ycaM:Gene Product(s): Difference between revisions

Standard name	YcaM product
Synonyms	predicted transporter product^[1], B0899 product^[2]^[1], YcaM product^[2]^[1]
Product description	YcaM predicted APC amino acid transporter^[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:0016020	membrane	GO_REF:0000002 GO_REF:0000002 GO_REF:0000004 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR002293 InterPro:IPR004841 SP_KW:KW-0397 SP_KW:KW-0472	C	Seeded from EcoCyc 12.5 ^[4]	complete
	GO:0015171	amino acid transmembrane transporter activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002293	F	Seeded from EcoCyc 12.5 ^[4]	complete
	GO:0006865	amino acid transport	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002293	P	Seeded from EcoCyc 12.5 ^[4]	complete
	GO:0006810	transport	GO_REF:0000002 GO_REF:0000004	IEA: Inferred from Electronic Annotation	InterPro:IPR004841 SP_KW:KW-0813	P	Seeded from EcoCyc 12.5 ^[4]	complete
	GO:0015292	uniporter activity				F	Seeded from EcoCyc 11.1^[3].	required fields missing
	GO:0016021	integral to membrane	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc 12.5 ^[4]	complete
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Interactions

Partner Type	Partner	Notes
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Notes

Localization

Compartment	Description	Evidence	Notes
plasma membrane	C-terminus localized in the cytoplasm with 12 predicted transmembrane domains	Daley et al. (2005) ^[5]
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Notes

Structure and Physical Properties

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Physical Properties

Sequence	at EcoCyc MNLLFHTLLF CFFYLTCFIP NFIRLKIKCA AGYNFAFRYF RTSYLPRIIP RFTDAPLILA KDLSMAGNVQ EKQLRWYNIA LMSFITVWGF GNVVNNYANQ GLVVVFSWVF IFALYFTPYA LIVGQLGSTF KDGKGGVSTW IKHTMGPGLA YLAAWTYWVV HIPYLAQKPQ AILIALGWAM KGDGSLIKEY SVVALQGLTL VLFIFFMWVA SRGMKSLKIV GSVAGIAMFV MSLLYVAMAV TAPAITEVHI ATTNITWETF IPHIDFTYIT TISMLVFAVG GAEKISPYVN QTRNPGKEFP KGMLCLAVMV AVCAILGSLA MGMMFDSRNI PDDLMTNGQY YAFQKLGEYY NMGNTLMVIY AIANTLGQVA ALVFSIDAPL KVLLGDADSK YIPASLCRTN ASGTPVNGYF LTLVLVAILI MLPTLGIGDM NNLYKWLLNL NSVVMPLRYL WVFVAFIAVV RLAQKYKPEY VFIRNKPLAM TVGIWCFAFT AFACLTGIFP KMEAFTAEWT FQLALNVATP FVLVGLGLIF PLLARKANSK
Mol. Wt	52.5 kDa (calc) ^[2]
pI
Extinction coefficient	110240 - 111240 (calc based on 26 Y, 13 W, and 8 C residues)
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See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Domains/Motifs/Modification Sites

Type	Residues	Description	Notes
Domain	509 - 531	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	442 - 464	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	477 - 499	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	405 - 427	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	74 - 91	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	101 - 123	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	136 - 158	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	192 - 211	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	223 - 245	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	260 - 282	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	303 - 325	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	352 - 374	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
Domain	4 - 23	Predicted membrane-spanning helix.	TMD predicted by TMHMM^[6]
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Click the image to view raw output from TMHMM.

Structure

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:YCAM
UniProt (EcoliWiki Page)	UniProt:P75835
PFAM (EcoliWiki Page)	PFAM:PF00324
RefSeq (EcoliWiki Page)	RefSeq:NP_415419
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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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 ^4.3 ^4.4 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
↑ ^6.00 ^6.01 ^6.02 ^6.03 ^6.04 ^6.05 ^6.06 ^6.07 ^6.08 ^6.09 ^6.10 ^6.11 ^6.12 Krogh, A et al. (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305 567-80 PubMed

@@ Line 77: / Line 77: @@
 |- {{table_heading_style}}
 !|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
+|-
+|
+|
+[[Category:GO:0016020_!_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016020_!_membrane GO:0016020]
+|
+membrane
+|
+[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]<br />[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]<br />[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]<br />[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]
+|
+IEA: Inferred from Electronic Annotation
+|
+[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR002293 InterPro:IPR002293]<br />[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR004841 InterPro:IPR004841]<br />[http://www.uniprot.org/keywords/KW-0397 SP_KW:KW-0397]<br />[http://www.uniprot.org/keywords/KW-0472 SP_KW:KW-0472]
+|
+C
+|
+Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
+|
+complete
 |-
 |
@@ Line 157: / Line 176: @@
 |
-[[Category:GO:0016020_!_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016020_!_membrane GO:0016020]
+[[Category:GO:0016021_!_integral_to_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016021_!_integral_to_membrane GO:0016021]
 |
-membrane
+integral to membrane
 |
-[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]<br />[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]<br />[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]<br />[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]
+[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]
 |
 IEA: Inferred from Electronic Annotation
 |
-[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR002293 InterPro:IPR002293]<br />[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR004841 InterPro:IPR004841]<br />[http://www.uniprot.org/keywords/KW-0397 SP_KW:KW-0397]<br />[http://www.uniprot.org/keywords/KW-0472 SP_KW:KW-0472]
+[http://www.uniprot.org/keywords/KW-0812 SP_KW:KW-0812]
 |
 C

ycaM:Gene Product(s): Difference between revisions

Revision as of 07:18, 18 November 2008

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

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ycaM:Gene Product(s): Difference between revisions

Revision as of 07:18, 18 November 2008

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

Categories

Navigation menu

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