fumC:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

fumC

Gene Synonym(s)

ECK1606, b1611, JW1603[1], JW1603

Product Desc.

fumarase C[2][3];

Component of fumarase C[2][3]

Fumarase C, aerobic[4]

Product Synonyms(s)

fumarate hydratase (fumarase C),aerobic Class II[1], B1611[2][1], FumC[2][1] , ECK1606, JW1603, b1611

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): fumC[2], OP00146

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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SoxRS regulon.[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

fumC

Mnemonic

Fumarate

Synonyms

ECK1606, b1611, JW1603[1], JW1603

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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

36.28 minutes 

MG1655: 1684612..1683209
<gbrowseImage> name=NC_000913:1683209..1684612 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1663783..1662380
<gbrowseImage> name=NC_012967:1662380..1663783 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1575268..1576671
<gbrowseImage> name=NC_012759:1575268..1576671 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1688302..1686899
<gbrowseImage> name=NC_007779:1686899..1688302 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1775573..1774170
<gbrowseImage> name=NC_010473:1774170..1775573 source=DH10B preset=GeneLocation </gbrowseImage>

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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

1683209

Edman degradation

PMID:1917897
PMID:8496960


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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) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔfumC (Keio:JW1603)

deletion

deletion

PMID:16738554

Shigen
CGSC9364[5]

fumCR126A

R126A

Reduces enzyme activity 10-fold

seeded from UniProt:P05042

fumCK127D

K127D

No effect

seeded from UniProt:P05042

fumCH129N

H129N

No effect on activity

seeded from UniProt:P05042

fumCH188N

H188N

Reduces activity 200-fold

seeded from UniProt:P05042

fumCE315Q

E315Q

Reduces activity 10-fold

seeded from UniProt:P05042

ΔfumC759::kan

PMID:16738554

CGSC:101058


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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

JW1603

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATACAGTACGCAGCGAAAA

Primer 2:CCACGCCCGGCTTTCATACTGCC

11H12

Kohara Phage

Genobase

PMID:3038334

6A3

Kohara Phage

Genobase

PMID:3038334

6A5

Kohara Phage

Genobase

PMID:3038334

zdd-235::Tn10

Linked marker

CAG18461 = CGSC7378[5]

est. P1 cotransduction: % [6]
Synonyms:zdc-235::Tn10

zdi-925::Tn10

Linked marker

CAG12151 = CGSC7385[5]

est. P1 cotransduction: % [6]
Synonyms:zdh-925::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:EG10358

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10358

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000351

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946147

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0353

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005380

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

FumC

Synonyms

fumarate hydratase (fumarase C),aerobic Class II[1], B1611[2][1], FumC[2][1] , ECK1606, JW1603, b1611

Product description

fumarase C[2][3];

Component of fumarase C[2][3]

Fumarase C, aerobic[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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000362

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR008948

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020557

F

Seeded from EcoCyc (v14.0)

complete

GO:0004333

fumarate hydratase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00743

F

Seeded from EcoCyc (v14.0)

complete

GO:0004333

fumarate hydratase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005677

F

Seeded from EcoCyc (v14.0)

complete

GO:0004333

fumarate hydratase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.2.1.2

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00743

C

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

GO:0006099

tricarboxylic acid cycle

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00743

P

Seeded from EcoCyc (v14.0)

complete

GO:0006099

tricarboxylic acid cycle

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018951

P

Seeded from EcoCyc (v14.0)

complete

GO:0006099

tricarboxylic acid cycle

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0816

P

Seeded from EcoCyc (v14.0)

complete

GO:0006106

fumarate metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005677

P

Seeded from EcoCyc (v14.0)

complete

GO:0016829

lyase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018951

F

Seeded from EcoCyc (v14.0)

complete

GO:0016829

lyase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0456

F

Seeded from EcoCyc (v14.0)

