RegulonDB

RegulonDB RegulonDB 10.9: Gene Form

panD gene in Escherichia coli K-12 genome

Gene local context to scale (view description)

Gene
Name:	panD
Synonym(s):	ECK0130, EG11747, b0131
Genome position(nucleotides):	146314 <-- 146694 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	52.49
External database links:

ASAP:	ABE-0000459
CGSC:	425
ECHOBASE:	EB1697
ECOLIHUB:	panD
OU-MICROARRAY:	b0131
STRING:	511145.b0131
COLOMBOS:	panD

Product

Name:

aspartate 1-decarboxylase proenzyme

Synonym(s):

PanD, PanD proenzyme, pi; protein

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

cytosol

Molecular weight:

13.834

Isoelectric point:

6.097

Motif(s):

Type	Positions	Sequence
	120 -> 121	AI
	1 -> 24	MIRTMLQGKLHRVKVTHADLHYEG
	73 -> 75	GAA
	25 -> 126	SCAIDQDFLDAAGILENEAIDIWNVTNGKRFSTYAIAAERGSRIISVNGAAAHCASVGDIVIIASFVTMPDEEARTWRPNVAYFEGDNEMKRTAKAIPVQVA
	107 -> 107	Y

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.3 - cofactors, small molecule carriers --> 1.5.3.5 - Coenzyme A and its modification
Gene Ontology Terms (GO)
	cellular_component	GO:0005737 - cytoplasm GO:0005829 - cytosol
	molecular_function	GO:0016829 - lyase activity GO:0016831 - carboxy-lyase activity GO:0004068 - aspartate 1-decarboxylase activity
	biological_process	GO:0006523 - alanine biosynthetic process GO:0016540 - protein autoprocessing GO:0015940 - pantothenate biosynthetic process

Note(s):

Note(s): ...[more].

External database links:

ECOCYC:

ASPDECARBOX-MONOMER

ECOLIWIKI:

ECOO157CYC:

INTERPRO:

INTERPRO:

MODBASE:

PANTHER:

PDB:

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PFAM:

PRIDE:

PRODB:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

panD

Operon arrangement:

Transcription unit	Promoter
panD	panDp
panD	panDp2

Regulation by small RNA
	Display Regulation
small RNA	gcvB

Elements in the selected gene context region unrelated to any object in RegulonDB

	Type	Name	Post Left	Post Right	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
	promoter	yadDp3	146898		forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.814. P-value: 3.013e-5 Read more >	[ICWHO]	[1]
	promoter	yadDp5	146957		forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 5.953. P-value: 4.233e-5 Read more >	[ICWHO]	[1]
	promoter	yadDp4	146959		forward	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 4.199. P-value: 4.678e-5 Read more >	[ICWHO]	[1]
	promoter	TSS_271	147583		forward	nd	[RS-EPT-CBR]	[2]

Evidence
[ICWHO] Inferred computationally without human oversight
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)

[1] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

[2] 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.

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