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(-) Description

Title :  CRYSTAL STRUCTURE OF THE LONG-CHAIN FATTY ACID TRANSPORTER FADL MUTANT DELTA N8
 
Authors :  E. M. Hearn, D. R. Patel, B. W. Lepore, M. Indic, B. Van Den Berg
Date :  10 Sep 07  (Deposition) - 23 Sep 08  (Release) - 06 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Beta Barrel, Outer Membrane Protein, Lipid Transport, Phage Recognition, Transmembrane, Transport, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. W. Lepore, M. Indic, H. Pham, E. M. Hearn, D. R. Patel, B. Van Den Ber
From The Cover: Ligand-Gated Diffusion Across The Bacterial Outer Membrane.
Proc. Natl. Acad. Sci. Usa V. 108 10121 2011
PubMed-ID: 21593406  |  Reference-DOI: 10.1073/PNAS.1018532108
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LONG-CHAIN FATTY ACID TRANSPORT PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PBAD22
    Expression System Strain: C43(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: FADL, TTR
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: OUTER MEMBRANE FADL PROTEIN, OUTER MEMBRANE FLP PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1C8E4Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1C8E2Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1C8E2Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:291 , LEU A:293 , ILE A:327 , LEU A:329 , TRP B:94 , ALA B:96 , SER B:97 , ILE B:98 , PHE B:146BINDING SITE FOR RESIDUE C8E A 501
2AC2SOFTWARELEU A:225 , TRP A:275 , ALA B:47 , PRO B:80 , MET B:82 , MET B:126 , ARG B:152BINDING SITE FOR RESIDUE C8E B 502
3AC3SOFTWAREALA B:74 , SER B:100 , TYR B:102 , GLY B:103 , LEU B:104 , ALA B:105 , PRO B:362 , MET B:390BINDING SITE FOR RESIDUE C8E B 503
4AC4SOFTWAREALA A:74 , SER A:100 , TYR A:102 , GLY A:103 , LEU A:104 , ALA A:105 , PRO A:362 , MET A:390BINDING SITE FOR RESIDUE C8E A 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2R8A)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2R8A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2R8A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2R8A)

(-) Exons   (0, 0)

(no "Exon" information available for 2R8A)

(-) 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:360
 aligned with FADL_ECOLI | P10384 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:413
                                    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       413       423       433       443   
           FADL_ECOLI    34 SSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF 446
               SCOP domains d2r8aa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 2r8aA00 A:9-421 Outer membrane protein transport protein (OMPP1/FadL/TodX)                                                                                                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeeeeeeeee.................eeeeeeeeeeeee..eeeeeeee...eeeee......hhhhh.eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeee..hhhhhhhhhhhhhhhhh...hhhhhhhhhh.....eeeeeeeeeeeeeeeeeeeeeee..eeeeeeee..eee..-------------------------------..eee.eeeeeeeee.....eeeeeeeeeee..----------------------..eeeeeeeeee.......eeeeeeee.................eeeeeeeeeeeee..eeeeeeeeeeee..eee......eeeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2r8a A   9 AGSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKTAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDF-------------------------------LTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWS----------------------KDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF 421
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228      |  -         -         -       268       278       288       298|        -         -   |   328       338       348       358       368       378       388       398       408       418   
                                                                                                                                                                                                                                                            235                             267                             299                    322                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:360
 aligned with FADL_ECOLI | P10384 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:413
                                    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       413       423       433       443   
           FADL_ECOLI    34 SSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF 446
               SCOP domains d2r8ab_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 2r8aB00 B:9-421 Outer membrane protein transport protein (OMPP1/FadL/TodX)                                                                                                                                                                                                                                                                                                                                                    CATH domains
           Pfam domains (1) --Toluene_X-2r8aB01 B:11-421                                                                                                                                                                                                                                                                                                                                                                                                  Pfam domains (1)
           Pfam domains (2) --Toluene_X-2r8aB02 B:11-421                                                                                                                                                                                                                                                                                                                                                                                                  Pfam domains (2)
         Sec.struct. author .hhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeeeeeeeee.................eeeeeeeeeeeee..eeeeeeee...eeeee......hhhhh.eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeee..hhhhhhhhhhhhhhhhh...hhhhhhhhhh.....eeeeeeeeeeeeeeeeeeeeeee..eeeeeeee..eee..-------------------------------..eee.eeeeeeeee.....eeeeeeeeeee..----------------------..eeeeeeeeee.......eeeeeeee.................eeeeeeeeeeeee..eeeeeeeeeeee..eee......eeeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2r8a B   9 AGSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKTAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDF-------------------------------LTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWS----------------------KDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF 421
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228      |  -         -         -       268       278       288       298|        -         -   |   328       338       348       358       368       378       388       398       408       418   
                                                                                                                                                                                                                                                            235                             267                             299                    322
   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  (1, 2)

Asymmetric Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: MBB (97)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (FADL_ECOLI | P10384)
molecular function
    GO:0022834    ligand-gated channel activity    Enables the transmembrane transfer of a solute by a channel that opens when a specific ligand has been bound by the channel complex or one of its constituent parts.
    GO:0015483    long-chain fatty acid transporting porin activity    Enables the transfer of long-chain fatty acids from one side of the membrane to the other. A long-chain fatty acid is a fatty acid with a chain length between C13 and C22. This transporter is a porin and so enables the energy independent passage of substances, sized less than 1000 Da, across a membrane. The transmembrane portions of porins consist exclusively of beta-strands which form a beta-barrel. They are found in the outer membranes of Gram-negative bacteria, mitochondria, plastids and possibly acid-fast Gram-positive bacteria.
biological process
    GO:0006869    lipid transport    The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
    GO:0015909    long-chain fatty acid transport    The directed movement of long-chain fatty acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. A long-chain fatty acid is a fatty acid with a chain length between C13 and C22.
    GO:0015718    monocarboxylic acid transport    The directed movement of monocarboxylic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    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:0009279    cell outer membrane    A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
    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.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        FADL_ECOLI | P10384: 1t16 1t1l 2r4l 2r4n 2r4o 2r4p 2r88 2r89 3dwn 3pf1 3pgr 3pgs 3pgu

(-) Related Entries Specified in the PDB File

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1t1l CRYSTAL STRUCTURE OF THE BACTERIAL FATTY ACID TRANSPORTER FADL (WILD-TYPE, HEXAGONAL SPACE GROUP P3121)
2r4l FADL MUTANT P34A
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2r4n FADL MUTANT N33A
2r4o FADL MUTANT DELTA NPA
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