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(-) Description

Title :  CRYSTAL STRUCTURE OF CARNITINE TRANSPORTER
 
Authors :  L. Tang, W. -H. Wang, L. Bai, T. Jiang
Date :  13 May 09  (Deposition) - 31 Mar 10  (Release) - 14 Apr 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.15
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Helix-Turn-Helix, Antiport, Cell Inner Membrane, Cell Membrane, Transmembrane, Transport, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Tang, L. Bai, W. -H. Wang, T. Jiang
Crystal Structure Of The Carnitine Transporter And Insights Into The Antiport Mechanism
Nat. Struct. Mol. Biol. V. 17 492 2010
PubMed-ID: 20357772  |  Reference-DOI: 10.1038/NSMB.1788

(-) Compounds

Molecule 1 - L-CARNITINE/GAMMA-BUTYROBETAINE ANTIPORTER
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: C41
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CAIT, YAAP, B0040, JW0039
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 13)

Asymmetric Unit (2, 13)
No.NameCountTypeFull Name
11524Ligand/IonCARNITINE
2HG9Ligand/IonMERCURY (II) ION
Biological Unit 1 (1, 12)
No.NameCountTypeFull Name
115212Ligand/IonCARNITINE
2HG-1Ligand/IonMERCURY (II) ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:481BINDING SITE FOR RESIDUE HG A 505
02AC2SOFTWARECYS A:99 , THR A:100 , SER A:101BINDING SITE FOR RESIDUE HG A 506
03AC3SOFTWARECYS A:238 , LEU A:242BINDING SITE FOR RESIDUE HG A 507
04AC4SOFTWARECYS A:26 , ILE A:459 , VAL A:462BINDING SITE FOR RESIDUE HG A 508
05AC5SOFTWAREMET A:204 , LEU A:422 , CYS A:426BINDING SITE FOR RESIDUE HG A 509
06AC6SOFTWARELEU A:214 , VAL A:215 , CYS A:218 , PHE A:411 , PHE A:412 , CYS A:415BINDING SITE FOR RESIDUE HG A 510
07AC7SOFTWAREMET A:204 , CYS A:426 , 152 A:602BINDING SITE FOR RESIDUE HG A 511
08AC8SOFTWARELEU A:251 , GLN A:252 , VAL A:255BINDING SITE FOR RESIDUE HG A 512
09AC9SOFTWAREALA A:248 , CYS A:249BINDING SITE FOR RESIDUE HG A 513
10BC1SOFTWARESER A:101 , VAL A:104 , TRP A:323 , TRP A:324 , TYR A:327BINDING SITE FOR RESIDUE 152 A 601
11BC2SOFTWARETYR A:327 , GLN A:330 , MET A:331 , PHE A:334 , LEU A:422 , HG A:511BINDING SITE FOR RESIDUE 152 A 602
12BC3SOFTWARETYR A:114 , GLY A:310 , GLY A:311 , TRP A:316BINDING SITE FOR RESIDUE 152 A 603
13BC4SOFTWAREGLU A:85 , PHE A:86 , ARG A:337 , ILE A:338BINDING SITE FOR RESIDUE 152 A 604

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3HFX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 2)

Asymmetric Unit (2, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_CAIT_ECOLI_001 *L353MCAIT_ECOLI  ---  ---AL353M
2UniProtVAR_CAIT_ECOLI_002 *I374MCAIT_ECOLI  ---  ---AI374M
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (2, 6)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_CAIT_ECOLI_001 *L353MCAIT_ECOLI  ---  ---AL353M
2UniProtVAR_CAIT_ECOLI_002 *I374MCAIT_ECOLI  ---  ---AI374M
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BCCTPS01303 BCCT family of transporters signature.CAIT_ECOLI315-324  1A:315-324
Biological Unit 1 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BCCTPS01303 BCCT family of transporters signature.CAIT_ECOLI315-324  3A:315-324

(-) Exons   (0, 0)

(no "Exon" information available for 3HFX)

(-) 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:493
 aligned with CAIT_ECOLI | P31553 from UniProtKB/Swiss-Prot  Length:504

