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On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	gpmM
Gene Synonym(s)	gpmI, ECK3602, b3612, JW3587, yibO, pmgI, gpmC, pgmI^[1]^[2], pgmI
Product Desc.	PGMI^[3]^[2] Phosphoglycerate mutase, Mn-dependent; monomeric^[4]
Product Synonyms(s)	phosphoglycero mutase III, cofactor-independent^[1], B3612^[3]^[1], GpmI^[3]^[1], GpmC^[3]^[1], GpmM^[3]^[1], YibO^[3]^[1], PgmI^[3]^[1] , ECK3602, gpmC, gpmI, JW3587, pgmI, yibO, b3612
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): gpmI^[3]
Regulation/Activity
Quick Links
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Notes

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Characterization of the Salmonella GpmM: D.G. Kehres and M.E. Maguire, personal comm., 2002. Mn-dependence is inferred from Salmonella ortholog. gpmM is a non-essential gene. HT_Cmplx25_Cyt: GpmA+GpmM.^[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	gpmM
Mnemonic	Glycerol P mutase, Mn-dependent
Synonyms	gpmI, ECK3602, b3612, JW3587, yibO, pmgI, gpmC, pgmI^[1]^[2], pgmI
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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	81.54 minutes	MG1655: 3783283..3784827 <gbrowseImage> name=NC_000913:3783283..3784827 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3726026..3727570 <gbrowseImage> name=NC_012967:3726026..3727570 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3671609..3673153 <gbrowseImage> name=NC_012759:3671609..3673153 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3855155..3853611 <gbrowseImage> name=NC_007779:3853611..3855155 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	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)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
yibO::Tn5KAN-2 (FB21341)	Insertion at nt 1343 in Plus orientation			PMID:15262929	E. coli Genome Project:FB21341	contains pKD46
yibO::Tn5KAN-2 (FB21342)	Insertion at nt 1343 in Plus orientation			PMID:15262929	E. coli Genome Project:FB21342	does not contain pKD46
ΔyibO::kan	deletion	Biolog:respiration	unable to respire Acetate	PMID:16095938
ΔyibO::kan	deletion	Biolog:respiration	unable to respire a-Ketobutyrate	PMID:16095938
ΔyibO::kan	deletion	Biolog:respiration	unable to respire a-Ketoglutarate	PMID:16095938
ΔyibO::kan	deletion	Biolog:respiration	unable to respire Succinate	PMID:16095938
ΔyibO::kan	deletion	Biolog:respiration	unable to respire Bromosuccinate	PMID:16095938
ΔyibO::kan	deletion	Biolog:respiration	unable to respire L-Aspartate	PMID:16095938
ΔgpmM724::kan				PMID:16738554	CGSC:106202
gpmM	deletion	Sensitivity to	increases sensitivity to bicyclomycin	PMID:21357484		fig 2
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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

