sucA: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

sucA

Gene Synonym(s)

ECK0714, b0726, JW0715, lys, met, lys+met[1]

Product Desc.


2-oxoglutarate dehydrogenase, E1 component; yields succinyl-CoA and CO(2)[2]

Product Synonyms(s)

2-oxoglutarate decarboxylase, thiamin-requiring[1] , ECK0714, JW0715, lys, b0726

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): sdhCDAB-sucABCD[3], OP00142, sdhCDAB, sucABCD[3], OP00143, suc

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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sucAB is a synthetic lethal with sucCD.[2]



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

sucA

Mnemonic

Succinate

Synonyms

ECK0714, b0726, JW0715, lys, met, lys+met[1]

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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

16.34 minutes 

MG1655: 757929..760730
<gbrowseImage> name=NC_000913:757929..760730 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 739497..742298
<gbrowseImage> name=NC_012967:739497..742298 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 660689..663490
<gbrowseImage> name=NC_012759:660689..663490 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 759128..761929
<gbrowseImage> name=NC_007779:759128..761929 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 810521..813322
<gbrowseImage> name=NC_010473:810521..813322 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
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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

ΔsucA (Keio:JW0715)

deletion

deletion

PMID:16738554

Shigen
CGSC8786[4]

ΔsucA::kan

deletion

Biolog:respiration

unable to respire Dextrin

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire D-Galactose

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire b-Methyl-D-glucoside

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire a-D-Glucose-1-phosphate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire DL-a-Glycerol

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire D-Galacturonate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire D-Glucuronate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire DL-Lactate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire Succinate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire Bromosuccinate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire Glucuronamide

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire L-Alanine

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire L-Alanyl-glycine

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire L-Asparagine

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire L-Aspartate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire Glycyl-L-aspartate

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire L-Serine

PMID:16095938

ΔsucA::kan

deletion

Biolog:respiration

unable to respire Uridine

PMID:16095938

sucA8

CGSC:11091

ΔsucA775::kan

PMID:16738554

CGSC:103050


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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

JW0715

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCAGAACAGCGCTTTGAAAGC

Primer 2:CCTTCGACGTTCAGCGCGTCATT

7E10

Kohara Phage

Genobase

PMID:3038334

18F11

Kohara Phage

Genobase

PMID:3038334

asnB3057::Tn10

Linked marker

CAG18433 = CGSC7349[4]

est. P1 cotransduction: 6% [5]
Synonyms:zbf-3057::Tn10 nnnThe Tn10 in CAG18433 is inserted in the asnB regulatory region, 4 bp before the start of the asnB ORF.

nadA57::Tn10

Linked marker

CAG12147 = CGSC7351[4]

est. P1 cotransduction: 45% [5]

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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:EG10979

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10979

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000968

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945303

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0972

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002478

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

SucA

Synonyms

2-oxoglutarate decarboxylase, thiamin-requiring[1] , ECK0714, JW0715, lys, b0726

Product description


2-oxoglutarate dehydrogenase, E1 component; yields succinyl-CoA and CO(2)[2]

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:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0006099

tricarboxylic acid cycle

P

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0004591

oxoglutarate dehydrogenase (succinyl-transferring) activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011603

F

Seeded from EcoCyc (v14.0)

complete

GO:0004591

oxoglutarate dehydrogenase (succinyl-transferring) activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:1.2.4.2

F

Seeded from EcoCyc (v14.0)

complete

GO:0005829

cytosol

PMID:16858726

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0006096

glycolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011603

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:IPR001017

P

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc (v14.0)

complete

GO:0016624

oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001017

F

Seeded from EcoCyc (v14.0)

complete

GO:0030976

thiamin pyrophosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011603

F

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

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

hflK

PMID:15690043

Experiment(s):EBI-880717

Protein

lipA

PMID:15690043

Experiment(s):EBI-880717

Protein

lpdA

PMID:15690043

Experiment(s):EBI-880717, EBI-886788

Protein

sucB

PMID:15690043

Experiment(s):EBI-880717, EBI-880739, EBI-886788

Protein

groL

PMID:16606699

Experiment(s):EBI-1137802

Protein

dnaE

PMID:16606699

Experiment(s):EBI-1137802

Protein

oxc

PMID:16606699

Experiment(s):EBI-1137802

Protein

rplC

PMID:15690043

Experiment(s):EBI-886788

Protein

lipA

PMID:19402753

MALDI(Z-score):25.667279

Protein

sucB

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):33.552055

Small Molecule

TTTPP

selectively inhibits pyruvate or 2-oxoglutarate dehydrogenase (El).


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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 
MRITIILVAP ARAENIGAAA RAMKTMGFSD LRIVDSQAHL EPATRWVAHG SGDIIDNIKV
FPTLAESLHD VDFTVATTAR SRAKYHYYAT PVELVPLLEE KSSWMSHAAL VFGREDSGLT
NEELALADVL TGVPMVADYP SLNLGQAVMV YCYQLATLIQ QPAKSDATAD QHQLQALRER
AMTLLTTLAV ADDIKLVDWL QQRLGLLEQR DTAMLHRLLH DIEKNITK
Length

228

Mol. Wt

25.259 kDa

pI

5.9 (calculated)

Extinction coefficient

25,440 - 25,565 (calc based on 6 Y, 3 W, and 1 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

589..785

PF02779 Transketolase, pyrimidine binding domain

PMID:19920124

Domain

207..516

PF00676 Dehydrogenase E1 component

PMID:19920124

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

Structures

<beststructure> gene=sucA 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:16128701

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945303

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002478

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AFG3

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10979

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10979

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945303

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000968

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0972

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

1.33E+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

158.495+/-0.802

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.211353088

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

3431

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

2121

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

2158

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)

sdhCDAB-sucABCD

sucABCD

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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_000913:757909..757949 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:b0726 (EcoliWiki Page)

NCBI GEO profiles for sucA

microarray

GenExpDB:b0726 (EcoliWiki Page)

Summary of data for sucA 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 sucA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10979

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0972

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0726

EcoGene

EcoGene:EG10979

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000968

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002478

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

Shigella flexneri

SUCA

From SHIGELLACYC

E. coli O157

SUCA

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

Pfam (EcoliWiki Page)

PF02779 Transketolase, pyrimidine binding domain

Pfam (EcoliWiki Page)

PF00676 Dehydrogenase E1 component


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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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  3. ↑ 3.0 3.1 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 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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