RegulonDB

Gene
Name:	gcvA
Synonym(s):	ECK2803, EG11795, b2808
Genome position(nucleotides):	2941650 <-- 2942567 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	49.13
External database links:

ASAP:	ABE-0009202
CGSC:	28676
ECHOBASE:	EB1743
ECOLIHUB:	gcvA
OU-MICROARRAY:	b2808
STRING:	511145.b2808
COLOMBOS:	gcvA

Shine dalgarno
Sequence:	catttaacatCAAAGTttaatagcCAT

Product

Name:

DNA-binding transcriptional dual regulator GcvA

Synonym(s):

GcvA, positive regulator of gcv operon

Sequence:

Get amino acid sequence Fasta Format

Regulator Family:

LysR

Cellular location:

cytosol

Molecular weight:

34.402

Isoelectric point:

9.311

Motif(s):

Type	Positions	Sequence
	6 -> 63	PPLNALRVFDAAARHLSFTRAAEELFVTQAAVSHQIKSLEDFLGLKLFRRRNRSLLLT
	8 -> 67	LNALRVFDAAARHLSFTRAAEELFVTQAAVSHQIKSLEDFLGLKLFRRRNRSLLLTEEGQ
	23 -> 42	FTRAAEELFVTQAAVSHQIK
	91 -> 292	SAKGALTVSLLPSFAIHWLVPRLSSFNSAYPGIDVRIQAVDRQEDKLADDVDVAIFYGRGNWPGLRVEKLYAEYLLPVCSPLLLTGEKPLKTPEDLAKHTLLHDASRRDWQTYTRQLGLNHINVQQGPIFSHSAMVLQAAIHGQGVALANNVMAQSEIEAGRLVCPFNDVLVSKNAFYLVCHDSQAELGKIAAFRQWILAKA

Classification:

Multifun Terms (GenProtEC)
		1 - metabolism --> 1.1 - carbon utilization --> 1.1.3 - amino acids
		1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.17 - formyl-THF biosynthesis
		2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
		3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.2 - activator
		3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.3 - repressor
		3 - regulation --> 3.3 - genetic unit regulated --> 3.3.1 - operon
Gene Ontology Terms (GO)
	cellular_component	GO:0005737 - cytoplasm GO:0005829 - cytosol
	molecular_function	GO:0003677 - DNA binding GO:0003700 - DNA-binding transcription factor activity GO:0043565 - sequence-specific DNA binding
	biological_process	GO:0006351 - transcription, DNA-templated GO:0006355 - regulation of transcription, DNA-templated GO:0009411 - response to UV

Note(s):

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

Evidence:

[BPP] Binding of purified proteins
[GEA] Gene expression analysis
[HIFS] Human inference of function from sequence

Reference(s):

[1] Okamura-Ikeda K., et al., 1993
[2] Sargentini NJ., et al., 2016
[3] Wilson RL., et al., 1994
[4] Wilson RL., et al., 1995

External database links:

DIP:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

MODBASE:

PFAM:

PFAM:

PRIDE:

PRINTS:

PRODB:

PROSITE:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

gcvA

Operon arrangement:

Transcription unit	Promoter
gcvA	gcvAp

Transcriptional Regulation
	Display Regulation
Repressed by:	GcvA

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

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	ygdDp2	2941721	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 5.103. P-value: 6.790e-6 Read more >	[ICWHO]	[5]
promoter	TSS_3118	2942729	forward	nd	[RS-EPT-CBR]	[6]
promoter	TSS_3119	2942760	forward	nd	[RS-EPT-CBR]	[6]

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] Okamura-Ikeda K., Ohmura Y., Fujiwara K., Motokawa Y., 1993, Cloning and nucleotide sequence of the gcv operon encoding the Escherichia coli glycine-cleavage system., Eur J Biochem 216(2):539-48
[2] Sargentini NJ., Gularte NP., Hudman DA., 2016, Screen for genes involved in radiation survival of Escherichia coli and construction of a reference database., Mutat Res 793-794:1-14
[3] Wilson RL., Stauffer GV., 1994, DNA sequence and characterization of GcvA, a LysR family regulatory protein for the Escherichia coli glycine cleavage enzyme system., J Bacteriol 176(10):2862-8
[4] Wilson RL., Urbanowski ML., Stauffer GV., 1995, DNA binding sites of the LysR-type regulator GcvA in the gcv and gcvA control regions of Escherichia coli., J Bacteriol 177(17):4940-6
[5] 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
[6] 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.