ycaM:Gene Product(s): Difference between revisions

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[[Category:GO:0016021_!_integral_to_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016021_!_integral_to_membrane GO:0016021]
GO:0016021
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integral to membrane
integral to membrane
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[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]
GO_REF:0000004
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IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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[http://www.uniprot.org/keywords/KW-0812 SP_KW:KW-0812]
SP_KW:KW-0812
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C
C
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[[Category:GO:0016020_!_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016020_!_membrane GO:0016020]
GO:0016020
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membrane
membrane
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[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]
GO_REF:0000002<br />GO_REF:0000002<br />GO_REF:0000004<br />GO_REF:0000004
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IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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[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]
InterPro:IPR002293<br />InterPro:IPR004841<br />SP_KW:KW-0397<br />SP_KW:KW-0472
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C
C
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[[Category:GO:0015171_!_amino_acid_transmembrane_transporter_activity]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0015171_!_amino_acid_transmembrane_transporter_activity GO:0015171]
GO:0015171
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amino acid transmembrane transporter activity
amino acid transmembrane transporter activity
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[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]
GO_REF:0000002
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IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR002293 InterPro:IPR002293]
InterPro:IPR002293
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F
F
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[[Category:GO:0006865_!_amino_acid_transport]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006865_!_amino_acid_transport GO:0006865]
GO:0006865
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amino acid transport
amino acid transport
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[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000002 GO_REF:0000002]
GO_REF:0000002
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IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR002293 InterPro:IPR002293]
InterPro:IPR002293
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P
P
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[[Category:GO:0006810_!_transport]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006810_!_transport GO:0006810]
GO:0006810
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transport
transport
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[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]
GO_REF:0000002<br />GO_REF:0000004
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IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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[http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR004841 InterPro:IPR004841]<br />[http://www.uniprot.org/keywords/KW-0813 SP_KW:KW-0813]
InterPro:IPR004841<br />SP_KW:KW-0813
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P
P
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[[Category:GO:0015292_!_uniporter_activity]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0015292_!_uniporter_activity GO:0015292]
GO:0015292  
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uniporter activity  
uniporter activity  
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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
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==References==
==References==
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<references/>
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__NOTOC__
__NOTOC__

Revision as of 20:33, 16 February 2009

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

YcaM

Synonyms

predicted transporter[1], B0899[2][1], YcaM[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:0016021

integral to membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc 12.5 [4]

complete

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

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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
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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 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 See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

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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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

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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tmhmm.php?gene=ycaM&show=pic&.jpg
Click the image to view raw output from TMHMM.

Structure See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure>ycaM 562</beststructure>

Models

View models at:

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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

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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  1. ↑ 1.0 1.1 1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 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. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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
  5. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  6. ↑ 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


Categories

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