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Standard Name	gcvH
Gene Synonym(s)	ECK2899, b2904, JW2872, gcv^[1]
Product Desc.	H-protein-(dihydrolipoyl)lysine^[2]^[3], H-protein-S-(aminomethyldihydrolipoyl)lysine^[2]^[3] Glycine cleavage, carrier of aminomethyl group^[4]
Product Synonyms(s)	glycine cleavage complex lipoylprotein ^[1], Gcv ^[2]^[1], B2904 ^[2]^[1] , ECK2899, JW2872, b2904
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): gcvTHP^[2], OP00232, gcv
Regulation/Activity
Quick Links
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Notes

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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	gcvH
Mnemonic	Glycine cleavage
Synonyms	ECK2899, b2904, JW2872, gcv^[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	65.68 minutes	MG1655: 3047571..3047182 <gbrowseImage> name=NC_000913:3047182..3047571 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2935301..2934912 <gbrowseImage> name=NC_012967:2934912..2935301 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2934330..2934719 <gbrowseImage> name=NC_012759:2934330..2934719 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3048205..3047816 <gbrowseImage> name=NC_007779:3047816..3048205 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3141441..3141052 <gbrowseImage> name=NC_010473:3141052..3141441 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	3047185	Edman degradation	PMID:8375392
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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
ΔgcvH (Keio:JW2872)	deletion	deletion	PMID:16738554	Shigen CGSC10228^[5]
gcvH::Tn5KAN-I-SceI (FB20969)	Insertion at nt 258 in Minus orientation		PMID:15262929	E. coli Genome Project:FB20969	does not contain pKD46
gcvH::Tn5KAN-I-SceI (FB20970)	Insertion at nt 258 in Minus orientation		PMID:15262929	E. coli Genome Project:FB20970	contains pKD46
ΔgcvH755::kan			PMID:16738554	CGSC:101118
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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
JW2872	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAGCAACGTACCAGCAGAACT Primer 2:CCtTCGTCTTCTAACAATGCTTC
5E11	Kohara Phage	Genobase	PMID:3038334
10B4	Kohara Phage	Genobase	PMID:3038334
recD1901::Tn10	Linked marker	CAG12135 = CGSC7429^[5]	est. P1 cotransduction: % ^[6]
speA210::Tn10	Linked marker	CAG12168 = CGSC7431^[5]	est. P1 cotransduction: 20% ^[6] Synonyms:zgd-210::Tn10, zgf-210::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:EG10371	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10371	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000364	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947393	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0366	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009534	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	GcvH
Synonyms	glycine cleavage complex lipoylprotein ^[1], Gcv ^[2]^[1], B2904 ^[2]^[1] , ECK2899, JW2872, b2904
Product description	H-protein-(dihydrolipoyl)lysine^[2]^[3], H-protein-S-(aminomethyldihydrolipoyl)lysine^[2]^[3] Glycine cleavage, carrier of aminomethyl group^[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:0019464	glycine decarboxylation via glycine cleavage system	PMID:1802033	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P11183	P		complete
	GO:0005739	mitochondrion	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002930	C	Seeded from EcoCyc (v14.0)	complete
	GO:0031405	lipoic acid binding	PMID:1802033	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P11183	F		complete
	GO:0005960	glycine cleavage complex	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002930	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006546	glycine catabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002930	P	Seeded from EcoCyc (v14.0)	complete
	GO:0019464	glycine decarboxylation via glycine cleavage system	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00272	P	Seeded from EcoCyc (v14.0)	complete
	GO:0031405	lipoic acid binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0450	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	PMID:15642479	IDA: Inferred from Direct Assay		C		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	GcvT	Cross-linking of purified GcvT and GcvH in the presence of folate substrates. Cross-linking was done with 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide.	PMID:10491090
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Notes

Localization

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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
Initiator Methionine	1	Removed	UniProt:P0A6T9
Domain	8..129	PF01597 Glycine cleavage H-protein		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=gcvH 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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Resource type	Source	Notes/Reference
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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:16130806	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947393	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009534	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A6T9	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10371	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10371	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947393	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000364	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0366	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	Reference(s)
Protein	E. coli K-12 MC4100	6.13E+02	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 MG1655	2321	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	4002	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	4785	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)
gcvTHP
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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_000913:3047551..3047591 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:b2904 (EcoliWiki Page)	NCBI GEO profiles for gcvH
microarray	GenExpDB:b2904 (EcoliWiki Page)	Summary of data for gcvH 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 gcvH Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10371	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0366	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2904
EcoGene	EcoGene:EG10371	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000364	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009534	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
Shigella flexneri	GCVH	From SHIGELLACYC
E. coli O157	GCVH	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)	PF01597 Glycine cleavage H-protein
Superfamily (EcoliWiki Page)	SUPERFAMILY:51230
EcoCyc	EcoCyc:EG10371	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10371	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000364	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0366	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0009534	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 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 ^2.6 ^2.7 ^2.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^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 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 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).

gcvH: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 gcvH Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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