complete

GO:0045239

tricarboxylic acid cycle enzyme complex

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005677

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 Notes References Evidence

Protein

Subunits of fumarase C

could be indirect

Protein

hflB

PMID:16606699

Experiment(s):EBI-1140245

Protein

prs

PMID:16606699

Experiment(s):EBI-1140245

Protein

fepE

PMID:16606699

Experiment(s):EBI-1140245

Protein

rbsR

PMID:16606699

Experiment(s):EBI-1140245

Protein

pldA

PMID:16606699

Experiment(s):EBI-1140245

Protein

rplB

PMID:16606699

Experiment(s):EBI-1140245

Protein

sdhA

PMID:16606699

Experiment(s):EBI-1140245

Protein

aspS

PMID:16606699

Experiment(s):EBI-1140245

Protein

fecR

PMID:16606699

Experiment(s):EBI-1140245

Protein

pykF

PMID:16606699

Experiment(s):EBI-1140245

Protein

dnaK

PMID:16606699

Experiment(s):EBI-1140245

Protein

ftsK

PMID:16606699

Experiment(s):EBI-1140245

Protein

rpsN

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 

MNTVRSEKDS MGAIDVPADK LWGAQTQRSL EHFRISTEKM PTSLIHALAL TKRAAAKVNE
DLGLLSEEKA SAIRQAADEV LAGQHDDEFP LAIWQTGSGT QSNMNMNEVL ANRASELLGG
VRGMERKVHP NDDVNKSQSS NDVFPTAMHV AALLALRKQL IPQLKTLTQT LNEKSRAFAD
IVKIGRTHLQ DATPLTLGQE ISGWVAMLEH NLKHIEYSLP HVAELALGGT AVGTGLNTHP
EYARRVADEL AVITCAPFVT APNKFEALAT CDALVQAHGA LKGLAASLMK IANDVRWLAS
GPRCGIGEIS IPENEPGSSI MPGKVNPTQC EALTMLCCQV MGNDVAINMG GASGNFELNV
FRPMVIHNFL QSVRLLADGM ESFNKHCAVG IEPNRERINQ LLNESLMLVT ALNTHIGYDK
AAEIAKKAHK EGLTLKAAAL ALGYLSEAEF DSWVRPEQMV GSMKAGR
Length

467

Mol. Wt

50.489 kDa

pI

6.6 (calculated)

Extinction coefficient

33,460 - 34,335 (calc based on 4 Y, 5 W, and 7 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

12..342

PF00206 Lyase

PMID:19920124

Domain

408..462

PF10415 Fumarase C C-terminus

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=fumC 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:16129569

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946147

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005380

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P05042

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10358

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10358

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946147

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000351

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0353

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Ecoli K-12

20.83+/-0.234

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.025659301

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

498

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

429

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

326

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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<protect>

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

Transcription unit(s)

fumC

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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_000913:1684592..1684632 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:b1611 (EcoliWiki Page)

NCBI GEO profiles for fumC

microarray

GenExpDB:b1611 (EcoliWiki Page)

Summary of data for fumC 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 fumC Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10358

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0353

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1611

EcoGene

EcoGene:EG10358

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000351

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005380

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

Anopheles gambiae

  • ENSANGP00000020828 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000023951 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT2G47510 (score: 1.000; bootstrap: 100%)
  • AT5G50950 (score: 0.704)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000028902 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00030818 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00001503 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000023095 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000016516 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-CDNA-040425-2513 (score: 1.000; bootstrap: 100%)
  • ZDB-GENE-040426-1579 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040425-2514 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0231397 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0028336 (score: 1.000; bootstrap: 100%)
  • FBgn0029890 (score: 0.476)
  • FBgn0036162 (score: 0.379)
  • FBgn0051874 (score: 0.078)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA17953-PA (score: 1.000; bootstrap: 100%)
  • GA16542-PA (score: 0.158)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000021472 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000205832 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000007489 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000008696 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:95530 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000003656 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000004917 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YPL262W (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPCC188c (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000163090 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00028793001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000031853 (score: 1.000; bootstrap: 55%)

From Inparanoid:20070104

Shigella flexneri

FUMC

From SHIGELLACYC

E. coli O157

FUMC

From ECOO157CYC

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Do-It-Yourself Web Tools

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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)

PF00206 Lyase

Superfamily (EcoliWiki Page)

SUPERFAMILY:48557

Panther (EcoliWiki Page)

PTHR11444:SF1

Pfam (EcoliWiki Page)

PF10415 Fumarase C C-terminus

EcoCyc

EcoCyc:EG10358

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10358

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000351

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0353

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005380

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 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. ↑ 3.0 3.1 3.2 3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 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).

Categories

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