E. coli is indeed the coolest thing on the planet - Carl Zimmer
add:On One Page
From EcoliWiki
| Quickview | Gene | Gene Product(s) | Expression | Evolution | On One Page |
| Quickview | | Gene | | Product(s) | | Expression| | Evolution | | References | |
Quickview
| Gene Name | |
|---|---|
| Product(s) |
Add product[1]: adenosine deaminase product, B1623 product |
| Description | |
| Knock-Out Phenotype | |
| Regulation/Expression | |
| Regulation/Activity | |
| edit table | |
See Help:Quickview for help with entering information in the Quickview table.
Notes
Gene
Nomenclature
| Standard name |
add |
|---|---|
| Mnemonic | |
| Synonyms |
ECK1618, b1623, JW1615[1] |
| edit table | |
See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.
Notes
Location(s) and DNA Sequence
| Strain | Map location | Genome coordinates | Genome browsers | Sequence links |
|---|---|---|---|---|
|
MG1655 |
36.65 minutes |
MG1655: 1700257..1701258 | ||
|
W3110 |
|
W3110: 1703947..1704948 | ||
| edit table |
See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.
Notes
Sequence Features
| Feature type | Location | Description |
|---|---|---|
| edit table |
See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.
Notes
Alleles and Phenotypes
| Allele | Nt change(s) | AA change(s) | Phenotype: Type | Phenotype: Description | Reference | Availability | Comments |
|---|---|---|---|---|---|---|---|
|
Δadd (Keio:JW1615) |
deletion |
deletion | |||||
|
add-6 | |||||||
|
Δadd-771::kan |
| ||||||
| edit table |
See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.
Notes
Genetic Resources
| Resource | Resource Type | Source | Notes/Reference |
|---|---|---|---|
|
JW1615 |
Plasmid clone |
Status:Clone OK Primer 1:GCCATTGATACCACCCTGCCATT Primer 2:CCtTTCGCGGCGACTTTTTCTCG | |
|
Linked marker |
est. P1 cotransduction: % [7] Synonyms:zdc-235::Tn10 | ||
|
zdi-925::Tn10 |
Linked marker |
est. P1 cotransduction: 1% [7] Synonyms:zdh-925::Tn10 | |
| edit table |
See Help:Gene_resources for help entering information into the Genetic Resources table.
Notes
Accessions in Other Databases
| Database | Accession | Notes |
|---|---|---|
|
| ||
| edit table |
See Help:Gene_accessions for help with entering information into the Gene Accessions table.
Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
See Help:Links_table for how to enter or edit information in this section of EcoliWiki.
Categories
Product(s)
Nomenclature
| Standard name |
Add |
|---|---|
| Synonyms | |
| Product description | |
| EC number (for enzymes) | |
| edit table |
See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.
Notes
Function
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(s) | Evidence Code | with/from | Aspect | Notes | Status |
|---|---|---|---|---|---|---|---|---|
| GO:0016787 |
hydrolase activity |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc 12.5 [8] |
complete | |||
| GO:0009168 |
purine ribonucleoside monophosphate biosynthetic process |
IEA: Inferred from Electronic Annotation |
InterPro:IPR001365 |
P |
Seeded from EcoCyc 12.5 [8] |
complete | ||
| GO:0009117 |
nucleotide metabolic process |
IEA: Inferred from Electronic Annotation |
P |
Seeded from EcoCyc 12.5 [8] |
complete | |||
| GO:0004000 |
adenosine deaminase activity |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc 12.5 [8] |
complete | |||
| GO:0019239 |
deaminase activity |
IEA: Inferred from Electronic Annotation |
F |
Seeded from EcoCyc 12.5 [8] |
complete | |||
| GO:0005737 |
cytoplasm |
C |
Seeded from Riley et al 2006 [1]. |
required fields missing | ||||
| GO:0015949 |
nucleobase, nucleoside and nucleotide interconversion |
P |
Seeded from EcoCyc 11.1[3]. |
required fields missing | ||||
| GO:0005488 |
binding |
ISS: Inferred from Sequence or Structural Similarity |
F |
CHEBI:27834 (Deoxycoformycin mechanistically inhibits Add). |
complete | |||
| GO:0004000 |
adenosine deaminase activity |
ISS: Inferred from Sequence or Structural Similarity |
F |
complete | ||||
| edit table |
Interactions
| Partner Type | Partner | Notes | References |
|---|---|---|---|
|
Small Molecule |
CHEBI:27834 (Deoxycoformycin) |
Inhibitor of Add activity |
|
| edit table |
See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.
