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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

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Standard Name	gmhB
Gene Synonym(s)	ECK0200, b0200, JW0196, yaeD, gmbC, gmbX, wcbN^[1], wcbN
Product Desc.	D,D-heptose 1,7-bisphosphate phosphatase^[2]^[3] Heptose 1,7-bisphosphate phosphatase; LPS biosynthesis; HAD20^[4]
Product Synonyms(s)	D,D-heptose 1,7-bisphosphate phosphatase^[1], B0200^[2]^[1], GmhB^[2]^[1], YaeD^[2]^[1] , ECK0200, gmbC, gmbX, JW0196, wcbN, yaeD, b0200
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): gmhB^[2]
Regulation/Activity
Quick Links
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</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

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HAD superfamily. GmhB also has fructose 1,6-bisphosphatase actvity in vitro (Kuznetsova, 2006).^[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	gmhB
Mnemonic	Glycero-mannose-heptose
Synonyms	ECK0200, b0200, JW0196, yaeD, gmbC, gmbX, wcbN^[1], wcbN
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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	4.8 minutes	MG1655: 222833..223408 <gbrowseImage> name=NC_000913:222833..223408 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 225673..226245 <gbrowseImage> name=NC_012967:225673..226245 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 222832..223407 <gbrowseImage> name=NC_012759:222832..223407 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 222833..223408 <gbrowseImage> name=NC_007779:222833..223408 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 196937..197512 <gbrowseImage> name=NC_010473:196937..197512 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
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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	Comments
gmhB(del) (Keio:JW0196)	deletion	deletion	PMID:16738554	Shigen
yaeD::Tn5KAN-I-SceI (FB20041)	Insertion at nt 155 in Minus orientation		PMID:15262929	E. coli Genome Project:FB20041	contains pKD46
yaeD::Tn5KAN-I-SceI (FB20042)	Insertion at nt 155 in Minus orientation		PMID:15262929	E. coli Genome Project:FB20042	does not contain pKD46
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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
JW0196	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGCGAAGAGCGTACCCGCAAT Primer 2:CCTTGTGCCGGTTTTTGCTGCTT
8G3	Kohara Phage	Genobase	PMID:3038334
zad-220::Tn10	Linked marker	CAG12025 = CGSC7326^[5]	est. P1 cotransduction: 1% ^[6]
yafC502::Tn10	Linked marker	CAG18436 = CGSC7328^[5]	est. P1 cotransduction: 73% ^[6] Synonyms:zae-502::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:EG11736	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11736	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:944879	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001675	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1687	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000675	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	GmhB
Synonyms	D,D-heptose 1,7-bisphosphate phosphatase^[1], B0200^[2]^[1], GmhB^[2]^[1], YaeD^[2]^[1] , ECK0200, gmbC, gmbX, JW0196, wcbN, yaeD, b0200
Product description	D,D-heptose 1,7-bisphosphate phosphatase^[2]^[3] Heptose 1,7-bisphosphate phosphatase; LPS biosynthesis; HAD20^[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:0000105	histidine biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006543	P	Seeded from EcoCyc (v14.0)	complete
	GO:0004401	histidinol-phosphatase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006543	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0963	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0086	C	Seeded from EcoCyc (v14.0)	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	References	Evidence
Protein	rpsO	PMID:16606699	Experiment(s):EBI-1135932
Protein	yjbD	PMID:16606699	Experiment(s):EBI-1135932
Protein	rpsF	PMID:16606699	Experiment(s):EBI-1135932
Protein	rplB	PMID:16606699	Experiment(s):EBI-1135932
Protein	fliT	PMID:16606699	Experiment(s):EBI-1135932
Protein	rpmB	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsL	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsJ	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsS	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsN	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplU	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplP	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsH	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsT	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplT	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsR	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsI	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsF	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsM	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplM	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsC	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplB	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsD	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsO	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplA	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsK	PMID:19402753	LCMS(ID Probability):99.6
Protein	dacA	PMID:19402753	LCMS(ID Probability):99.6
Protein	sufC	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplD	PMID:19402753	LCMS(ID Probability):99.6
Protein	rnr	PMID:19402753	LCMS(ID Probability):99.6
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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 MAKSVPAIFL DRDGTINVDH GYVHEIDNFE FIDGVIDAMR ELKKMGFALV VVTNQSGIAR GKFTEAQFET LTEWMDWSLA DRDVDLDGIY YCPHHPQGSV EEFRQVCDCR KPHPGMLLSA RDYLHIDMAA SYMVGDKLED MQAAVAANVG TKVLVRTGKP ITPEAENAAD WVLNSLADLP QAIKKQQKPA Q
Length	191
Mol. Wt	21.293 kDa
pI	4.9 (calculated)
Extinction coefficient	23,950 - 24,325 (calc based on 5 Y, 3 W, and 3 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
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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=gmhB 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:16128193	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:944879	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000675	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P63228	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11736	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11736	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:944879	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001675	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1687	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	2.78E+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	1350	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	530	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	1216	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)
gmhB
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Figure courtesy of RegulonDB

</protect>

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_000913:222813..222853 source=MG1655 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:b0200 (EcoliWiki Page)	NCBI GEO profiles for gmhB
microarray	GenExpDB:b0200 (EcoliWiki Page)	Summary of data for gmhB 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 gmhB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11736	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1687	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0200
EcoGene	EcoGene:EG11736	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001675	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000675	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	ENSAPMP00000031980 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YAED	From SHIGELLACYC
E. coli O157	YAED	From ECOO157CYC
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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database	Accession	Notes
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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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 ^2.8 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 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).

gmhB:On One Page

Quickview

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 gmhB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Notes

Families

Notes

Links

References

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