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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

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Standard Name	sdaA
Gene Synonym(s)	ECK1812, b1814, JW1803^[1], JW1803
Product Desc.	LSERINEDEAM1^[2]^[3] L-Serine deaminase I; L-SD2^[4]
Product Synonyms(s)	L-serine deaminase I^[1], B1814^[2]^[1], SdaA^[2]^[1], SDH1^[2]^[1], L-SD^[2]^[1], L-threonine deaminase I^[2]^[1], L-serine dehydratase 1^[2]^[1], SDH-1^[2]^[1], L-SD1^[2]^[1], L-hydroxyaminoacid dehydratase 1^[2]^[1], L-serine deaminase 1^[2]^[1], L-serine hydro-lyase 1 (deaminating)^[2]^[1] , ECK1812, JW1803, b1814
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): sdaA^[2], OP00314
Regulation/Activity
Quick Links
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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	sdaA
Mnemonic	Serine deaminase
Synonyms	ECK1812, b1814, JW1803^[1], JW1803
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	40.84 minutes	MG1655: 1894956..1896320 <gbrowseImage> name=NC_000913:1894956..1896320 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1875511..1876875 <gbrowseImage> name=NC_012967:1875511..1876875 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1787015..1788379 <gbrowseImage> name=NC_012759:1787015..1788379 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1898646..1900010 <gbrowseImage> name=NC_007779:1898646..1900010 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1985527..1986891 <gbrowseImage> name=NC_010473:1985527..1986891 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
Coding Start (SO:0000323)	MG1655	1894956	Edman degradation	PMID:8436113
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
ΔsdaA (Keio:JW1803)	deletion	deletion			PMID:16738554	Shigen CGSC9509^[5]
sdaA::Tn5KAN-2 (FB20458)	Insertion at nt 899 in Plus orientation				PMID:15262929	E. coli Genome Project:FB20458	does not contain pKD46
sdaA::Tn5KAN-2 (FB20459)	Insertion at nt 899 in Plus orientation				PMID:15262929	E. coli Genome Project:FB20459	contains pKD46
ΔsdaA738::kan					PMID:16738554	CGSC:102886
sdaA(del) sdaB(del) tdcG(del)	deletion	deletion	Colony Morphology	When triple mutant is grown in liquid glucose minimal medium supplemented with casamino acids produced misshaped cells and finally lysed, figure 2.	PMID:18532981	Parent Strain: MEW1 Experimental triple mutant strain: MEW999	Growth defect was due to the loss of L-serine deaminase and was proven by restoring wildtype growth even with casamino acids via strain with S-adenosylmethionine (SAM) plasmid insertion. MEW999psamT
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW1803	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCATTAGTCTATTCGACATGTT Primer 2:CCGTCACACTGGACTTTGATTGC
12B3	Kohara Phage	Genobase	PMID:3038334
zea-225::Tn10	Linked marker	CAG18465 = CGSC7388^[5]	est. P1 cotransduction: 39% ^[6] Synonyms:zdj-225::Tn10
eda-51::Tn10	Linked marker	CAG18486 = CGSC7392^[5]	est. P1 cotransduction: 24% ^[6]
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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
EcoCyc	EcoCyc:EG10930	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10930	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000919	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946331	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0923	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006039	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

