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On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	tnaA
Gene Synonym(s)	ECK3701, b3708, JW3686, ind, tnaR^[1]
Product Desc.	TnaA^[2]^[3]; Component of TRYPTOPHAN-CPLX^[2] Tryptophanase, also has cysteine desulfhydrase activity; interconverts tryptophan and indole; also called L-tryptophan indole-lyase;^[4]
Product Synonyms(s)	tryptophanase/L-cysteine desulfhydrase, PLP-dependent^[1], B3708^[2]^[1], Ind^[2]^[1], TnaR^[2]^[1], TnaA^[2]^[1] , ECK3701, ind, JW3686, b3708
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): tnaCAB^[2], OP00116, tna, tnaAB
Regulation/Activity
Quick Links
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</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

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TnaA is required for growth on tryptophan as a carbon source and indole as a tryptophan source. TnaA is a key enzyme in L-cysteine degradation. Alkali-inducible. Downregulated during cold-shock and in early exponential phase. Binds TrxA (Kumar, 2004). TnaA binds plasmid colE1 sRNA Rcd, which modulates TnaA activity to regulate growth inhibition by Rcd for plasmid stabilzation (Chant, 2003).^[4]

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	tnaA
Mnemonic	Tryptophanase
Synonyms	ECK3701, b3708, JW3686, ind, tnaR^[1]
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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	83.77 minutes	MG1655: 3886753..3888168 <gbrowseImage> name=NC_000913:3886753..3888168 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3849091..3850506 <gbrowseImage> name=NC_012967:3849091..3850506 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3775086..3776501 <gbrowseImage> name=NC_012759:3775086..3776501 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3750486..3749071 <gbrowseImage> name=NC_007779:3749071..3750486 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3984337..3985752 <gbrowseImage> name=NC_010473:3984337..3985752 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	3886753	Edman degradation	PMID:9298646 PMID:9732527 PMID:10094700
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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: Description	Reference	Availability	Comments
tnaA(del) (Keio:JW3686)	deletion	deletion		PMID:16738554	Shigen CGSC8309^[5]
tnaAC294S		C294S	Identical to wild-type			seeded from UniProt:P0A853
tnaAC298S		C298S	Alters activity			seeded from UniProt:P0A853
tnaA5					CGSC:6240
tnaA6					CGSC:6257
[tnaA300]::Tn10					CGSC:9639	null allele
tnaA1					CGSC:9715
tnaA4					CGSC:11509
tnaA3					CGSC:11522
tnaA739(del)::kan				PMID:16738554	CGSC:99778
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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
JW3686	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGAAAACTTTAAACATCTCCC Primer 2:CCAACTTCTTTAAGTTTTGCGGT
2A2	Kohara Phage	Genobase	PMID:3038334
3F11	Kohara Phage	Genobase	PMID:3038334
zid-501::Tn10	Linked marker	CAG18499 = CGSC7458^[5]	est. P1 cotransduction: 64% ^[6]
rbsD296::Tn10	Linked marker	CAG18501 = CGSC7460^[5]	est. P1 cotransduction: 15% ^[6] Synonyms:zie-296::Tn10
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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:EG11005	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11005	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000994	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948221	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0998	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012133	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	TnaA
Synonyms	tryptophanase/L-cysteine desulfhydrase, PLP-dependent^[1], B3708^[2]^[1], Ind^[2]^[1], TnaR^[2]^[1], TnaA^[2]^[1] , ECK3701, ind, JW3686, b3708
Product description	TnaA^[2]^[3]; Component of TRYPTOPHAN-CPLX^[2] Tryptophanase, also has cysteine desulfhydrase activity; interconverts tryptophan and indole; also called L-tryptophan indole-lyase;^[4]
EC number (for enzymes)	4.1.99.1^[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:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR015421	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005829	cytosol	PMID:16858726	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0006520	cellular amino acid metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001597	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006568	tryptophan metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013440	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006569	tryptophan catabolic process	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00544	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006569	tryptophan catabolic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0823	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009034	tryptophanase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00544	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009034	tryptophanase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013440	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009034	tryptophanase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:4.1.99.1	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009072	aromatic amino acid family metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011166	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	PMID:16858726	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0016829	lyase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001597	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016829	lyase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0456	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016830	carbon-carbon lyase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011166	F	Seeded from EcoCyc (v14.0)	complete
	GO:0030170	pyridoxal phosphate binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR015421	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	Notes	References	Evidence
Protein	Subunits of TRYPTOPHAN-CPLX	could be indirect
Protein	dnaK		PMID:15690043	Experiment(s):EBI-878854
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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 MKDYVMENFK HLPEPFRIRV IEPVKRTTRA YREEAIIKSG MNPFLLDSED VFIDLLTDSG TGAVTQSMQA AMMRGDEAYS GSRSYYALAE SVKNIFGYQY TIPTHQGRGA EQIYIPVLIK KREQEKGLDR SKMVAFSNYF FDTTQGHSQI NGCTVRNVYI KEAFDTGVRY DFKGNFDLEG LERGIEEVGP NNVPYIVATI TSNSAGGQPV SLANLKAMYS IAKKYDIPVV MDSARFAENA YFIKQREAEY KDWTIEQITR ETYKYADMLA MSAKKDAMVP MGGLLCMKDD SFFDVYTECR TLCVVQEGFP TYGGLEGGAM ERLAVGLYDG MNLDWLAYRI AQVQYLVDGL EEIGVVCQQA GGHAAFVDAG KLLPHIPADQ FPAQALACEL YKVAGIRAVE IGSFLLGRDP KTGKQLPCPA ELLRLTIPRA TYTQTHMDFI IEAFKHVKEN AANIKGLTFT YEPKVLRHFT AKLKEV
Length	476
Mol. Wt	53.411 kDa
pI	6.2 (calculated)
Extinction coefficient	49,740 - 50,615 (calc based on 26 Y, 2 W, and 7 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
Modification Site	93	phosphorylation site at Y93	probability greater than 75%	PMID:17938405
Domain	49..438	PF01212 Beta-eliminating lyase		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=tnaA 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:90111643	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948221	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012133	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A853	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11005	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11005	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948221	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000994	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0998	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	Notes	Reference(s)
Protein	E. coli K-12 MC4100	8.35E+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	Ecoli K-12	351.358+/-1.669	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.09217+/-0.00749	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by FISH	PMID:20671182
mRNA	Ecoli K-12	0.325088339	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 MG1655	18	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	16	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	5^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	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)
tnaCAB
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Figure courtesy of RegulonDB

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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.

Deletion of gene induces over expression of tnaC thus tryptophan. PMID:17511876

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:3886733..3886773 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:b3708 (EcoliWiki Page)	NCBI GEO profiles for tnaA
microarray	GenExpDB:b3708 (EcoliWiki Page)	Summary of data for tnaA 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
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Notes

Accessions Related to tnaA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11005	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0998	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3708
EcoGene	EcoGene:EG11005	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000994	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012133	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
Dictyostelium discoideum	DDB0204031 (score: 1.000; bootstrap: 90%)	From Inparanoid:20070104
Shigella flexneri	TNAA	From SHIGELLACYC
E. coli O157	TNAA	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
Pfam (EcoliWiki Page)	PF01212 Beta-eliminating lyase
Superfamily (EcoliWiki Page)	SUPERFAMILY:53383
Panther (EcoliWiki Page)	PTHR10289:SF0
EcoCyc	EcoCyc:EG11005	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11005	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000994	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0998	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012133	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 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 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 ^4.2 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).

tnaA:On One Page

Quickview

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 tnaA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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