RegulonDB

Gene
Name:	glcB
Synonym(s):	ECK2970, EG20080, b2976, glc
Genome position(nucleotides):	3121634 <-- 3123805 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	53.45
External database links:

ASAP:	ABE-0009767
CGSC:	711
ECHOBASE:	EB4141
ECOLIHUB:	glcB
OU-MICROARRAY:	b2976
STRING:	511145.b2976
COLOMBOS:	glcB

Gene

Name:

glcB

Synonym(s):

ECK2970, EG20080, b2976, glc

Genome position(nucleotides):

3121634 <-- 3123805 Genome Browser

Strand:

reverse

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

53.45

External database links:

ASAP:

CGSC:

ECHOBASE:

ECOLIHUB:

OU-MICROARRAY:

STRING:

COLOMBOS:

Shine dalgarno
Sequence:	taagcgaaaaCGAGGAgataaacAAT

Shine dalgarno

Sequence:

taagcgaaaaCGAGGAgataaacAAT

Type

Positions

Sequence

18 -> 697

RFVDEEVLPGTGLDAAAFWRNFDEIVHDLAPENRQLLAERDRIQAALDEWHRSNPGPVKDKAAYKSFLRELGYLVPQPERVTVETTGIDSEITSQAGPQLVVPAMNARYALNAANARWGSLYDALYGSDIIPQEGAMVSGYDPQRGEQVIAWVRRFLDESLPLENGSYQDVVAFKVVDKQLRIQLKNGKETTLRTPAQFVGYRGDAAAPTCILLKNNGLHIELQIDANGRIGKDDPAHINDVIVEAAISTILDCEDSVAAVDAEDKILLYRNLLGLMQGTLQEKMEKNGRQIVRKLNDDRHYTAADGSEISLHGRSLLFIRNVGHLMTIPVIWDSEGNEIPEGILDGVMTGAIALYDLKVQKNSRTGSVYIVKPKMHGPQEVAFANKLFTRIETMLGMAPNTLKMGIMDEERRTSLNLRSCIAQARNRVAFINTGFLDRTGDEMHSVMEAGPMLRKNQMKSTPWIKAYERNNVLSGLFCGLRGKAQIGKGMWAMPDLMADMYSQKGDQLRAGANTAWVPSPTAATLHALHYHQTNVQSVQANIAQTEFNAEFEPLLDDLLTIPVAENANWSAQEIQQELDNNVQGILGYVVRWVEQGIGCSKVPDIHNVALMEDRATLRISSQHIANWLRHGILTKEQVQASLENMAKVVDQQNAGDPAYRPMAGNFANSCAFKAASDLI

125 -> 126

338 -> 338

617 -> 617

2 -> 723

SQTITQSRLRIDANFKRFVDEEVLPGTGLDAAAFWRNFDEIVHDLAPENRQLLAERDRIQAALDEWHRSNPGPVKDKAAYKSFLRELGYLVPQPERVTVETTGIDSEITSQAGPQLVVPAMNARYALNAANARWGSLYDALYGSDIIPQEGAMVSGYDPQRGEQVIAWVRRFLDESLPLENGSYQDVVAFKVVDKQLRIQLKNGKETTLRTPAQFVGYRGDAAAPTCILLKNNGLHIELQIDANGRIGKDDPAHINDVIVEAAISTILDCEDSVAAVDAEDKILLYRNLLGLMQGTLQEKMEKNGRQIVRKLNDDRHYTAADGSEISLHGRSLLFIRNVGHLMTIPVIWDSEGNEIPEGILDGVMTGAIALYDLKVQKNSRTGSVYIVKPKMHGPQEVAFANKLFTRIETMLGMAPNTLKMGIMDEERRTSLNLRSCIAQARNRVAFINTGFLDRTGDEMHSVMEAGPMLRKNQMKSTPWIKAYERNNVLSGLFCGLRGKAQIGKGMWAMPDLMADMYSQKGDQLRAGANTAWVPSPTAATLHALHYHQTNVQSVQANIAQTEFNAEFEPLLDDLLTIPVAENANWSAQEIQQELDNNVQGILGYVVRWVEQGIGCSKVPDIHNVALMEDRATLRISSQHIANWLRHGILTKEQVQASLENMAKVVDQQNAGDPAYRPMAGNFANSCAFKAASDLIFLGVKQPNGYTEPLLHAWRLREKESH

Type

Positions

Sequence

18 -> 697

125 -> 126

338 -> 338

617 -> 617

2 -> 723

631 -> 631

452 -> 455

GFLD

Multifun Terms (GenProtEC)

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

1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.21 - glyoxylate degradation

Gene Ontology Terms (GO)

cellular_component

GO:0005737 - cytoplasm
GO:0005829 - cytosol

molecular_function

GO:0003824 - catalytic activity
GO:0016740 - transferase activity
GO:0046872 - metal ion binding
GO:0004474 - malate synthase activity
GO:0000287 - magnesium ion binding

biological_process

GO:0006097 - glyoxylate cycle
GO:0006099 - tricarboxylic acid cycle
GO:0009436 - glyoxylate catabolic process

Transcriptional Regulation
	Display Regulation
Activated by:	GlcC, IHF
Repressed by:	ArcA, PdhR

Transcriptional Regulation

Display Regulation

Activated by:

GlcC, IHF

Repressed by:

