lysP:Gene Product(s): Difference between revisions

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<span id="Structure"></span><big>'''Structure'''</big>
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<span id='Structure'></span><big>'''Structure'''</big><br />
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==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


Revision as of 16:15, 23 July 2009

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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

LysP

Synonyms

lysine transporter[1], B2156[2][1], CadR[2][1], LysP[2][1]

Product description

LysP lysine APC transporter[2][3]

Lysine permease; lysine repressed[4]

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:0006810

transport

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004841
SP_KW:KW-0813

P

Seeded from EcoCyc [5]

complete

GO:0006865

amino acid transport

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR002293
InterPro:IPR004840
SP_KW:KW-0029

P

Seeded from EcoCyc [5]

complete

GO:0015171

amino acid transmembrane transporter activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002293

F

Seeded from EcoCyc [5]

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 [6]

complete

GO:0016021

integral to membrane

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004840
SP_KW:KW-0812

C

Seeded from EcoCyc [5]

complete

GO:0009089

lysine biosynthetic process via diaminopimelate

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997
SP_KW:KW-1003
SP_SL:SL-0037

C

Seeded from EcoCyc [5]

complete

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997
SP_KW:KW-1003
SP_SL:SL-0037

C

Seeded from EcoCyc

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

complete

GO:0006865

amino acid transport

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR002293
InterPro:IPR004840
SP_KW:KW-0029

P

Seeded from EcoCyc

complete

GO:0015171

amino acid transmembrane transporter activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002293

F

Seeded from EcoCyc

complete

GO:0016020

membrane

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR002293
InterPro:IPR004841
SP_KW:KW-0472

C

Seeded from EcoCyc

complete

GO:0016021

integral to membrane

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004840
SP_KW:KW-0812

C

Seeded from EcoCyc

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) [7]

plasma membrane

From EcoCyc[3]

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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 

MVSETKTTEA PGLRRELKAR HLTMIAIGGS IGTGLFVASG ATISQAGPGG ALLSYMLIGL
MVYFLMTSLG ELAAYMPVSG SFATYGQNYV EEGFGFALGW NYWYNWAVTI AVDLVAAQLV
MSWWFPDTPG WIWSALFLGV IFLLNYISVR GFGEAEYWFS LIKVTTVIVF IIVGVLMIIG
IFKGAQPAGW SNWTIGEAPF AGGFAAMIGV AMIVGFSFQG TELIGIAAGE SEDPAKNIPR
AVRQVFWRIL LFYVFAILII SLIIPYTDPS LLRNDVKDIS VSPFTLVFQH AGLLSAAAVM
NAVILTAVLS AGNSGMYAST RMLYTLACDG KAPRIFAKLS RGGVPRNALY ATTVIAGLCF
LTSMFGNQTV YLWLLNTSGM TGFIAWLGIA ISHYRFRRGY VLQGHDINDL PYRSGFFPLG
PIFAFILCLI ITLGQNYEAF LKDTIDWGGV AATYIGIPLF LIIWFGYKLI KGTHFVRYSE
MKFPQNDKK
Length

489

Mol. Wt

53.578 kDa

pI

9.1 (calculated)

Extinction coefficient

115,280 - 115,655 (calc based on 22 Y, 15 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 Notes

Domain

370 - 392

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

413 - 435

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

445 - 467

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

343 - 365

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

21 - 43

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

53 - 75

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

103 - 125

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

130 - 152

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

159 - 181

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

196 - 218

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

245 - 267

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

Domain

287 - 309

Predicted membrane-spanning helix.

TMD predicted by TMHMM[8]

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<motif_map/>

tmhmm.php?gene=lysP&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>lysP 562</beststructure>

Models

View models at:

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Structure figures

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:LYSP-MONOMER

UniProt (EcoliWiki Page)

UniProt:P25737

PFAM (EcoliWiki Page)

PFAM:PF00324

RefSeq (EcoliWiki Page)

RefSeq:NP_416661


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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. ↑ 1.0 1.1 1.2 1.3 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 3.2 3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 5.3 5.4 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  8. ↑ 8.00 8.01 8.02 8.03 8.04 8.05 8.06 8.07 8.08 8.09 8.10 8.11 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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