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

5D2

Kohara Phage

Genobase

PMID:3038334

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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:EG12296	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12296	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002177	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948130	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2204	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011818	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	GpmI
Synonyms	phosphoglycero mutase III, cofactor-independent^[1], B3612^[3]^[1], GpmI^[3]^[1], GpmC^[3]^[1], GpmM^[3]^[1], YibO^[3]^[1], PgmI^[3]^[1] , ECK3602, gpmC, gpmI, JW3587, pgmI, yibO, b3612
Product description	PGMI^[3]^[2] Phosphoglycerate mutase, Mn-dependent; monomeric^[4]
EC number (for enzymes)	5.4.2.1^[1]
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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:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006124	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017849	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017850	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004619	phosphoglycerate mutase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005995	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004619	phosphoglycerate mutase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011258	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004619	phosphoglycerate mutase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:5.4.2.1	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011258	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006007	glucose catabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005995	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006007	glucose catabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011258	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006096	glycolysis	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01038	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006096	glycolysis	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0324	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017849	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008152	metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017850	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016853	isomerase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0413	F	Seeded from EcoCyc (v14.0)	complete
	GO:0030145	manganese ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011258	F	Seeded from EcoCyc (v14.0)	complete
	GO:0030145	manganese ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0464	F	Seeded from EcoCyc (v14.0)	complete
	GO:0046537	2,3-bisphosphoglycerate-independent phosphoglycerate mutase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01038	F	Seeded from EcoCyc (v14.0)	complete
	GO:0046872	metal ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006124	F	Seeded from EcoCyc (v14.0)	complete
	GO:0046872	metal ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0479	F	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	cadA	PMID:16606699	Experiment(s):EBI-1146250
Protein	nadE	PMID:16606699	Experiment(s):EBI-1146250
Protein	frvX	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 MLVSKKPMVL VILDGYGYRE EQQDNAIFSA KTPVMDALWA NRPHTLIDAS GLEVGLPDRQ MGNSEVGHVN LGAGRIVYQD LTRLDVEIKD RAFFANPVLT GAVDKAKNAG KAVHIMGLLS AGGVHSHEDH IMAMVELAAE RGAEKIYLHA FLDGRDTPPR SAESSLKKFE EKFAALGKGR VASIIGRYYA MDRDNRWDRV EKAYDLLTLA QGEFQADTAV AGLQAAYARD ENDEFVKATV IRAEGQPDAA MEDGDALIFM NFRADRAREI TRAFVNADFD GFARKKVVNV DFVMLTEYAA DIKTAVAYPP ASLVNTFGEW MAKNDKTQLR ISETEKYAHV TFFFNGGVEE SFKGEDRILI NSPKVATYDL QPEMSSAELT EKLVAAIKSG KYDTIICNYP NGDMVGHTGV MEAAVKAVEA LDHCVEEVAK AVESVGGQLL ITADHGNAEQ MRDPATGQAH TAHTNLPVPL IYVGDKNVKA VEGGKLSDIA PTMLSLMGME IPQEMTGKPL FIVE
Length	514
Mol. Wt	56.193 kDa
pI	5.1 (calculated)
Extinction coefficient	38,850 - 39,100 (calc based on 15 Y, 3 W, and 2 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
Modification Site	64	phosphorylation site at S64	probability greater than 75%	PMID:17938405
Domain	6..508	PF01676 Metalloenzyme superfamily		PMID:19920124
Domain	84..308	PF06415 BPG-independent PGAM N-terminus (iPGM_N)		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=gpmM taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

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:16131483	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948130	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011818	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P37689	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12296	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12296	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948130	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002177	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2204	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	Notes	Reference(s)
Protein	E. coli K-12 MC4100	1.59E+03	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	Ecoli K-12	102.283+/-0.466	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
Protein	E. coli K-12 MG1655	5931	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	2600	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	3720	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)
gpmI
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File:.jpg

</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_000913:3783263..3783303 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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

</protect>

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:b3612 (EcoliWiki Page)	NCBI GEO profiles for gpmM
microarray	GenExpDB:b3612 (EcoliWiki Page)	Summary of data for gpmM 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
	GFP Fusion	Intergenic region (3782574..3782947) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ18; Well:D4^[5]
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Notes

Accessions Related to gpmM Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12296	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2204	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3612
EcoGene	EcoGene:EG12296	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002177	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011818	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
Arabidopsis thaliana	AT3G08590 (score: 1.000; bootstrap: 100%) AT1G09780 (score: 0.865)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00033571 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00019001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	P30792 (score: 1.000; bootstrap: 100%) Q5QMK7 (score: 1.000; bootstrap: 100%) Q5KQH5 (score: 0.899) Q7XYD2 (score: 0.229)	From Inparanoid:20070104
Shigella flexneri	YIBO	From SHIGELLACYC
E. coli O157	YIBO	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)	PF01676 Metalloenzyme superfamily
Superfamily (EcoliWiki Page)	SUPERFAMILY:53649
Superfamily (EcoliWiki Page)	SUPERFAMILY:64158
Pfam (EcoliWiki Page)	PF06415 BPG-independent PGAM N-terminus (iPGM_N)
EcoCyc	EcoCyc:EG12296	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12296	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002177	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2204	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011818	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 ^1.14 ^1.15 ^1.16 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 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.00 ^3.01 ^3.02 ^3.03 ^3.04 ^3.05 ^3.06 ^3.07 ^3.08 ^3.09 ^3.10 ^3.11 ^3.12 ^3.13 ^3.14 EcoCyc (release 10.6; 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.
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

gpmM: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 gpmM Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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