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afuC:On One Page

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Gene Name	afuC (synonyms: ECK0264, b0262, JW0254, yagC, fbpC)^[1]^[2]
Product(s)	AfuC product^[1]: CP4-6 prophage; predicted ferric transporter subunit product, ATP-binding component of ABC superfamily product, B0262 product, YagC product, FbpC product
Description	CP4-6 prophage; predicted ferric transporter subunit/ATP-binding component of ABC superfamily^[2]^[3]
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): afuC^[2]
Regulation/Activity
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Gene

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Nomenclature

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Standard name	afuC
Mnemonic
Synonyms	ECK0264, b0262, JW0254, yagC, fbpC^[1]^[2]
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Notes

Location(s) and DNA Sequence

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Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	5.97 minutes	MG1655: 278026..276980	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
W3110		W3110: 278026..276980	GBrowse(W3110)	FASTA Dump
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Strain

Map location

Genome coordinates

Genome browsers

Sequence links

MG1655

5.97 minutes

MG1655: 278026..276980
gbrowse_img.php?coord=275980..279026&genome=ecoli&name=MG1655&trackset=0&width=300&.png

EcoCyc

GBrowse(MG1655)

W3110

W3110: 278026..276980
gbrowse_img.php?coord=275980..279026&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

GBrowse(W3110)

FASTA Dump

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Notes

Sequence Features

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Feature type	Location	Description
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Alleles and Phenotypes

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Allele	Nt change(s)	AA change(s)	Reference	Availability
ΔafuC (Keio:JW0254)	deletion	deletion	PMID:16738554^[4]	Shigen CGSC8478^[5]
ΔafuC-779::kan			PMID:16738554^[4]	CGSC:99932
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Notes

Genetic Resources

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Resource	Resource Type	Source	Notes/Reference
JW0254	Plasmid clone	Shigen	PMID:16769691^[6] Status:Clone OK Primer 1:GCCACTCAGAAAAATTTCGTTGA Primer 2:CCTGCCGCATCCGCCAGAACAAA
proA81::Tn10	Linked marker	CAG18447 = CGSC7330^[5]	est. P1 cotransduction: 54% ^[7]
lacI3042::Tn10	Linked marker	CAG18439 = CGSC7334^[5]	est. P1 cotransduction: % ^[7] Synonyms:lacI42::Tn10 CAG18439 also carries lacZ118(0c) (CGSC).
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Notes

Accessions in Other Databases

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG12340
EchoBASE (EcoliWiki Page)	EchoBASE:EB2244
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0262
EcoGene (EcoliWiki Page)	EcoGene:EG12340
ECOO157CYC (EcoliWiki Page)	ECOO157CYC:AFUC
ASAP (EcoliWikiPage)	ASAP:ABE-0000898
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Links

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Name	URL	Comments
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Product(s)

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Nomenclature

Standard name	AfuC
Synonyms	CP4-6 prophage; predicted ferric transporter subunit^[1], ATP-binding component of ABC superfamily^[1], B0262^[2]^[1], YagC^[2]^[1], AfuC^[2]^[1], FbpC^[2]^[1]
Product description	CP4-6 prophage; predicted ferric transporter subunit/ATP-binding component of ABC superfamily^[2]^[3]
EC number (for enzymes)
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Notes

Function

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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(s)	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000166	nucleotide binding	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR003593 SP_KW:KW-0547	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005215	transporter activity	GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR008995 InterPro:IPR013611	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005506	iron ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0408	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0005524	ATP binding	GO_REF:0000002 GO_REF:0000002 GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR003439 InterPro:IPR008995 InterPro:IPR013611 SP_KW:KW-0067	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0006810	transport	GO_REF:0000002 GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR008995 InterPro:IPR013611 SP_KW:KW-0813	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0006811	ion transport	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0406	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0006826	iron ion transport	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0410	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0015408	ferric-transporting ATPase activity	GO_REF:0000003 GO_REF:0000020	IEA: Inferred from Electronic Annotation	EC:3.6.3.30 HAMAP:MF_01706	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0015682	ferric iron transport	GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01706	P	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0016020	membrane	GO_REF:0000004 GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0397 SP_KW:KW-0472	C	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0016787	hydrolase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0378	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0016820	hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR008995 InterPro:IPR013611	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0016887	ATPase activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003439	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0017111	nucleoside-triphosphatase activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003593	F	Seeded from EcoCyc 12.5 ^[8]	complete
	GO:0043190	ATP-binding cassette (ABC) transporter complex	GO_REF:0000002 GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR008995 InterPro:IPR013611	C	Seeded from EcoCyc 12.5 ^[8]	complete
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Interactions

Partner Type	Partner	Notes	References
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Notes

Localization

Compartment	Description	Evidence	Notes
cytoplasm			From EcoCyc^[3]
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Structure and Physical Properties

