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On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	sucD
Gene Synonym(s)	ECK0717, b0729, JW0718^[1], JW0718
Product Desc.	succinyl-CoA synthetase, α subunit^[2]^[3]; Component of succinyl-CoA synthetase^[2]^[3] Succinyl CoA synthase alpha-subunit^[4]
Product Synonyms(s)	succinyl-CoA synthetase, NAD(P)-binding, alpha subunit^[1], B0729^[2]^[1], SucD^[2]^[1], α subunit^[2]^[1] , ECK0717, JW0718, b0729
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): sdhCDAB-sucABCD^[2], OP00142, sdhCDAB, sucABCD^[2], OP00143, suc
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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sucCD is a synthetic lethal with sucAB. SucD is down 5X during growth at 4C (enabled by Oleispira antarctica Cpn10/60 transgene). Binds TrxA (Kumar, 2004). HT_Cmplx6_Cyt: SucC+SucD.^[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	sucD
Mnemonic	Succinate
Synonyms	ECK0717, b0729, JW0718^[1], JW0718
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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	16.45 minutes	MG1655: 763403..764272 <gbrowseImage> name=NC_000913:763403..764272 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 745062..745931 <gbrowseImage> name=NC_012967:745062..745931 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 666163..667032 <gbrowseImage> name=NC_012759:666163..667032 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 764602..765471 <gbrowseImage> name=NC_007779:764602..765471 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 815995..816864 <gbrowseImage> name=NC_010473:815995..816864 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	763406	Edman degradation	PMID:7783627 PMID:9298646
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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
ΔsucD (Keio:JW0718)	deletion	deletion	PMID:16738554	Shigen
sucD::Tn5KAN-2 (FB20225)	Insertion at nt 167 in Plus orientation		PMID:15262929	E. coli Genome Project:FB20225	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
JW0718	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCCATTTTAATCGATAAAAA Primer 2:CCTTTCAGAACAGTTTTCAGTGC
7E10	Kohara Phage	Genobase	PMID:3038334
18F11	Kohara Phage	Genobase	PMID:3038334
asnB3057::Tn10	Linked marker	CAG18433 = CGSC7349^[5]	est. P1 cotransduction: 3% ^[6] 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^[5]	est. P1 cotransduction: 57% ^[6]
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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:EG10982	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10982	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000971	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945314	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0975	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002485	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	SucD
Synonyms	succinyl-CoA synthetase, NAD(P)-binding, alpha subunit^[1], B0729^[2]^[1], SucD^[2]^[1], α subunit^[2]^[1] , ECK0717, JW0718, b0729
Product description	succinyl-CoA synthetase, α subunit^[2]^[3]; Component of succinyl-CoA synthetase^[2]^[3] Succinyl CoA synthase alpha-subunit^[4]
EC number (for enzymes)	6.2.1.5^[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:0000166	nucleotide binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0547	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005810	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005811	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016040	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017440	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003878	ATP citrate synthase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017440	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004775	succinate-CoA ligase (ADP-forming) activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017440	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004775	succinate-CoA ligase (ADP-forming) activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:6.2.1.5	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005488	binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR016040	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0067	F	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:0016874	ligase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0436	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	Notes	References	Evidence
Protein	Subunits of succinyl-CoA synthetase	could be indirect
Protein	rsuA		PMID:16606699	Experiment(s):EBI-1137829
Protein	sdhA		PMID:16606699	Experiment(s):EBI-1137829
Protein	dnaE		PMID:16606699	Experiment(s):EBI-1137829
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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 MSILIDKNTK VICQGFTGSQ GTFHSEQAIA YGTKMVGGVT PGKGGTTHLG LPVFNTVREA VAATGATASV IYVPAPFCKD SILEAIDAGI KLIITITEGI PTLDMLTVKV KLDEAGVRMI GPNCPGVITP GECKIGIQPG HIHKPGKVGI VSRSGTLTYE AVKQTTDYGF GQSTCVGIGG DPIPGSNFID ILEMFEKDPQ TEAIVMIGEI GGSAEEEAAA YIKEHVTKPV VGYIAGVTAP KGKRMGHAGA IIAGGKGTAD EKFAALEAAG VKTVRSLADI GEALKTVLK
Length	289
Mol. Wt	29.777 kDa
pI	6.7 (calculated)
Extinction coefficient	8,940 - 9,565 (calc based on 6 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
Initiator Methionine	1	Removed	UniProt:P0AGE9
Domain	6..99	PF02629 CoA binding domain		PMID:19920124
Domain	151..272	PF00549 CoA-ligase		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=sucD 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:16128704	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945314	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002485	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0AGE9	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10982	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10982	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945314	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000971	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0975	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	2.42E+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	E. coli K-12 EMG2	900	molecules/cell	Medium: MOPS glucose minimal Temperature (°C): 37 Doubling time (min): Growth phase: Exponential OD: OD600 = 0.2 to 0.25 other: aerated	Quantitative protein sequencing	Spot ID: Ml2	PMID: 9298646
Protein	E. coli K-12 MG1655	6091	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	6409	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	2968	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)
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_000913:763383..763423 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

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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:b0729 (EcoliWiki Page)	NCBI GEO profiles for sucD
microarray	GenExpDB:b0729 (EcoliWiki Page)	Summary of data for sucD 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 sucD Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10982	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0975	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0729
EcoGene	EcoGene:EG10982	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000971	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002485	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
Anopheles gambiae	ENSANGP00000020396 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000014108 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT5G23250 (score: 1.000; bootstrap: 100%) AT5G08300 (score: 0.772)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000007982 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00029579 (score: 1.000; bootstrap: 100%) WBGene00035499 (score: 0.404)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00007350 (score: 1.000; bootstrap: 100%) WBGene00017759 (score: 0.471)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000011845 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000011269 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-CDNA-040718-347 (score: 1.000; bootstrap: 100%) ZDB-CDNA-040912-103 (score: 0.971) ZDB-GENE-040912-101 (score: 0.971)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0191520 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0004888 (score: 1.000; bootstrap: 100%) FBgn0038708 (score: 0.257)	From Inparanoid:20070104
Drosophila pseudoobscura	GA20986-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000025673 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Homo sapiens	ENSP00000295783 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000001216 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000019322 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:1927234 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6ZL94 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000020798 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000007624 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YOR142W (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPAC16E87c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000145516 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00003696001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000047435 (score: 1.000; bootstrap: 87%)	From Inparanoid:20070104
Shigella flexneri	SUCD	From SHIGELLACYC
E. coli O157	SUCD	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)	PF00549 CoA-ligase
Pfam (EcoliWiki Page)	PF02629 CoA binding domain
Superfamily (EcoliWiki Page)	SUPERFAMILY:51735
Superfamily (EcoliWiki Page)	SUPERFAMILY:52210
EcoCyc	EcoCyc:EG10982	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10982	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000971	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0975	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002485	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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^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
↑ ^4.0 ^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).

sucD: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 sucD Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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