Notes
Localization
| Compartment | Description | Evidence | Notes |
|---|---|---|---|
| edit table |
See Help:Product_localization for how to add or edit information in this section of EcoliWiki.
Notes
Structure and Physical Properties
Physical Properties
| Sequence |
MIDTTLPLTD IHRHLDGNIR PQTILELGRQ YNISLPAQSL ETLIPHVQVI ANEPDLVSFL TKLDWGVKVL ASLDACRRVA FENIEDAARH GLHYVELRFS PGYMAMAHQL PVAGVVEAVI DGVREGCRTF GVQAKLIGIM SRTFGEAACQ QELEAFLAHR DQITALDLAG DELGFPGSLF LSHFNRARDA GWHITVHAGE AAGPESIWQA IRELGAERIG HGVKAIEDRA LMDFLAEQQI GIESCLTSNI QTSTVAELAA HPLKTFLEHG IRASINTDDP GVQGVDIIHE YTVAAPAAGL SREQIRQAQI NGLEMAFLSA EEKRALREKV AAK |
|---|---|
| Mol. Wt |
36.4 kDa (calc) [2] |
| pI |
5.63[2] |
| Extinction coefficient |
22460 - 22960 (calc based on 4 Y, 3 W, and 4 C residues) |
| edit table |
See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.
Domains/Motifs/Modification Sites
| Type | Residues | Description | Notes |
|---|---|---|---|
| edit table |
See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.
Structure
| Structures |
|
|---|---|
| Models |
View models at: |
| edit table |
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.
Notes
Gene Product Resources
| Resource type | Source | Notes/Reference |
|---|---|---|
| edit table |
See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.
Notes
Accessions in Other Databases
| Database | Accession | Notes |
|---|---|---|
|
| ||
| edit table |
See Help:Product_accessions for help entering or editing information in this section of EcoliWiki.
Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
See Help:Links_table for how to enter or edit information in this section of EcoliWiki.
Categories
Expression
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.
Transcription and Transcriptional Regulation
|  |
See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.
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
This picture shows the sequence around the N-terminus.
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
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
Mutations Affecting Expression
| Allele Name | Mutation | Phenotype | Reference |
|---|---|---|---|
| edit table |
See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.
Expression Studies
| Type | Reference | Notes |
|---|---|---|
|
microarray |
Summary of data for add from multiple microarray studies | |
|
microarray |
NCBI GEO profiles for add | |
| edit table |
See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.
Expression Resources
| Resource Name | Resource Type | Description | Source | Notes |
|---|---|---|---|---|
|
GFP Fusion |
Intergenic region (1700057..1700309) fused to gfpmut2. |
GFP fusion described in Zaslaver, et al. | ||
| edit table |
See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.
Notes
Accessions Related to add Expression
| Database | Accession | Notes |
|---|---|---|
| edit table |
See Help:Expression_accessions for help entering or editing information in this section of EcoliWiki.
Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
See Help:Links_table for how to enter or edit information in this section of EcoliWiki.