ArcA, PdhR

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	glcAp12	3121321	reverse	nd	[ICWHO]	[11]
promoter	glcAp10	3121364	reverse	nd	[ICWHO]	[11]
promoter	TSS_3299	3121581	reverse	nd	[RS-EPT-CBR]	[12]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

glcAp12

3121321

reverse

[ICWHO]

[11]

promoter

glcAp10

3121364

reverse

[ICWHO]

[11]

promoter

TSS_3299

3121581

reverse

[RS-EPT-CBR]

[12]

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

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] Anstrom DM., Colip L., Moshofsky B., Hatcher E., Remington SJ., 2005, Systematic replacement of lysine with glutamine and alanine in Escherichia coli malate synthase G: effect on crystallization., Acta Crystallogr Sect F Struct Biol Cryst Commun 61(Pt 12):1069-74
[2] Choi SY., Park SJ., Kim WJ., Yang JE., Lee H., Shin J., Lee SY., 2016, One-step fermentative production of poly(lactate-co-glycolate) from carbohydrates in Escherichia coli., Nat Biotechnol 34(4):435-40
[3] Dahiya V., Chaudhuri TK., 2013, Functional intermediate in the refolding pathway of a large and multidomain protein malate synthase G., Biochemistry 52(26):4517-30
[4] Hu W., Namanja AT., Wong S., Chen Y., 2012, Selective editing of Val and Leu methyl groups in high molecular weight protein NMR., J Biomol NMR 53(2):113-24
[5] Kumar R., Bhakuni V., 2011, Comparative analysis of malate synthase G from Mycobacterium tuberculosis and E. coli: role of ionic interaction in modulation of structural and functional properties., Int J Biol Macromol 49(5):917-22
[6] Miyanoiri Y., Takeda M., Okuma K., Ono AM., Terauchi T., Kainosho M., 2013, Differential isotope-labeling for Leu and Val residues in a protein by E. coli cellular expression using stereo-specifically methyl labeled amino acids., J Biomol NMR 57(3):237-49
[7] Rui B., Shen T., Zhou H., Liu J., Chen J., Pan X., Liu H., Wu J., Zheng H., Shi Y., 2010, A systematic investigation of Escherichia coli central carbon metabolism in response to superoxide stress., BMC Syst Biol 4:122
[8] Sheppard D., Guo C., Tugarinov V., 2009, Methyl-detected 'out-and-back' NMR experiments for simultaneous assignments of Alabeta and Ilegamma2 methyl groups in large proteins., J Biomol NMR 43(4):229-38
[9] Tugarinov V., Hwang PM., Kay LE., 2004, Nuclear magnetic resonance spectroscopy of high-molecular-weight proteins., Annu Rev Biochem 73:107-46
[10] Tugarinov V., Kanelis V., Kay LE., 2006, Isotope labeling strategies for the study of high-molecular-weight proteins by solution NMR spectroscopy., Nat Protoc 1(2):749-54
[11] 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
[12] 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] Anstrom DM., Colip L., Moshofsky B., Hatcher E., Remington SJ., 2005, Systematic replacement of lysine with glutamine and alanine in Escherichia coli malate synthase G: effect on crystallization., Acta Crystallogr Sect F Struct Biol Cryst Commun 61(Pt 12):1069-74

[2] Choi SY., Park SJ., Kim WJ., Yang JE., Lee H., Shin J., Lee SY., 2016, One-step fermentative production of poly(lactate-co-glycolate) from carbohydrates in Escherichia coli., Nat Biotechnol 34(4):435-40

[3] Dahiya V., Chaudhuri TK., 2013, Functional intermediate in the refolding pathway of a large and multidomain protein malate synthase G., Biochemistry 52(26):4517-30

[4] Hu W., Namanja AT., Wong S., Chen Y., 2012, Selective editing of Val and Leu methyl groups in high molecular weight protein NMR., J Biomol NMR 53(2):113-24

[5] Kumar R., Bhakuni V., 2011, Comparative analysis of malate synthase G from Mycobacterium tuberculosis and E. coli: role of ionic interaction in modulation of structural and functional properties., Int J Biol Macromol 49(5):917-22

[6] Miyanoiri Y., Takeda M., Okuma K., Ono AM., Terauchi T., Kainosho M., 2013, Differential isotope-labeling for Leu and Val residues in a protein by E. coli cellular expression using stereo-specifically methyl labeled amino acids., J Biomol NMR 57(3):237-49

[7] Rui B., Shen T., Zhou H., Liu J., Chen J., Pan X., Liu H., Wu J., Zheng H., Shi Y., 2010, A systematic investigation of Escherichia coli central carbon metabolism in response to superoxide stress., BMC Syst Biol 4:122

[8] Sheppard D., Guo C., Tugarinov V., 2009, Methyl-detected 'out-and-back' NMR experiments for simultaneous assignments of Alabeta and Ilegamma2 methyl groups in large proteins., J Biomol NMR 43(4):229-38

[9] Tugarinov V., Hwang PM., Kay LE., 2004, Nuclear magnetic resonance spectroscopy of high-molecular-weight proteins., Annu Rev Biochem 73:107-46

[10] Tugarinov V., Kanelis V., Kay LE., 2006, Isotope labeling strategies for the study of high-molecular-weight proteins by solution NMR spectroscopy., Nat Protoc 1(2):749-54

[11] 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

[12] 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.