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Expression|

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Standard Name	elbB
Gene Synonym(s)	ECK3198, b3209, JW3176, elb2, yhbL, yzzB, s27a^[1]^[2]
Product Desc.	isoprenoid biosynthesis protein^[2]; isoprenoid biosynthesis protein with amidotransferase-like domain^[3] Involved in isoprenoid biosynthesis; also known as sigma cross-reacting protein 27A^[4]
Product Synonyms(s)	isoprenoid biosynthesis protein with amidotransferase-like domain^[1], B3209^[2]^[1], YzzB^[2]^[1], ElbB^[2]^[1], YhbL^[2]^[1], sigma cross-reacting protein 27A (SCRP-27A)^[2]^[1] , ECK3198, elb2, JW3176, yhbL, yzzB, b3209
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): mtgA^[2]
Regulation/Activity
Quick Links
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Notes

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Variously called C56 peptidase family, PfpI/HchA peptidase/chaperone family, DJ-1/PARK7 superfamily. Sigma cross-reaction is unconfirmed.^[4]

Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	elbB
Mnemonic	Enhancing lycopene biosynthesis
Synonyms	ECK3198, b3209, JW3176, elb2, yhbL, yzzB, s27a^[1]^[2]
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	72.16 minutes	MG1655: 3348481..3347828 <gbrowseImage> name=NC_000913:3347828..3348481 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3285041..3285694 <gbrowseImage> name=NC_012967:3285041..3285694 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3234976..3235629 <gbrowseImage> name=NC_012759:3234976..3235629 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3350314..3349661 <gbrowseImage> name=NC_007779:3349661..3350314 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3446226..3445573 <gbrowseImage> name=NC_010473:3445573..3446226 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
Coding Start (SO:0000323)	MG1655	3347828	Edman degradation	PMID:1575737
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Reference	Availability
ΔelbB (Keio:JW3176)	deletion	deletion	PMID:16738554	Shigen CGSC10411^[5]
ΔelbB737::kan			PMID:16738554	CGSC:100696
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW3176	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAGAAAATTGGCGTAATTCT Primer 2:CCTTCAGCCAGAACCAGCACGCG
7E3	Kohara Phage	Genobase	PMID:3038334
3G10	Kohara Phage	Genobase	PMID:3038334
sfsB203::Tn10	Linked marker	CAG12072 = CGSC7440^[5]	est. P1 cotransduction: 55% ^[6] Synonyms:zgj-203::Tn10, zha-203::Tn10
zhc-6::Tn10	Linked marker	CAG12153 = CGSC7442^[5]	est. P1 cotransduction: 57% ^[6] Synonyms:zha-6::Tn10
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG11383	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11383	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001350	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947903	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1356	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010532	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	ElbB
Synonyms	isoprenoid biosynthesis protein with amidotransferase-like domain^[1], B3209^[2]^[1], YzzB^[2]^[1], ElbB^[2]^[1], YhbL^[2]^[1], sigma cross-reacting protein 27A (SCRP-27A)^[2]^[1] , ECK3198, elb2, JW3176, yhbL, yzzB, b3209
Product description	isoprenoid biosynthesis protein^[2]; isoprenoid biosynthesis protein with amidotransferase-like domain^[3] Involved in isoprenoid biosynthesis; also known as sigma cross-reacting protein 27A^[4]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0008299	isoprenoid biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0414	P	Seeded from EcoCyc (v14.0)	complete
	GO:0045828	positive regulation of isoprenoid metabolic process	PMID:9603997	IMP: Inferred from Mutant Phenotype		P	Seeded from EcoCyc (v14.0)	complete
	GO:0045828	positive regulation of isoprenoid metabolic process	PMID:9603997	IMP: Inferred from Mutant Phenotype		P	elb (enhanced lycopene biosynthesis)	complete
	GO:0008299	isoprenoid biosynthetic process	PMID:9603997	IMP: Inferred from Mutant Phenotype		P		complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	Notes	References	Evidence
Protein	rpoB		PMID:16606699	Experiment(s):EBI-1145163
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence	at EcoCyc MITMKKIGVI LSGCGVYDGS EIHEAVLTLL AISRSGAQAV CFAPDKQQVD VINHLTGEAM TETRNVLIEA ARITRGEIRP LAQADAAELD ALIVPGGFGA AKNLSNFASL GSECTVDREL KALAQAMHQA GKPLGFMCIA PAMLPKIFDF PLRLTIGTDI DTAEVLEEMG AEHVPCPVDD IVVDEDNKIV TTPAYMLAQN IAEAASGIDK LVSRVLVLAE
Length	220
Mol. Wt	23.326 kDa
pI	4.5 (calculated)
Extinction coefficient	2,980 - 3,605 (calc based on 2 Y, 0 W, and 5 C residues)
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	Notes	References
Domain	45..203	PF01965 DJ-1/PfpI family		PMID:19920124
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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=elbB taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:90111557	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947903	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010532	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ABU5	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11383	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11383	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947903	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001350	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1356	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MC4100	8.59E+02	molecules/cell	Medium: median data from rich and minimal media Temperature (°C): 37 Doubling time (min): Growth Rate(min): Growth phase: other:	emPAI	PMID:18304323
Protein	E. coli K-12 MG1655	2434	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	894	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
Protein	E. coli K-12 MG1655	1630	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
mtgA
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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:3348461..3348501 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b3209 (EcoliWiki Page)	NCBI GEO profiles for elbB
microarray	GenExpDB:b3209 (EcoliWiki Page)	Summary of data for elbB from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
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Notes

Accessions Related to elbB Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG11383	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1356	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3209
EcoGene	EcoGene:EG11383	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001350	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010532	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
Apis mellifera	ENSAPMP00000032659 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000009346 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000015769 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000002437 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-050417-147 (score: 1.000; bootstrap: 100%) ZDB-CDNA-050417-148 (score: 1.000; bootstrap: 100%) ZDB-GENE-980526-188 (score: 0.228)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000012159 (score: 1.000; bootstrap: 100%) ENSGALP00000027299 (score: 0.394) ENSGALP00000026081 (score: 0.303) ENSGALP00000026082 (score: 0.173)	From Inparanoid:20070104
Homo sapiens	ENSP00000291577 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000006971 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000001360 (score: 1.000; bootstrap: 100%) ENSMODP00000026360 (score: 0.388)	From Inparanoid:20070104
Mus musculus	MGI:1351861 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000024043 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000001609 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000129864 (score: 1.000; bootstrap: 100%) NEWSINFRUP00000143098 (score: 0.436)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00027938001 (score: 1.000; bootstrap: 100%) GSTENP00017048001 (score: 0.335)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000009738 (score: 1.000; bootstrap: 100%) ENSXETP00000033761 (score: 0.451) ENSXETP00000009685 (score: 0.280)	From Inparanoid:20070104
Shigella flexneri	YHBL	From SHIGELLACYC
E. coli O157	YHBL	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF01965 DJ-1/PfpI family
Superfamily (EcoliWiki Page)	SUPERFAMILY:52317
Panther (EcoliWiki Page)	PTHR10224:SF4
EcoCyc	EcoCyc:EG11383	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11383	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001350	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1356	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0010532	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 ^1.12 ^1.13 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 ^2.13 ^2.14 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

elbB:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to elbB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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