cadA:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

cadA

Gene Synonym(s)

ECK4125, b4131, JW4092[1], JW4092

Product Desc.

CadA[2][3];

Component of lysine decarboxylase[2][3]

Lysine decarboxylase, acid-inducible; decameric[4]

Product Synonyms(s)

lysine decarboxylase 1[1], B4131[2][1], CadA[2][1] , ECK4125, JW4092, b4131

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): cadBA[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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Induction of the cadAB operon under acidic conditions and in the presence of lycine neutralized extracellualr environment and enabled production of CO(2); production of cadaverine and aminopropylcadaverine instead of putrescine and spermidine also resulted. cadAB operon induction also generated a proton motive force. Lack of cadBA opereon induction results in an increase in speF-potE operon expression. CadA is required for full pathogenicity of Salmonella and Vibrio. CadA and RavA ATPase form a complex.[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

cadA

Mnemonic

Cadaverine

Synonyms

ECK4125, b4131, JW4092[1], JW4092

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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

93.85 minutes 

MG1655: 4356640..4354493
<gbrowseImage> name=NC_000913:4354493..4356640 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4337337..4335190
<gbrowseImage> name=NC_012967:4335190..4337337 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4293228..4295375
<gbrowseImage> name=NC_012759:4293228..4295375 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4363295..4361148
<gbrowseImage> name=NC_007779:4361148..4363295 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4457002..4454855
<gbrowseImage> name=NC_010473:4454855..4457002 source=DH10B preset=GeneLocation </gbrowseImage>

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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

4354493

Edman degradation

PMID:4204273
PMID:9226257


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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

ΔcadA (Keio:JW4092)

deletion

deletion

PMID:16738554

Shigen
CGSC10948[5]

cadA2

CGSC:9583

ΔcadA758::kan

PMID:16738554

CGSC:100224


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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

JW4092

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAACGTTATTGCAATATTGAA

Primer 2:CCTTTTTTGCTTTCTTCTTTCAA

21H11

Kohara Phage

Genobase

PMID:3038334

5G7

Kohara Phage

Genobase

PMID:3038334

zje-2241::Tn10

Linked marker

CAG18427 = CGSC7481[5]

est. P1 cotransduction: 11% [6]

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[5]

est. P1 cotransduction: 93% [6]
Synonyms:zjd-2231::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:EG10131

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10131

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000127

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948643

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0129

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013526

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

CadA

Synonyms

lysine decarboxylase 1[1], B4131[2][1], CadA[2][1] , ECK4125, JW4092, b4131

Product description

CadA[2][3];

Component of lysine decarboxylase[2][3]

Lysine decarboxylase, acid-inducible; decameric[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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000310

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008286

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015421

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015422

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011193

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

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:IPR011193

P

Seeded from EcoCyc (v14.0)

complete

GO:0008923

lysine decarboxylase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.1.1.18

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:0016831

carboxy-lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005308

F

Seeded from EcoCyc (v14.0)

complete

GO:0016831

carboxy-lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011193

F

Seeded from EcoCyc (v14.0)

complete

GO:0016831

carboxy-lyase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0210

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

GO:0030170

pyridoxal phosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015422

F

Seeded from EcoCyc (v14.0)

complete

GO:0008923

lysine decarboxylase activity

PMID:9226257

IMP: Inferred from Mutant Phenotype

F

complete

GO:0006554

lysine catabolic process

PMID:9226257

IMP: Inferred from Mutant Phenotype

P

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 lysine decarboxylase

could be indirect

Protein

aceE

PMID:15690043

Experiment(s):EBI-882847

Protein

npdA

PMID:15690043

Experiment(s):EBI-882847

Protein

dnaN

PMID:15690043

Experiment(s):EBI-882847

Protein

ldcC

PMID:15690043

Experiment(s):EBI-882847, EBI-879001, EBI-882207

Protein

lpdA

PMID:15690043

Experiment(s):EBI-882847

Protein

rplC

PMID:15690043

Experiment(s):EBI-882847

Protein

rplE

PMID:15690043

Experiment(s):EBI-882847

Protein

rpsB

PMID:15690043

Experiment(s):EBI-882847

Protein

rpsJ

PMID:15690043

Experiment(s):EBI-882847

Protein

secA

PMID:15690043

Experiment(s):EBI-882847

Protein

tufA

PMID:15690043

Experiment(s):EBI-882847

Protein

pgaC

PMID:15690043

Experiment(s):EBI-882847

Protein

groL

PMID:16606699

Experiment(s):EBI-1147515

Protein

rhsD

PMID:16606699

Experiment(s):EBI-1147515

Protein

rpoB

PMID:16606699

Experiment(s):EBI-1147515

Protein

pgaC

PMID:19402753

MALDI(Z-score):17.053160

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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

cytoplasm

From EcoCyc[3]