Categories
Evolution
Homologs in Other Organisms
| Organism | Homologs (Statistics) | Comments |
|---|---|---|
|
Anopheles gambiae |
|
From Inparanoid:20070104 |
|
Apis mellifera |
|
From Inparanoid:20070104 |
|
Arabidopsis thaliana |
|
From Inparanoid:20070104 |
|
Bos taurus |
|
From Inparanoid:20070104 |
|
Caenorhabditis briggsae |
|
From Inparanoid:20070104 |
|
Caenorhabditis elegans |
|
From Inparanoid:20070104 |
|
Canis familiaris |
|
From Inparanoid:20070104 |
|
Ciona intestinalis |
|
From Inparanoid:20070104 |
|
Danio rerio |
|
From Inparanoid:20070104 |
|
Dictyostelium discoideum |
|
From Inparanoid:20070104 |
|
Drosophila melanogaster |
|
From Inparanoid:20070104 |
|
Drosophila pseudoobscura |
|
From Inparanoid:20070104 |
|
Gallus gallus |
|
From Inparanoid:20070104 |
|
Homo sapiens |
|
From Inparanoid:20070104 |
|
Macaca mulatta |
|
From Inparanoid:20070104 |
|
Monodelphis domestica |
|
From Inparanoid:20070104 |
|
Mus musculus |
|
From Inparanoid:20070104 |
|
Pan troglodytes |
|
From Inparanoid:20070104 |
|
Rattus norvegicus |
|
From Inparanoid:20070104 |
|
Saccharomyces cerevisiae |
|
From Inparanoid:20070104 |
|
Schizosaccharomyces pombe |
|
From Inparanoid:20070104 |
|
Takifugu rubripes |
|
From Inparanoid:20070104 |
|
Tetraodon nigroviridis |
|
From Inparanoid:20070104 |
|
Xenopus tropicalis |
|
From Inparanoid:20070104 |
|
Shigella flexneri |
ADD |
From SHIGELLACYC |
|
E. coli O157 |
ADD |
From ECOO157CYC |
| edit table |
See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.
Do-It-Yourself Web Tools
Notes
Families
| Database | Accession | Notes |
|---|---|---|
| edit table |
See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.
Notes
Links
| Name | URL | Comments |
|---|---|---|
| edit table |
See Help:Links_table for how to enter or edit information in this section of EcoliWiki.
References
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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ 3.0 3.1 3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ 4.0 4.1 Baba T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2: 2006.0008 PubMed EcoliWiki page
- ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
- ↑ Kitagawa M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (A Complete Set of E. coli K-12 ORF Archive): Unique Resources for Biological Research. DNA Res 12: 291-9 PubMed EcoliWiki page
- ↑ 7.0 7.1 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).
- ↑ 8.0 8.1 8.2 8.3 8.4 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
- ↑ Frick L et al. (1986) Transition-state stabilization by adenosine deaminase: structural studies of its inhibitory complex with deoxycoformycin. Biochemistry 25: 1616-21 PubMed EcoliWiki page
- ↑ Wolfenden R et al. (1967) Substrate binding by adenosine deaminase. Specificity, pH dependence, and competition by mercurials. J Biol Chem 242: 977-83 PubMed EcoliWiki page
- ↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page
Categories
Categories: Gene List:MG1655 | Gene List:W3110 | Genes in the Keio knockout collection | Genes in the ASKA clone collection | add genes | GO:0016787 ! hydrolase activity | GO:0009168 ! purine ribonucleoside monophosphate biosynthetic process | GO:0009117 ! nucleotide metabolic process | GO:0004000 ! adenosine deaminase activity | GO:0019239 ! deaminase activity | GO:0005737 ! cytoplasm | GO:0015949 ! nucleobase, nucleoside and nucleotide interconversion | GO:0005488 ! binding | Proteins | Genes in OpenBioSystems with Promoter Fusions | Txn unit:add | Genes with homologs in Anopheles gambiae | Genes with homologs in Apis mellifera | Genes with homologs in Arabidopsis thaliana | Genes with homologs in Bos taurus | Genes with homologs in Caenorhabditis briggsae | Genes with homologs in Caenorhabditis elegans | Genes with homologs in Canis familiaris | Genes with homologs in Ciona intestinalis | Genes with homologs in Danio rerio | Genes with homologs in Dictyostelium discoideum | Genes with homologs in Drosophila melanogaster | Genes with homologs in Drosophila pseudoobscura | Genes with homologs in Gallus gallus | Genes with homologs in Homo sapiens | Genes with homologs in Macaca mulatta | Genes with homologs in Monodelphis domestica | Genes with homologs in Mus musculus | Genes with homologs in Pan troglodytes | Genes with homologs in Rattus norvegicus | Genes with homologs in Saccharomyces cerevisiae | Genes with homologs in Schizosaccharomyces pombe | Genes with homologs in Takifugu rubripes | Genes with homologs in Tetraodon nigroviridis | Genes with homologs in Xenopus tropicalis | Genes with homologs in Shigella flexneri | Genes with homologs in E. coli O157
