RegulonDB

Gene
Name:	panC
Synonym(s):	ECK0132, EG11746, b0133
Genome position(nucleotides):	147944 <-- 148795 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	52.7
External database links:

ASAP:	ABE-0000465
CGSC:	426
ECHOBASE:	EB1696
OU-MICROARRAY:	b0133
PortEco:	panC
STRING:	511145.b0133
COLOMBOS:	panC

Gene

Name:

panC

Synonym(s):

ECK0132, EG11746, b0133

Genome position(nucleotides):

147944 <-- 148795 Genome Browser

Strand:

reverse

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

52.7

External database links:

ASAP:

CGSC:

ECHOBASE:

OU-MICROARRAY:

PortEco:

STRING:

COLOMBOS:

Type

Positions

Sequence

186 -> 189

LSSR

149 -> 152

GEKD

3 -> 277

IIETLPLLRQQIRRLRMEGKRVALVPTMGNLHDGHMKLVDEAKARADVVVVSIFVNPMQFDRPEDLARYPRTLQEDCEKLNKRKVDLVFAPSVKEIYPNGTETHTYVDVPGLSTMLEGASRPGHFRGVSTIVSKLFNLVQPDIACFGEKDFQQLALIRKMVADMGFDIEIVGVPIMRAKDGLALSSRNGYLTAEQRKIAPGLYKVLSSIADKLQAGERDLDEIITIAGQELNEKGFRADDIQIRDADTLLEVSETSKRAVILVAAWLGDARLIDN

30 -> 37

MGNLHDGH

Type

Positions

Sequence

186 -> 189

LSSR

149 -> 152

GEKD

3 -> 277

30 -> 37

MGNLHDGH

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:0003824 - catalytic activity
GO:0005515 - protein binding
GO:0016874 - ligase activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0004592 - pantoate-beta-alanine ligase activity
GO:0042802 - identical protein binding
GO:0042803 - protein homodimerization activity

biological_process

GO:0009058 - biosynthetic process
GO:0015940 - pantothenate biosynthetic process

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_271	147583	forward	nd	[RS-EPT-CBR]	[4]
promoter	panCp4	148910	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.1. P-value: 5.275e-5 Read more >	[ICWHO]	[5]
promoter	panCp2	148920	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: good homology. Score: 3.72. P-value: 4.149e-5 Read more >	[ICWHO]	[5]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

TSS_271

147583

forward

[RS-EPT-CBR]

[4]

promoter

panCp4

148910

reverse

Similarity to the consensus
Read more >

[ICWHO]

[5]

promoter

panCp2

148920

reverse

Similarity to the consensus
Read more >

[ICWHO]

[5]

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

Evidence

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

[ICWHO] Inferred computationally without human oversight

Reference(s)
[1] Birch RM., O'Byrne C., Booth IR., Cash P., 2003, Enrichment of Escherichia coli proteins by column chromatography on reactive dye columns., Proteomics 3(5):764-76
[2] Chakrabarti KS., Sarma SP., 2006, NMR assignment of 2H, 13C and 15N labeled amino-terminal domain of apo-pantothenate synthetase from E. coli., J Biomol NMR 36 Suppl 1:38
[3] Rothmann M., Kang M., Villa R., Ntai I., La Clair JJ., Kelleher NL., Chapman E., Burkart MD., 2013, Metabolic perturbation of an essential pathway: evaluation of a glycine precursor of coenzyme A., J Am Chem Soc 135(16):5962-5
[4] 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.
[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

Reference(s)

[1] Birch RM., O'Byrne C., Booth IR., Cash P., 2003, Enrichment of Escherichia coli proteins by column chromatography on reactive dye columns., Proteomics 3(5):764-76

[2] Chakrabarti KS., Sarma SP., 2006, NMR assignment of 2H, 13C and 15N labeled amino-terminal domain of apo-pantothenate synthetase from E. coli., J Biomol NMR 36 Suppl 1:38

[3] Rothmann M., Kang M., Villa R., Ntai I., La Clair JJ., Kelleher NL., Chapman E., Burkart MD., 2013, Metabolic perturbation of an essential pathway: evaluation of a glycine precursor of coenzyme A., J Am Chem Soc 135(16):5962-5

[4] 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.

[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