178306 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiThermoprotealesThermoproteaceaePyrobaculum
Proteomesi
  • UP000002439 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 226226Deoxyribose-phosphate aldolasePRO_0000057290Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi178306.PAE1231.

Structurei

Secondary structure

1
226
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi2 – 43Combined sources
Beta strandi5 – 84Combined sources
Helixi16 – 2914Combined sources
Beta strandi32 – 365Combined sources
Helixi38 – 403Combined sources
Helixi41 – 444Combined sources
Helixi45 – 473Combined sources
Beta strandi49 – 5810Combined sources
Turni59 – 613Combined sources
Helixi66 – 7611Combined sources
Turni77 – 793Combined sources
Beta strandi81 – 866Combined sources
Helixi89 – 935Combined sources
Helixi97 – 11014Combined sources
Turni111 – 1133Combined sources
Beta strandi114 – 1196Combined sources
Helixi122 – 1243Combined sources
Helixi127 – 14014Combined sources
Beta strandi143 – 1464Combined sources
Helixi154 – 1596Combined sources
Helixi168 – 18114Combined sources
Beta strandi186 – 1927Combined sources
Helixi196 – 20611Combined sources
Turni212 – 2143Combined sources
Beta strandi215 – 2206Combined sources
Helixi222 – 2254Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VCVX-ray2.00A/B1-226[»]
ProteinModelPortaliQ8ZXK7.
SMRiQ8ZXK7. Positions 1-226.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8ZXK7.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiarCOG04320. Archaea.
COG0274. LUCA.
HOGENOMiHOG000241645.
InParanoidiQ8ZXK7.
KOiK01619.
OMAiGGDWDYV.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00114. DeoC_type1.
InterProiIPR013785. Aldolase_TIM.
IPR011343. DeoC.
IPR002915. DeoC/FbaB/lacD_aldolase.
IPR028581. DeoC_typeI.
[Graphical view]
PANTHERiPTHR10889. PTHR10889. 1 hit.
PfamiPF01791. DeoC. 1 hit.
[Graphical view]
PIRSFiPIRSF001357. DeoC. 1 hit.
SMARTiSM01133. DeoC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8ZXK7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIHLVDYALL KPYLTVDEAV AGARKAEELG VAAYCVNPIY APVVRPLLRK
60 70 80 90 100
VKLCVVADFP FGALPTASRI ALVSRLAEVA DEIDVVAPIG LVKSRRWAEV
110 120 130 140 150
RRDLISVVGA AGGRVVKVIT EEPYLRDEER YTLYDIIAEA GAHFIKSSTG
160 170 180 190 200
FAEEAYAARQ GNPVHSTPER AAAIARYIKE KGYRLGVKMA GGIRTREQAK
210 220
AIVDAIGWGE DPARVRLGTS TPEALL
Length:226
Mass (Da):24,539
Last modified:March 1, 2002 - v1
Checksum:i3ECD181C7C3391C4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009441 Genomic DNA. Translation: AAL63340.1.

Genome annotation databases

EnsemblBacteriaiAAL63340; AAL63340; PAE1231.
KEGGipai:PAE1231.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009441 Genomic DNA. Translation: AAL63340.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VCVX-ray2.00A/B1-226[»]
ProteinModelPortaliQ8ZXK7.
SMRiQ8ZXK7. Positions 1-226.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi178306.PAE1231.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL63340; AAL63340; PAE1231.
KEGGipai:PAE1231.

Phylogenomic databases

eggNOGiarCOG04320. Archaea.
COG0274. LUCA.
HOGENOMiHOG000241645.
InParanoidiQ8ZXK7.
KOiK01619.
OMAiGGDWDYV.

Enzyme and pathway databases

UniPathwayiUPA00002; UER00468.
BioCyciPAER178306:GCEO-871-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ8ZXK7.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00114. DeoC_type1.
InterProiIPR013785. Aldolase_TIM.
IPR011343. DeoC.
IPR002915. DeoC/FbaB/lacD_aldolase.
IPR028581. DeoC_typeI.
[Graphical view]
PANTHERiPTHR10889. PTHR10889. 1 hit.
PfamiPF01791. DeoC. 1 hit.
[Graphical view]
PIRSFiPIRSF001357. DeoC. 1 hit.
SMARTiSM01133. DeoC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Genome sequence of the hyperthermophilic crenarchaeon Pyrobaculum aerophilum."
    Fitz-Gibbon S.T., Ladner H., Kim U.-J., Stetter K.O., Simon M.I., Miller J.H.
    Proc. Natl. Acad. Sci. U.S.A. 99:984-989(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827.

Entry informationi

Entry nameiDEOC_PYRAE
AccessioniPrimary (citable) accession number: Q8ZXK7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 2002
Last sequence update: March 1, 2002
Last modified: May 11, 2016
This is version 100 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, Reference 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.