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(-) Description

Title :  CRYSTAL STRUCTURE OF URACIL TRANSPORTER--URAA
 
Authors :  F. R. Lu, S. Li, N. Yan
Date :  20 Jan 11  (Deposition) - 23 Mar 11  (Release) - 20 Apr 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.78
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Uracil Permease, Uracil Transporter, Uraa, Transporter, Inner Membrane Protein, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. Lu, S. Li, Y. Jiang, J. Jiang, H. Fan, G. Lu, D. Deng, S. Dang, X. Zhang, J. Wang, N. Yan
Structure And Mechanism Of The Uracil Transporter Uraa
Nature V. 472 243 2011
PubMed-ID: 21423164  |  Reference-DOI: 10.1038/NATURE09885

(-) Compounds

Molecule 1 - URACIL PERMEASE
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET21B
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneURAA, B2497, JW2482
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK12
    SynonymURACIL TRANSPORTER

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (1x)A
Biological Unit 2 (2x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1BNG1Ligand/IonB-NONYLGLUCOSIDE
2URA1Ligand/IonURACIL
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1BNG1Ligand/IonB-NONYLGLUCOSIDE
2URA1Ligand/IonURACIL
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1BNG2Ligand/IonB-NONYLGLUCOSIDE
2URA2Ligand/IonURACIL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:71 , SER A:72 , PHE A:73 , GLU A:241 , HIS A:245 , TYR A:288 , GLY A:289 , GLU A:290 , TYR A:342 , BNG A:431BINDING SITE FOR RESIDUE URA A 430
2AC2SOFTWAREVAL A:129 , GLY A:133 , GLU A:241 , HIS A:245 , GLY A:289 , TYR A:342 , ILE A:345 , GLY A:346 , ILE A:350 , URA A:430BINDING SITE FOR RESIDUE BNG A 431

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3QE7)

(-) Cis Peptide Bonds  (7, 7)

Asymmetric Unit
No.Residues
1Phe A:39 -His A:40
2Glu A:150 -Gly A:151
3Cys A:318 -Val A:319
4Gly A:379 -Ala A:380
5Ile A:384 -Gly A:385
6Gly A:385 -Ala A:386
7Ala A:386 -Ala A:387

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3QE7)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1XANTH_URACIL_PERMASEPS01116 Xanthine/uracil permeases family signature.URAA_ECOLI329-349  1A:329-349
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1XANTH_URACIL_PERMASEPS01116 Xanthine/uracil permeases family signature.URAA_ECOLI329-349  1A:329-349
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1XANTH_URACIL_PERMASEPS01116 Xanthine/uracil permeases family signature.URAA_ECOLI329-349  2A:329-349

(-) Exons   (0, 0)

(no "Exon" information available for 3QE7)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:407
 aligned with URAA_ECOLI | P0AGM7 from UniProtKB/Swiss-Prot  Length:429

    Alignment length:407
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       
           URAA_ECOLI     4 RAIGVSERPPLLQTIPLSLQHLFAMFGATVLVPVLFHINPATVLLFNGIGTLLYLFICKGKIPAYLGSSFAFISPVLLLLPLGYEVALGGFIMCGVLFCLVSFIVKKAGTGWLDVLFPPAAMGAIVAVIGLELAGVAAGMAGLLPAEGQTPDSKTIIISITTLAVTVLGSVLFRGFLAIIPILIGVLVGYALSFAMGIVDTTPIINAHWFALPTLYTPRFEWFAILTILPAALVVIAEHVGHLVVTANIVKKDLLRDPGLHRSMFANGLSTVISGFFGSTPNTTYGENIGVMAITRVYSTWVIGGAAIFAILLSCVGKLAAAIQMIPLPVMGGVSLLLYGVIGASGIRVLIESKVDYNKAQNLILTSVILIIGVSGAKVNIGAAELKGMALATIVGIGLSLIFKLIS 410
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -----------Xan_ur_permease-3qe7A01 A:15-385                                                                                                                                                                                                                                                                                                                                                   ------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.......eee...hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh..hhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh...eeehhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------XANTH_URACIL_PERMASE ------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qe7 A   4 RAIGVSERPPLLQTIPLSLQHLFAMFGATVLVPVLFHINPATVLLFNGIGTLLYLFICKGKIPAYLGSSFAFISPVLLLLPLGYEVALGGFIMCGVLFCLVSFIVKKAGTGWLDVLFPPAAMGAIVAVIGLELAGVAAGMAGLLPAEGQTPDSKTIIISITTLAVTVLGSVLFRGFLAIIPILIGVLVGYALSFAMGIVDTTPIINAHWFALPTLYTPRFEWFAILTILPAALVVIAEHVGHLVVTANIVKKDLLRDPGLHRSMFANGLSTVISGFFGSTPNTTYGENIGVMAITRVYSTWVIGGAAIFAILLSCVGKLAAAIQMIPLPVMGGVSLLLYGVIGASGIRVLIESKVDYNKAQNLILTSVILIIGVSGAKVNIGAAELKGMALATIVGIGLSLIFKLIS 410
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3QE7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QE7)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: APC (6)

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)
Chain A   (URAA_ECOLI | P0AGM7)
molecular function
    GO:0005215    transporter activity    Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
    GO:0015210    uracil transmembrane transporter activity    Enables the transfer of uracil, 2,4-dioxopyrimidine, from one side of a membrane to the other.
    GO:0015505    uracil:cation symporter activity    Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: uracil(out) + cation(out) = uracil(in) + cation(in).
biological process
    GO:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
    GO:1903791    uracil transmembrane transport    The directed movement of uracil across a membrane.
    GO:0015857    uracil transport    The directed movement of uracil, 2,4-dioxopyrimidine, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0005887    integral component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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