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Gene |

Product(s) |

Expression|

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Standard Name	cadC
Gene Synonym(s)	ECK4127, b4133, JW4094^[1], JW4094
Product Desc.	CadC transcriptional activator^[2]^[3] Transcriptional activator for cadBA, low external pH-, low oxygen-, excess lysine-responsive; homodimeric^[4]
Product Synonyms(s)	DNA-binding transcriptional activator^[1], B4133^[2]^[1], CadC^[2]^[1], transcriptional activator of cad operon^[2]^[1] , ECK4127, JW4094, b4133
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): cadC^[2], OP00158
Regulation/Activity
Quick Links
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Notes

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cadC transcription is repressed by multicopy leuO. CadC is a membrane spanning protein with a TM helix predicted from 155 to 180. The C-terminal periplasmic domain senses external stimuli and the N-terminal domain activates transcription.^[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	cadC
Mnemonic	Cadaverine
Synonyms	ECK4127, b4133, JW4094^[1], JW4094
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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	93.94 minutes, 93.94 minutes	MG1655: 4359957..4358419 <gbrowseImage> name=NC_000913:4358419..4359957 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 4340655..4339117 <gbrowseImage> name=NC_012967:4339117..4340655 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 4297154..4298692 <gbrowseImage> name=NC_012759:4297154..4298692 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 4366612..4365074 <gbrowseImage> name=NC_007779:4365074..4366612 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4460319..4458781 <gbrowseImage> name=NC_010473:4458781..4460319 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
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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)	Reference	Availability
ΔcadC (Keio:JW4094)	deletion	deletion	PMID:16738554	Shigen CGSC10950^[5]
ΔcadC760::kan			PMID:16738554	CGSC:100228
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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
JW4094	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCAACAACCTGTAGTTCGCGT Primer 2:CCTTCTGAAGCAAGAAATTTGTC
21H11	Kohara Phage	Genobase	PMID:3038334
5G7	Kohara Phage	Genobase	PMID:3038334
9B1	Kohara Phage	Genobase	PMID:3038334
cadB2231::Tn10	Linked marker	CAG18488 = CGSC7479^[5]	est. P1 cotransduction: 94% ^[6] Synonyms:zjd-2231::Tn10
cycA30::Tn10	Linked marker	CAG12073 = CGSC7482^[5]	est. P1 cotransduction: 2% ^[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:EG10133	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10133	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000129	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948653	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0131	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013532	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	CadC
Synonyms	DNA-binding transcriptional activator^[1], B4133^[2]^[1], CadC^[2]^[1], transcriptional activator of cad operon^[2]^[1] , ECK4127, JW4094, b4133
Product description	CadC transcriptional activator^[2]^[3] Transcriptional activator for cadBA, low external pH-, low oxygen-, excess lysine-responsive; homodimeric^[4]
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:0000156	two-component response regulator activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001867	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000156	two-component response regulator activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016032	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000160	two-component signal transduction system (phosphorelay)	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001867	P	Seeded from EcoCyc (v14.0)	complete
	GO:0000160	two-component signal transduction system (phosphorelay)	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016032	P	Seeded from EcoCyc (v14.0)	complete
	GO:0000160	two-component signal transduction system (phosphorelay)	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0902	P	Seeded from EcoCyc (v14.0)	complete
	GO:0003677	DNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001867	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003677	DNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016032	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003677	DNA binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0238	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005622	intracellular	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016032	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006350	transcription	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0804	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006355	regulation of transcription, DNA-dependent	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001867	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006355	regulation of transcription, DNA-dependent	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016032	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0472	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-9904	C	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
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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 MQQPVVRVGE WLVTPSINQI SRNGRQLTLE PRLIDLLVFF AQHSGEVLSR DELIDNVWKR SIVTNHVVTQ SISELRKSLK DNDEDSPVYI ATVPKRGYKL MVPVIWYSEE EGEEIMLSSP PPIPEAVPAT DSPSHSLNIQ NTATPPEQSP VKSKRFTTFW VWFFFLLSLG ICVALVAFSS LDTRLPMSKS RILLNPRDID INMVNKSCNS WSSPYQLSYA IGVGDLVATS LNTFSTFMVH DKINYNIDEP SSSGKTLSIA FVNQRQYRAQ QCFMSIKLVD NADGSTMLDK RYVITNGNQL AIQNDLLESL SKALNQPWPQ RMQETLQKIL PHRGALLTNF YQAHDYLLHG DDKSLNRASE LLGEIVQSSP EFTYARAEKA LVDIVRHSQH PLDEKQLAAL NTEIDNIVTL PELNNLSIIY QIKAVSALVK GKTDESYQAI NTGIDLEMSW LNYVLLGKVY EMKGMNREAA DAYLTAFNLR PGANTLYWIE NGIFQTSVPY VVPYLDKFLA SE
Length	512
Mol. Wt	57.814 kDa
pI	5.6 (calculated)
Extinction coefficient	77,810 - 78,185 (calc based on 19 Y, 9 W, and 3 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	24..100	PF00486 Transcriptional regulatory protein, C terminal		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=cadC 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:16131959	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948653	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013532	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P23890	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10133	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10133	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948653	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000129	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0131	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 MG1655	45	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	14	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	28	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)
cadC
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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.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:4359937..4359977 source=MG1655 flip=1 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:b4133 (EcoliWiki Page)	NCBI GEO profiles for cadC
microarray	GenExpDB:b4133 (EcoliWiki Page)	Summary of data for cadC 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 cadC Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10133	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0131	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b4133
EcoGene	EcoGene:EG10133	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000129	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013532	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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<protect> See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
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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)	PF00486 Transcriptional regulatory protein, C terminal
Superfamily (EcoliWiki Page)	SUPERFAMILY:46894
PFAM (EcoliWiki Page)	PFAM:PF00486
EcoCyc	EcoCyc:EG10133	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10133	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000129	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0131	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0013532	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 ^2.8 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).

cadC: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 cadC Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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