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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 

MNVIAILNHM GVYFKEEPIR ELHRALERLN FQIVYPNDRD DLLKLIENNA RLCGVIFDWD
KYNLELCEEI SKMNENLPLY AFANTYSTLD VSLNDLRLQI SFFEYALGAA EDIANKIKQT
TDEYINTILP PLTKALFKYV REGKYTFCTP GHMGGTAFQK SPVGSLFYDF FGPNTMKSDI
SISVSELGSL LDHSGPHKEA EQYIARVFNA DRSYMVTNGT STANKIVGMY SAPAGSTILI
DRNCHKSLTH LMMMSDVTPI YFRPTRNAYG ILGGIPQSEF QHATIAKRVK ETPNATWPVH
AVITNSTYDG LLYNTDFIKK TLDVKSIHFD SAWVPYTNFS PIYEGKCGMS GGRVEGKVIY
ETQSTHKLLA AFSQASMIHV KGDVNEETFN EAYMMHTTTS PHYGIVASTE TAAAMMKGNA
GKRLINGSIE RAIKFRKEIK RLRTESDGWF FDVWQPDHID TTECWPLRSD STWHGFKNID
NEHMYLDPIK VTLLTPGMEK DGTMSDFGIP ASIVAKYLDE HGIVVEKTGP YNLLFLFSIG
IDKTKALSLL RALTDFKRAF DLNLRVKNML PSLYREDPEF YENMRIQELA QNIHKLIVHH
NLPDLMYRAF EVLPTMVMTP YAAFQKELHG MTEEVYLDEM VGRINANMIL PYPPGVPLVM
PGEMITEESR PVLEFLQMLC EIGAHYPGFE TDIHGAYRQA DGRYTVKVLK EESKK
Length

715

Mol. Wt

81.262 kDa

pI

6.3 (calculated)

Extinction coefficient

89,160 - 90,035 (calc based on 34 Y, 7 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

Domain

130..545

PF01276 Orn/Lys/Arg decarboxylase, major domain

PMID:19920124

Domain

570..704

PF03711 Orn/Lys/Arg decarboxylase, C-terminal domain

PMID:19920124

Domain

14..124

PF03709 Orn/Lys/Arg decarboxylase, N-terminal domain

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=cadA 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:16131957

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948643

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013526

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A9H3

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10131

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10131

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948643

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000127

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0129

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Ecoli K-12

4.161+/-0.04

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.002328831

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

0a

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

Protein

E. coli K-12 MG1655

0a

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

Protein

E. coli K-12 MG1655

0a

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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<protect>

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

Transcription unit(s)

cadBA

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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_000913:4356620..4356660 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:b4131 (EcoliWiki Page)

NCBI GEO profiles for cadA

microarray

GenExpDB:b4131 (EcoliWiki Page)

Summary of data for cadA 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 (4356125..4356288) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ02; Well:D7[7]

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Notes

Accessions Related to cadA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10131

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0129

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4131

EcoGene

EcoGene:EG10131

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000127

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013526

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

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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)

PF03709 Orn/Lys/Arg decarboxylase, N-terminal domain

Pfam (EcoliWiki Page)

PF01276 Orn/Lys/Arg decarboxylase, major domain

Pfam (EcoliWiki Page)

PF03711 Orn/Lys/Arg decarboxylase, C-terminal domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:53383

Superfamily (EcoliWiki Page)

SUPERFAMILY:55904

EcoCyc

EcoCyc:EG10131

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10131

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000127

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0129

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013526

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 1.4 1.5 1.6 1.7 1.8 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 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. ↑ 3.0 3.1 3.2 3.3 3.4 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 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).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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