RegulonDB

Gene
Name:	gltB
Synonym(s):	ECK3202, EG10403, aspB, b3212, ossB, psiQ
Genome position(nucleotides):	3354725 --> 3359185 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	56.89
External database links:

ASAP:	ABE-0010545
CGSC:	686
ECHOBASE:	EB0398
OU-MICROARRAY:	b3212
PORTECO:	gltB
REGULONDB:	b3212
STRING:	511145.b3212
M3D:	gltB
COLOMBOS:	gltB
PortEco:	b3212

Gene

Name:

gltB

Synonym(s):

ECK3202, EG10403, aspB, b3212, ossB, psiQ

Genome position(nucleotides):

3354725 --> 3359185 Genome Browser

Strand:

forward

Sequence:

Get nucleotide sequence FastaFormat

GC content %:

56.89

External database links:

ASAP:

CGSC:

ECHOBASE:

OU-MICROARRAY:

PORTECO:

REGULONDB:

STRING:

M3D:

COLOMBOS:

PortEco:

Type

Positions

Sequence

1 -> 11

MLYDKSLERDN

109 -> 109

429 -> 429

12 -> 402

CGFGLIAHIEGEPSHKVVRTAIHALARMQHRGAILADGKTGDGCGLLLQKPDRFFRIVAQERGWRLAKNYAVGMLFLNKDPELAAAARRIVEEELQRETLSIVGWRDVPTNEGVLGEIALSSLPRIEQIFVNAPAGWRPRDMERRLFIARRRIEKRLEADKDFYVCSLSNLVNIYKGLCMPTDLPRFYLDLADLRLESAICLFHQRFSTNTVPRWPLAQPFRYLAHNGEINTITGNRQWARARTYKFQTPLIPDLHDAAPFVNETGSDSSSMDNMLELLLAGGMDIIRAMRLLVPPAWQNNPDMDPELRAFFDFNSMHMEPWDGPAGIVMSDGRFAACNLDRNGLRPARYVITKDKLITCASEVGIWDYQPDEVVEKGRVGPGELMVIDTR

189 -> 209

LCMPTDLPRFYLDLADLRLES

Type

Positions

Sequence

1 -> 11

MLYDKSLERDN

109 -> 109

429 -> 429

12 -> 402

189 -> 209

LCMPTDLPRFYLDLADLRLES

832 -> 832

543 -> 543

1255 -> 1259

THGDQ

228 -> 251

LAQPFRYLAHNGEINTITGNRQWA

1049 -> 1101

LVETQQALVANGLRHKIRLQVDGGLKTGVDIIKAAILGAESFGFGTGPMVALG

1236 -> 1418

DIRNTDRSVGASLSGYIAQTHGDQGLAADPIKAYFNGTAGQSFGVWNAGGVELYLTGDANDYVGKGMAGGLIAIRPPVGSAFRSHEASIIGNTCLYGATGGRLYAAGRAGERFGVRNSGAITVVEGIGDNGCEYMTGGIVCILGKTGVNFGAGMTGGFAYVLDESGDFRKRVNPELVEVLSVD

1342 -> 1342

1345 -> 1345

457 -> 737

YQKQFNYSAEELDSVIRVLGENGQEAVGSMGDDTPFAVLSSQPRIIYDYFRQQFAQVTNPPIDPLREAHVMSLATSIGREMNVFCEAEGQAHRLSFKSPILLYSDFKQLTTMKEEHYRADTLDITFDVTKTTLEATVKELCDKAEKMVRSGTVLLVLSDRNIAKDRLPVPAPMAVGAIQTRLVDQSLRCDANIIVETASARDPHHFAVLLGFGATAIYPYLAYETLGRLVDTHAIAKDYRTVMLNYRNGINKGLYKIMSKMGISTIASYRCSKLFEAVGLH

74 -> 78

GWRLA

793 -> 1156

HAYNPDVVRTLQQAVQSGEYSDYQEYAKLVNERPATTLRDLLAITPGENAVNIADVEPASELFKRFDTAAMSIGALSPEAHEALAEAMNSIGGNSNSGEGGEDPARYGTNKVSRIKQVASGRFGVTPAYLVNADVIQIKVAQGAKPGEGGQLPGDKVTPYIAKLRYSVPGVTLISPPPHHDIYSIEDLAQLIFDLKQVNPKAMISVKLVSEPGVGTIATGVAKAYADLITIAGYDGGTGASPLSSVKYAGCPWELGLVETQQALVANGLRHKIRLQVDGGLKTGVDIIKAAILGAESFGFGTGPMVALGCKYLRICHLNNCATGVATQDDKLRKNHYHGLPFKVTNYFEFIARETRELMAQLGV

