RegulonDB

Gene
Name:	araD
Synonym(s):	ECK0062, EG10055, b0061
Genome position(nucleotides):	65855 <-- 66550
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	55.32
External database links:

ASAP:	ABE-0000209
CGSC:	1025
ECHOBASE:	EB0053
ECOLIHUB:	araD
OU-MICROARRAY:	b0061
STRING:	511145.b0061
COLOMBOS:	araD

Gene

Name:

araD

Synonym(s):

ECK0062, EG10055, b0061

Genome position(nucleotides):

65855 <-- 66550

Strand:

reverse

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

55.32

External database links:

ASAP:

CGSC:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Type

Positions

Sequence

Comment

8 -> 195

QVLEANLALPKHNLVTLTWGNVSAVDRERGVFVIKPSGVDYSVMTADDMVVVSIETGEVVEGTKKPSSDTPTHRLLYQAFPSIGGIVHTHSRHATIWAQAGQSIPATGTTHADYFYGTIPCTRKMTDAEINGEYEWETGNVIVETFEKQGIDAAQMPGVLVHSHGPFAWGKNAEDAVHNAIVLEEVAY

27 -> 28

UniProt: Substrate binding; Sequence Annotation Type: region of interest.

28 -> 28

UniProt: Strong decrease of the affinity for L-ribulose 5-phosphate (LRu5P)..

42 -> 42

UniProt: Strong decrease of the affinity for L-ribulose 5-phosphate (LRu5P)..

44 -> 45

UniProt: Substrate binding; Sequence Annotation Type: region of interest.

Type

Positions

Sequence

Comment

8 -> 195

QVLEANLALPKHNLVTLTWGNVSAVDRERGVFVIKPSGVDYSVMTADDMVVVSIETGEVVEGTKKPSSDTPTHRLLYQAFPSIGGIVHTHSRHATIWAQAGQSIPATGTTHADYFYGTIPCTRKMTDAEINGEYEWETGNVIVETFEKQGIDAAQMPGVLVHSHGPFAWGKNAEDAVHNAIVLEEVAY

27 -> 28

UniProt: Substrate binding; Sequence Annotation Type: region of interest.

28 -> 28

UniProt: Strong decrease of the affinity for L-ribulose 5-phosphate (LRu5P)..

42 -> 42

UniProt: Strong decrease of the affinity for L-ribulose 5-phosphate (LRu5P)..

44 -> 45

UniProt: Substrate binding; Sequence Annotation Type: region of interest.

74 -> 75

UniProt: Substrate binding; Sequence Annotation Type: region of interest.

76 -> 76

UniProt: Mutant shows a strong decrease of the catalytic efficiency, but it retains considerable epimerase activity. The affinity for L-ribulose 5-phosphate (LRu5P) is relatively unaffected..

95 -> 95

UniProt: Mutant shows a strong decrease of the catalytic efficiency and a reduced affinity for Zn(2+)..

97 -> 97

UniProt: Mutant shows a strong decrease of the catalytic efficiency and a reduced affinity for Zn(2+). Inhibited by glycolaldehyde phosphate..

116 -> 116

UniProt: Loss of the epimerase activity due to an increased steric bulk introduced by the mutation which causes a conformational change that is incompatible with catalysis..

120 -> 120

UniProt: Loss of the epimerase activity..

142 -> 142

UniProt: Mutant shows a strong decrease of the catalytic efficiency, but it retains considerable epimerase activity. The affinity for L-ribulose 5-phosphate (LRu5P) is relatively unaffected..

218 -> 218

UniProt: Mutant shows a strong decrease of the catalytic efficiency, but it retains considerable epimerase activity. The affinity for L-ribulose 5-phosphate (LRu5P) is relatively unaffected..

229 -> 229

UniProt: Loss of the epimerase activity..

Multifun Terms (GenProtEC)

1 - metabolism --> 1.1 - carbon utilization --> 1.1.1 - carbon compounds

Gene Ontology Terms (GO)

cellular_component

GO:0005829 - cytosol
GO:0032991 - protein-containing complex

molecular_function

GO:0016853 - isomerase activity
GO:0046872 - metal ion binding
GO:0016832 - aldehyde-lyase activity
GO:0008270 - zinc ion binding
GO:0008742 - L-ribulose-phosphate 4-epimerase activity
GO:0042802 - identical protein binding

biological_process

GO:0005975 - carbohydrate metabolic process
GO:0019323 - pentose catabolic process
GO:0019568 - arabinose catabolic process
GO:0019324 - L-lyxose metabolic process
GO:0019569 - L-arabinose catabolic process to xylulose 5-phosphate
GO:0019572 - L-arabinose catabolic process
GO:0051289 - protein homotetramerization

Transcriptional Regulation
	Display Regulation
Activated by:	CRP, AraC
Repressed by:	AraC

Transcriptional Regulation

Display Regulation

Activated by:

CRP, AraC

Repressed by:

AraC

RNA cis-regulatory element

Attenuation:	Transcriptional

RNA cis-regulatory element

Attenuation:

Transcriptional

	Type	Name	Post Left	Post Right	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
	promoter	TSS_118	63450		reverse	nd	[RS-EPT-CBR]	[1]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

TSS_118

63450

reverse

[RS-EPT-CBR]

[1]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Evidence

[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

Reference(s)

[1] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.