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Gene |

Product(s) |

Expression|

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Standard Name	purB
Gene Synonym(s)	ECK1117, b1131, JW1117, ade(h), adeh^[1], ade
Product Desc.	ASL^[2]^[3] Adenylosuccinate lyase, purine synthesis^[4]
Product Synonyms(s)	adenylosuccinate lyase^[1], B1131^[2]^[1], PurB^[2]^[1] , ade, ECK1117, JW1117, b1131
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): hflD-purB^[2], OP00075, purB, ycfC-purB
Regulation/Activity
Quick Links
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Notes

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HT_Cmplx33_Cyt: AcpP+PurB+SecA.^[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	purB
Mnemonic	Purine
Synonyms	ECK1117, b1131, JW1117, ade(h), adeh^[1], ade
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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	25.64 minutes	MG1655: 1191209..1189839 <gbrowseImage> name=NC_000913:1189839..1191209 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1207355..1205985 <gbrowseImage> name=NC_012967:1205985..1207355 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1093764..1095134 <gbrowseImage> name=NC_012759:1093764..1095134 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1193563..1192193 <gbrowseImage> name=NC_007779:1192193..1193563 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1246654..1245284 <gbrowseImage> name=NC_010473:1245284..1246654 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	1189839	Edman degradation	PMID:1729205
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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	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
purB58				CGSC:6241
purB51				CGSC:5298
purB67				CGSC:6271
purB15				CGSC:7213
purB68				CGSC:7308
purB56				CGSC:14460
purB93(ts)		temperature sensitive		CGSC:19316
purB⁺	Resistant to	Resistance to antibiotic Nalidixic acid	PMID:4923064	Experimental strain: AB1325	Figure 1
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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
JW1117	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGAATTATCCTCACTGACCGC Primer 2:CCTTTCAGCTCATCAACCATCGT
7F9	Kohara Phage	Genobase	PMID:3038334
2E7	Kohara Phage	Genobase	PMID:3038334
zce-726::Tn10	Linked marker	CAG12078 = CGSC7361^[5]	est. P1 cotransduction: 25% ^[6]
zcf-117::Tn10	Linked marker	CAG18463 = CGSC7363^[5]	est. P1 cotransduction: 46% ^[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:EG11314	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11314	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001285	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945695	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1290	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003810	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	PurB
Synonyms	adenylosuccinate lyase^[1], B1131^[2]^[1], PurB^[2]^[1] , ade, ECK1117, JW1117, b1131
Product description	ASL^[2]^[3] Adenylosuccinate lyase, purine synthesis^[4]
EC number (for enzymes)	4.3.2.2^[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:0004018	N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004769	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004018	N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013539	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004018	N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:4.3.2.2	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004018	N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity	PMID:8969519	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0006164	purine nucleotide biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0658	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006188	IMP biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013539	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009152	purine ribonucleotide biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004769	P	Seeded from EcoCyc (v14.0)	complete
	GO:0070626	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:4.3.2.2	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006974	response to DNA damage stimulus	PMID:11967071	IEP: Inferred from Expression Pattern		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	References	Evidence
Protein	relA	PMID:16606699	Experiment(s):EBI-1138972
Protein	narZ	PMID:16606699	Experiment(s):EBI-1138972
Protein	clpX	PMID:16606699	Experiment(s):EBI-1138972
Protein	nadE	PMID:16606699	Experiment(s):EBI-1138972
Protein	aceE	PMID:15690043	Experiment(s):EBI-880008
Protein	rplV	PMID:15690043	Experiment(s):EBI-885051
Protein	rpsB	PMID:15690043	Experiment(s):EBI-885051
Protein	ydaY	PMID:15690043	Experiment(s):EBI-885051
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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 MELSSLTAVS PVDGRYGDKV SALRGIFSEY GLLKFRVQVE VRWLQKLAAH AAIKEVPAFA ADAIGYLDAI VASFSEEDAA RIKTIERTTN HDVKAVEYFL KEKVAEIPEL HAVSEFIHFA CTSEDINNLS HALMLKTARD EVILPYWRQL IDGIKDLAVQ YRDIPLLSRT HGQPATPSTI GKEMANVAYR MERQYRQLNQ VEILGKINGA VGNYNAHIAA YPEVDWHQFS EEFVTSLGIQ WNPYTTQIEP HDYIAELFDC VARFNTILID FDRDVWGYIA LNHFKQKTIA GEIGSSTMPH KVNPIDFENS EGNLGLSNAV LQHLASKLPV SRWQRDLTDS TVLRNLGVGI GYALIAYQST LKGVSKLEVN RDHLLDELDH NWEVLAEPIQ TVMRRYGIEK PYEKLKELTR GKRVDAEGMK QFIDGLALPE EEKARLKAMT PANYIGRAIT MVDELK
Length	456
Mol. Wt	51.543 kDa
pI	5.9 (calculated)
Extinction coefficient	65,320 - 65,570 (calc based on 18 Y, 7 W, and 2 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	14..320	PF00206 Lyase	PMID:19920124
Domain	331..445	PF08328 Adenylosuccinate lyase 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=purB 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:16129094	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945695	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003810	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0AB89	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11314	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11314	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945695	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001285	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1290	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	2.98E+03	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	100.924+/-0.635	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.16819+/-0.0792	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by FISH	PMID:20671182
mRNA	Ecoli K-12	0.11350365	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	7380	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	3041	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	2162	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)
hflD-purB
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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_000913:1191189..1191229 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:b1131 (EcoliWiki Page)	NCBI GEO profiles for purB
microarray	GenExpDB:b1131 (EcoliWiki Page)	Summary of data for purB 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 purB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11314	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1290	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1131
EcoGene	EcoGene:EG11314	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001285	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003810	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
Anopheles gambiae	ENSANGP00000014908 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000019513 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT4G18440 (score: 1.000; bootstrap: 100%) AT1G36280 (score: 0.698)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0230094 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0038467 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YLR359W (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC14F59c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000167543 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00021678001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000013869 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	PURB	From SHIGELLACYC
E. coli O157	PURB	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)	PF00206 Lyase
Superfamily (EcoliWiki Page)	SUPERFAMILY:48557
Panther (EcoliWiki Page)	PTHR11444:SF2
Pfam (EcoliWiki Page)	PF08328 Adenylosuccinate lyase C-terminal
EcoCyc	EcoCyc:EG11314	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11314	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001285	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1290	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003810	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 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 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 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).

purB: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 purB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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