    Alignment length:493
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501   
           CAIT_ECOLI    12 PKVFFPPLIIVGILCWLTVRDLDAANVVINAVFSYVTNVWGWAFEWYMVVMLFGWFWLVFGPYAKKRLGNEPPEFSTASWIFMMFASCTSAAVLFWGSIEIYYYISTPPFGLEPNSTGAKELGLAYSLFHWGPLPWATYSFLSVAFAYFFFVRKMEVIRPSSTLVPLVGEKHAKGLFGTIVDNFYLVALIFAMGTSLGLATPLVTECMQWLFGIPHTLQLDAIIITCWIILNAICVACGLQKGVRIASDVRSYLSFLMLGWVFIVSGASFIMNYFTDSVGMLLMYLPRMLFYTDPIAKGGFPQGWTVFYWAWWVIYAIQMSIFLARISRGRTVRELCFGMVLGLTASTWILWTVLGSNTLLLIDKNIINIPNLIEQYGVARAIIETWAALPLSTATMWGFFILCFIATVTLVNACSYTLAMSTCREVRDGEEPPLLVRIGWSILVGIIGIVLLALGGLKPIQTAIIAGGCPLFFVNIMVTLSFIKDAKQNWKD 504
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhh....hhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhh..hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------M--------------------M---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------BCCT      ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hfx A  12 PKVFFPPLIIVGILCWLTVRDLDAANVVINAVFSYVTNVWGWAFEWYMVVMLFGWFWLVFGPYAKKRLGNEPPEFSTASWIFMMFASCTSAAVLFWGSIEIYYYISTPPFGLEPNSTGAKELGLAYSLFHWGPLPWATYSFLSVAFAYFFFVRKMEVIRPSSTLVPLVGEKHAKGLFGTIVDNFYLVALIFAMGTSLGLATPLVTECMQWLFGIPHTLQLDAIIITCWIILNAICVACGLQKGVRIASDVRSYLSFLMLGWVFIVSGASFIMNYFTDSVGMLLMYLPRMLFYTDPIAKGGFPQGWTVFYWAWWVIYAIQMSIFLARISRGRTVRELCFGMVLGLTASTWILWTVLGSNTLLLIDKNIINIPNLIEQYGVARAIIETWAALPLSTATMWGFFILCFIATVTLVNACSYTLAMSTCREVRDGEEPPLLVRIGWSILVGIIGIVLLALGGLKPIQTAIIAGGCPLFFVNIMVTLSFIKDAKQNWKD 504
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501
   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 3HFX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3HFX)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain A   (CAIT_ECOLI | P31553)
molecular function
    GO:0044667    (R)-carnitine:4-(trimethylammonio)butanoate antiporter activity    Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: (R)-carnitine(out) + 4-(trimethylammonio)butanoate(in) = (R)-carnitine(in) + 4-(trimethylammonio)butanoate(out).
    GO:0015297    antiporter activity    Enables the active transport of a solute across a membrane by a mechanism whereby two or more species are transported in opposite directions in a tightly coupled process not directly linked to a form of energy other than chemiosmotic energy. The reaction is: solute A(out) + solute B(in) = solute A(in) + solute B(out).
    GO:0015226    carnitine transmembrane transporter activity    Enables the directed movement of carnitine across a membrane. Carnitine is a compound that participates in the transfer of acyl groups across the inner mitochondrial membrane.
    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.
biological process
    GO:1902270    (R)-carnitine transmembrane transport    The directed movement of (R)-carnitine across a membrane.
    GO:1900749    (R)-carnitine transport    The directed movement of a (R)-carnitine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:1900751    4-(trimethylammonio)butanoate transport    The directed movement of a 4-(trimethylammonio)butanoate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0009437    carnitine metabolic process    The chemical reactions and pathways involving carnitine (hydroxy-trimethyl aminobutyric acid), a compound that participates in the transfer of acyl groups across the inner mitochondrial membrane.
    GO:1902603    carnitine transmembrane transport    The directed movement of carnitine across a membrane.
    GO:0015879    carnitine transport    The directed movement of carnitine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carnitine is a compound that participates in the transfer of acyl groups across the inner mitochondrial membrane.
    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.
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: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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