Multifun Terms (GenProtEC)

1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.1 - amino acids --> 1.5.1.1 - glutamate

1 - metabolism --> 1.8 - metabolism of other compounds --> 1.8.3 - nitrogen metabolism

Gene Ontology Terms (GO)

cellular_component

GO:0005829 - cytosol

molecular_function

GO:0003824 - catalytic activity
GO:0005515 - protein binding
GO:0046872 - metal ion binding
GO:0016491 - oxidoreductase activity
GO:0016638 - oxidoreductase activity, acting on the CH-NH2 group of donors
GO:0004355 - glutamate synthase (NADPH) activity
GO:0015930 - glutamate synthase activity
GO:0004354 - glutamate dehydrogenase (NADP+) activity
GO:0051536 - iron-sulfur cluster binding
GO:0051538 - 3 iron, 4 sulfur cluster binding

biological_process

GO:0006537 - glutamate biosynthetic process
GO:0006541 - glutamine metabolic process
GO:0006807 - nitrogen compound metabolic process
GO:0008652 - cellular amino acid biosynthetic process
GO:0019676 - ammonia assimilation cycle
GO:0055114 - oxidation-reduction process
GO:0097054 - L-glutamate biosynthetic process

Transcriptional Regulation
	Display Regulation
Activated by:	HdfR, IHF, Lrp, AdiY, GadE
Repressed by:	CRP, Nac, FNR, Fur, ArgR

Transcriptional Regulation

Display Regulation

Activated by:

HdfR, IHF, Lrp, AdiY, GadE

Repressed by:

CRP, Nac, FNR, Fur, ArgR

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	yhcCp6	3354218	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.063. P-value: 4.319e-5 Read more >	[ICWHO]	[1]
promoter	yhcCp8	3354235	reverse	Similarity to the consensus sequence of the set of known functional promoters for this sigma factor with strong experimental evidence: high homology. Score: 4.7. P-value: 2.123e-5 Read more >	[ICWHO]	[1]
promoter	TSS_3533 (cluster)	3354511	forward	For this promoter, there is a cluster of 2 transcription start sites,in the interval 3354511 to 3354512, where the highest frequency is at position 3352533. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[2]
promoter	TSS_3534	3356105	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3535	3356236	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3536	3356239	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3537	3356669	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3538	3356672	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3539	3356806	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3540	3357175	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3541	3357512	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3542 (cluster)	3357958	forward	For this promoter, there is a cluster of 2 transcription start sites,in the interval 3357958 to 3357959, where the highest frequency is at position 3355980. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[2]
promoter	TSS_3543 (cluster)	3357974	forward	For this promoter, there is a cluster of 2 transcription start sites,in the interval 3357974 to 3357975, where the highest frequency is at position 3355997. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[2]
promoter	TSS_3544	3357991	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3545	3359147	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3546 (cluster)	3359164	forward	For this promoter, there is a cluster of 2 transcription start sites,in the interval 3359164 to 3359165, where the highest frequency is at position 3357186. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[2]
promoter	TSS_3547	3359356	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3548	3359426	forward	nd	[RS-EPT-CBR]	[2]
promoter	TSS_3549	3359434	forward	nd	[RS-EPT-CBR]	[2]

Type

Name

Post Left

Post Right

Strand

Notes

Evidence (Confirmed, Strong, Weak)

References

promoter

yhcCp6

3354218

reverse

Similarity to the consensus
Read more >

[ICWHO]

[1]

promoter

yhcCp8

3354235

reverse

Similarity to the consensus
Read more >

[ICWHO]

[1]

promoter

TSS_3533 (cluster)

3354511

forward

For this promoter, there
Read more >

[RS-EPT-CBR]

[2]

promoter

TSS_3534

3356105

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3535

3356236

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3536

3356239

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3537

3356669

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3538

3356672

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3539

3356806

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3540

3357175

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3541

3357512

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3542 (cluster)

3357958

forward

For this promoter, there
Read more >

[RS-EPT-CBR]

[2]

promoter

TSS_3543 (cluster)

3357974

forward

For this promoter, there
Read more >

[RS-EPT-CBR]

[2]

promoter

TSS_3544

3357991

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3545

3359147

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3546 (cluster)

3359164

forward

For this promoter, there
Read more >

[RS-EPT-CBR]

[2]

promoter

TSS_3547

3359356

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3548

3359426

forward

[RS-EPT-CBR]

[2]

promoter

TSS_3549

3359434

forward

[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

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.

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.