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On One Page

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Gene |

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Expression|

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Standard Name	scpC
Gene Synonym(s)	ygfH, ECK2916, b2920, JW2887^[1]^[2], JW2887
Product Desc.	G7517^[3]^[2] Propionyl CoA:succinate CoA transferase^[4]
Product Synonyms(s)	propionyl-CoA:succinate-CoA transferase^[1], B2920^[3]^[1], YgfH^[3]^[1], ScpC^[2]^[1] , ECK2916, JW2887, ygfH, b2920
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): scpA-argK-ygfGH^[3]
Regulation/Activity
Quick Links
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Notes

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Part of a four gene operon encoding enzymes converting succinate to propionate.^[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	scpC
Mnemonic	SuCcinate to Proprionate conversion
Synonyms	ygfH, ECK2916, b2920, JW2887^[1]^[2], JW2887
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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	66.01 minutes	MG1655: 3062824..3064302 <gbrowseImage> name=NC_000913:3062824..3064302 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2950553..2952031 <gbrowseImage> name=NC_012967:2950553..2952031 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2949972..2951450 <gbrowseImage> name=NC_012759:2949972..2951450 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3063458..3064936 <gbrowseImage> name=NC_007779:3063458..3064936 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)	AA change(s)	Phenotype: Type	Phenotype: Description	Reference	Availability	Comments
ΔscpC771::kan					PMID:16738554	CGSC:106344
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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:
1A2	Kohara Phage	Genobase	PMID:3038334
6C5	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:G7517	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12973	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004079	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947402	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2800	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009583	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	YgfH
Synonyms	propionyl-CoA:succinate-CoA transferase^[1], B2920^[3]^[1], YgfH^[3]^[1], ScpC^[2]^[1] , ECK2916, JW2887, ygfH, b2920
Product description	G7517^[3]^[2] Propionyl CoA:succinate CoA transferase^[4]
EC number (for enzymes)	2.8.3.-^[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:0005737	cytoplasm				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0006084	acetyl-CoA metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003702	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006084	acetyl-CoA metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006472	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008814	citrate CoA-transferase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006472	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009346	citrate lyase complex	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006472	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	secD	PMID:16606699	Experiment(s):EBI-1144308
Protein	dinG	PMID:16606699	Experiment(s):EBI-1144308
Protein	rplB	PMID:16606699	Experiment(s):EBI-1144308
Protein	groL	PMID:16606699	Experiment(s):EBI-1144308
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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 METQWTRMTA NEAAEIIQHN DMVAFSGFTP AGSPKALPTA IARRANEQHE AKKPYQIRLL TGASISAAAD DVLSDADAVS WRAPYQTSSG LRKKINQGAV SFVDLHLSEV AQMVNYGFFG DIDVAVIEAS ALAPDGRVWL TSGIGNAPTW LLRAKKVIIE LNHYHDPRVA ELADIVIPGA PPRRNSVSIF HAMDRVGTRY VQIDPKKIVA VVETNLPDAG NMLDKQNPMC QQIADNVVTF LLQEMAHGRI PPEFLPLQSG VGNINNAVMA RLGENPVIPP FMMYSEVLQE SVVHLLETGK ISGASASSLT ISADSLRKIY DNMDYFASRI VLRPQEISNN PEIIRRLGVI ALNVGLEFDI YGHANSTHVA GVDLMNGIGG SGDFERNAYL SIFMAPSIAK EGKISTVVPM CSHVDHSEHS VKVIITEQGI ADLRGLSPLQ RARTIIDNCA HPMYRDYLHR YLENAPGGHI HHDLSHVFDL HRNLIATGSM LG
Length	492
Mol. Wt	53.824 kDa
pI	6.5 (calculated)
Extinction coefficient	41,370 - 41,745 (calc based on 13 Y, 4 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	References
Domain	1..213	PF02550 Acetyl-CoA hydrolase/transferase N-terminal domain	PMID:19920124
Domain	282..439	PF04223 Citrate lyase, alpha subunit (CitF)	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=scpC 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:16130821	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947402	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009583	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P52043	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G7517	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12973	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947402	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004079	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2800	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	Ecoli K-12	0.379+/-0.053	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.001691475	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	1^a	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	1^a	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	0^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	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)
scpA-argK-ygfGH
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File:.jpg

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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_000913:3062804..3062844 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:b2920 (EcoliWiki Page)	NCBI GEO profiles for scpC
microarray	GenExpDB:b2920 (EcoliWiki Page)	Summary of data for scpC 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 scpC Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G7517	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2800	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2920
EcoGene	EcoGene:EG12973	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004079	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009583	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	ENSANGP00000013071 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000014102 (score: 1.000; bootstrap: 100%) ENSAPMP00000028719 (score: 0.578)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00024345 (score: 1.000; bootstrap: 100%) WBGene00032341 (score: 0.421)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00014258 (score: 1.000; bootstrap: 100%) WBGene00016630 (score: 0.439) WBGene00012426 (score: 0.195)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0187505 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA20688-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YBL015W (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPAC19529c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000042991 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
E. coli O157	YGFH	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)	PF04223 Citrate lyase, alpha subunit (CitF)
Pfam (EcoliWiki Page)	PF02550 Acetyl-CoA hydrolase/transferase N-terminal domain
Panther (EcoliWiki Page)	PTHR21432:SF10
Superfamily (EcoliWiki Page)	SUPERFAMILY:100950
Superfamily (EcoliWiki Page)	SUPERFAMILY:100950
EcoCyc	EcoCyc:G7517	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12973	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004079	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2800	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009583	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 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 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 ^3.6 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.

scpC: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 scpC Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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