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Physical Properties

Sequence	at EcoCyc MERTMTQKNF VELRNVTKRF GSNTVIDNIN LTIPQGQMVT LLGPSGCGKT TILRLVAGLE KPSEGQIFID GEDVTHRSIQ QRDICMVFQS YALFPHMSLG ENVGYGLKML GVPRAELKAR VKEALAMVDL EGFEDRFVDQ ISGGQQQRVA LARALILKPK VLLFDEPLSN LDANLRRSMR DKIRELQKQF DITSLYVTHD QSEAFAVSDT VLVMNKGHIM QIGSPQDLYR QPASRFMASF MGDANLFPAT FSDGYVDIYG YHLPRPLHFG TQGEGMVGVR PEAITLSDRG EESQRCVIRH VAYMGPQYEV TVEWHGQEIL LQVNATRLQP DVGEQYYLEI HPYGMFVLAD AA
Mol. Wt	39.06 kDa (calc) ^[2]
pI
Extinction coefficient	23380 - 23755 (calc based on 12 Y, 1 W, and 3 C residues)
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Domains/Motifs/Modification Sites

Type	Residues	Description	Notes
Domain	7 - 237	ABC transporter	UniProt:P37009
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Structure

Structures	Representative homolog: 1XMI\|A (Homo sapiens) 53-259 of 352 residues (E-value: 1.1e-08) (Percent Identity: 26.11) View all other structures.
Models	View models at: EcoliPredict ModBase PSI-PRED Protein Quaternary Structure (PQS) Genomes TO Protein (GTOP)
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Structures

Representative homolog:
1XMI|A (Homo sapiens)
53-259 of 352 residues (E-value: 1.1e-08) (Percent Identity: 26.11)
View all other structures.

Models

View models at:

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Notes

Gene Product Resources

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Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:YAGC-MONOMER
SwissModel (EcoliWiki Page)	SwissModel:P37009
UniProt (EcoliWiki Page)	UniProt:P37009
PFAM (EcoliWiki Page)	PFAM:PF00005
RefSeq (EcoliWiki Page)	RefSeq:NP_414796
ModBase (EcoliWiki Page)	ModBase:P37009
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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.

Transcription and Transcriptional Regulation

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Transcription unit(s)
afuC
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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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gbrowse_img.php?coord=278006..278046&genome=ecoli&name=MG1655&trackset=Genes_unlabeled+DNA_unlabeled+flip&width=400&.png
This picture shows the sequence around the N-terminus.

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

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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Mutations Affecting Expression

Allele Name	Mutation	Phenotype	Reference
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Expression Studies

Type	Reference	Notes
microarray	GenExpDB:b0262 (EcoliWiki Page)	Summary of data for afuC from multiple microarray studies
microarray	GEO Profiles:b0262 (EcoliWiki Page)	NCBI GEO profiles for afuC
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Expression Resources

Resource Name	Resource Type	Description	Source	Notes
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Notes

Accessions Related to afuC Expression

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Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:EG12340
EchoBASE (EcoliWiki Page)	EchoBASE:EB2244
EcoliGenExpDB (EcoliWiki Page)	GenExpDB:b0262
EcoGene (EcoliWiki Page)	EcoGene:EG12340
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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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Organism	Homologs (Statistics)	Comments
Takifugu rubripes	NEWSINFRUP00000130824 (score: 1.000; bootstrap: 57%) NEWSINFRUP00000130826 (score: 0.180) NEWSINFRUP00000167567 (score: 0.137) NEWSINFRUP00000182359 (score: 0.125) NEWSINFRUP00000177047 (score: 0.125) NEWSINFRUP00000168237 (score: 0.097) NEWSINFRUP00000171182 (score: 0.092)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00014344001 (score: 1.000; bootstrap: 57%) GSTENP00014343001 (score: 0.105) GSTENP00020877001 (score: 0.101) GSTENP00038511001 (score: 0.091) GSTENP00014937001 (score: 0.051)	From Inparanoid:20070104
E. coli O157	AFUC	From ECOO157CYC
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Notes

Families

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Database	Accession	Notes
PFAM (EcoliWiki Page)	PFAM:PF00005
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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 ^1.8 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 ^2.9 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 Baba T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2: 2006.0008 PubMed EcoliWiki page
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ Kitagawa M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (A Complete Set of E. coli K-12 ORF Archive): Unique Resources for Biological Research. DNA Res 12: 291-9 PubMed EcoliWiki page
↑ ^7.0 ^7.1 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).
↑ ^8.00 ^8.01 ^8.02 ^8.03 ^8.04 ^8.05 ^8.06 ^8.07 ^8.08 ^8.09 ^8.10 ^8.11 ^8.12 ^8.13 ^8.14 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

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Retrieved from "http://ecoliwiki.net/colipedia/index.php/afuC:On_One_Page"

afuC:On One Page

From EcoliWiki

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Categories

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Categories

Expression

Overview

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to afuC Expression

Notes

Links

Categories

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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