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

Standard name	SdaA
Synonyms	L-serine deaminase I^[1], B1814^[2]^[1], SdaA^[2]^[1], SDH1^[2]^[1], L-SD^[2]^[1], L-threonine deaminase I^[2]^[1], L-serine dehydratase 1^[2]^[1], SDH-1^[2]^[1], L-SD1^[2]^[1], L-hydroxyaminoacid dehydratase 1^[2]^[1], L-serine deaminase 1^[2]^[1], L-serine hydro-lyase 1 (deaminating)^[2]^[1] , ECK1812, JW1803, b1814
Product description	LSERINEDEAM1^[2]^[3] L-Serine deaminase I; L-SD2^[4]
EC number (for enzymes)	4.3.1.17^[1]
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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:0005737	cytoplasm				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0003941	L-serine ammonia-lyase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004644	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003941	L-serine ammonia-lyase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005130	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003941	L-serine ammonia-lyase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005131	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003941	L-serine ammonia-lyase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:4.3.1.17	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005506	iron ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0408	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006094	gluconeogenesis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004644	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006094	gluconeogenesis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005130	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006094	gluconeogenesis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005131	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006094	gluconeogenesis	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0312	P	Seeded from EcoCyc (v14.0)	complete
	GO:0046872	metal ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0479	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051536	iron-sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0411	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005130	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005131	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0004	F	Seeded from EcoCyc (v14.0)	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	References	Evidence
Protein	ydiU	PMID:16606699	Experiment(s):EBI-1140917
Protein	prpD	PMID:16606699	Experiment(s):EBI-1140917
Protein	zwf	PMID:16606699	Experiment(s):EBI-1140917
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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 MISLFDMFKV GIGPSSSHTV GPMKAGKQFV DDLVEKGLLD SVTRVAVDVY GSLSLTGKGH HTDIAIIMGL AGNEPATVDI DSIPGFIRDV EERERLLLAQ GRHEVDFPRD NGMRFHNGNL PLHENGMQIH AYNGDEVVYS KTYYSIGGGF IVDEEHFGQD AANEVSVPYP FKSATELLAY CNETGYSLSG LAMQNELALH SKKEIDEYFA HVWQTMQACI DRGMNTEGVL PGPLRVPRRA SALRRMLVSS DKLSNDPMNV IDWVNMFALA VNEENAAGGR VVTAPTNGAC GIVPAVLAYY DHFIESVSPD IYTRYFMAAG AIGALYKMNA SISGAEVGCQ GEVGVACSMA AAGLAELLGG SPEQVCVAAE IGMEHNLGLT CDPVAGQVQV PCIERNAIAS VKAINAARMA LRRTSAPRVS LDKVIETMYE TGKDMNAKYR ETSRGGLAIK VQCD
Length	454
Mol. Wt	48.906 kDa
pI	5.1 (calculated)
Extinction coefficient	34,840 - 35,965 (calc based on 16 Y, 2 W, and 9 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	References
Domain	182..450	PF03313 Serine dehydratase alpha chain	PMID:19920124
Domain	3..159	PF03315 Serine dehydratase beta chain	PMID:19920124
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<motif_map/>

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

Structures

<beststructure> gene=sdaA 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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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:16129768	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946331	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006039	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P16095	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10930	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10930	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946331	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000919	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0923	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MC4100	2.89E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	2133	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	121	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	1343	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)
sdaA
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Figure courtesy of RegulonDB

</protect>

Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:1894936..1894976 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b1814 (EcoliWiki Page)	NCBI GEO profiles for sdaA
microarray	GenExpDB:b1814 (EcoliWiki Page)	Summary of data for sdaA from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
	GFP Fusion	Intergenic region (1894674..1894991) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ02; Well:F7^[7]
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Notes

Accessions Related to sdaA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10930	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0923	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1814
EcoGene	EcoGene:EG10930	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000919	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006039	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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

Organism	Homologs (Statistics)	Comments
Xenopus tropicalis	ENSXETP00000020784 (score: 1.000; bootstrap: 100%) YP_026204 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	SDAA	From SHIGELLACYC
E. coli O157	SDAA	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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

Database	Accession	Notes
Superfamily (EcoliWiki Page)	SUPERFAMILY:143548
Pfam (EcoliWiki Page)	PF03313 Serine dehydratase alpha chain
Pfam (EcoliWiki Page)	PF03315 Serine dehydratase beta chain
EcoCyc	EcoCyc:EG10930	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10930	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000919	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0923	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006039	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 ^1.12 ^1.13 ^1.14 ^1.15 ^1.16 ^1.17 ^1.18 ^1.19 ^1.20 ^1.21 ^1.22 ^1.23 ^1.24 ^1.25 ^1.26 ^1.27 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 ^2.13 ^2.14 ^2.15 ^2.16 ^2.17 ^2.18 ^2.19 ^2.20 ^2.21 ^2.22 ^2.23 ^2.24 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

sdaA:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to sdaA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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