dsdA:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

DsdA

Synonyms

D-serine ammonia-lyase[1], B2366[2][1], DsdA[2][1] , ECK2362, JW2363, b2366

Product description

D-Serine deaminase[3]

EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001926

F

Seeded from EcoCyc (v14.0)

complete

GO:0006520

cellular amino acid metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000634

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001926

P

Seeded from EcoCyc (v14.0)

complete

GO:0008721

D-serine ammonia-lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011780

F

Seeded from EcoCyc (v14.0)

complete

GO:0008721

D-serine ammonia-lyase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.3.1.18

F

Seeded from EcoCyc (v14.0)

complete

GO:0016836

hydro-lyase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01030

F

Seeded from EcoCyc (v14.0)

complete

GO:0030170

pyridoxal phosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000634

F

Seeded from EcoCyc (v14.0)

complete

GO:0030170

pyridoxal phosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001926

F

Seeded from EcoCyc (v14.0)

complete

GO:0030170

pyridoxal phosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011780

F

Seeded from EcoCyc (v14.0)

complete

GO:0046416

D-amino acid metabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01030

P

Seeded from EcoCyc (v14.0)

complete

GO:0046416

D-amino acid metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011780

P

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

PMID:11967071[4]

IEP: Inferred from Expression Pattern

P

complete

GO:0008721

D-serine ammonia-lyase activity

PMID:5327100[5]

IDA: Inferred from Direct Assay

F

complete

GO:0070178

D-serine metabolic process

PMID:5327100[5]

IDA: Inferred from Direct Assay

P

complete

GO:0016836

hydro-lyase activity

PMID:4917239[6]

IDA: Inferred from Direct Assay

F

complete

GO:0030170

pyridoxal phosphate binding

PMID:789365[7]

IMP: Inferred from Mutant Phenotype

F

complete

GO:0005737

cytoplasm

PMID:4917239[6]

IDA: Inferred from Direct Assay

C

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

yhbZ

PMID:16606699[8]

Experiment(s):EBI-1142657

Protein

yagA

PMID:16606699[8]

Experiment(s):EBI-1142657

Protein

nadE

PMID:16606699[8]

Experiment(s):EBI-1142657
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MENAKMNSLI AQYPLVKDLV ALKETTWFNP GTTSLAEGLP YVGLTEQDVQ DAHARLSRFA
PYLAKAFPET AATGGIIESE LVAIPAMQKR LEKEYQQPIS GQLLLKKDSH LPISGSIKAR
GGIYEVLAHA EKLALEAGLL TLDDDYSKLL SPEFKQFFSQ YSIAVGSTGN LGLSIGIMSA
RIGFKVTVHM SADARAWKKA KLRSHGVTVV EYEQDYGVAV EEGRKAAQSD PNCFFIDDEN
SRTLFLGYSV AGQRLKAQFA QQGRIVDADN PLFVYLPCGV GGGPGGVAFG LKLAFGDHVH
CFFAEPTHSP CMLLGVHTGL HDQISVQDIG IDNLTAADGL AVGRASGFVG RAMERLLDGF
YTLSDQTMYD MLGWLAQEEG IRLEPSALAG MAGPQRVCAS VSYQQMHGFS AEQLRNTTHL
VWATGGGMVP EEEMNQYLAK GR
Length

442

Mol. Wt

47.9 kDa

pI

5.8 (calculated)

Extinction coefficient

44,350 - 44,975 (calc based on 15 Y, 4 W, and 5 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

73..409

PF00291 Pyridoxal-phosphate dependent enzyme

PMID:19920124[9]

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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=dsdA taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16130298

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946837

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007804

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P00926

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10249

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10249

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946837

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000243

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0245

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  4. ↑ Khil, PP & Camerini-Otero, RD (2002) Over 1000 genes are involved in the DNA damage response of Escherichia coli. Mol. Microbiol. 44 89-105 PubMed
  5. ↑ 5.0 5.1 Dupourque, D et al. (1966) Purification and properties of D-serine dehydrase from Escherichia coli. J. Biol. Chem. 241 1233-8 PubMed
  6. ↑ 6.0 6.1 Dowhan, W Jr & Snell, EE (1970) D-serine dehydratase from Escherichia coli. II. Analytical studies and subunit structure. J. Biol. Chem. 245 4618-28 PubMed
  7. ↑ Kazarinoff, MN & Snell, EE (1976) D-Serine dehydratase from Escherichia coli. Essential arginine residue at the pyridoxal 5'-phosphate binding site. J. Biol. Chem. 251 6179-82 PubMed
  8. ↑ 8.0 8.1 8.2 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  9. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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