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(-) Description

Title :  PHE3GLY MUTANT OF ECFADL
 
Authors :  B. Van Den Berg, B. W. Lepore
Date :  02 Nov 10  (Deposition) - 25 May 11  (Release) - 06 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Beta Barrel Outer Membrane, Lipid Transport, Outer Membrane (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

(-) Compounds

Molecule 1 - LONG-CHAIN FATTY ACID TRANSPORT PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: C43
    Expression System Taxid: 562
    Fragment: MATURE FORM (UNP RESIDUES 26-446)
    Gene: B2344, FADL, JW2341, TTR
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI K-12
    Organism Taxid: 83333
    Strain: K12
    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  (5, 26)

Asymmetric Unit (5, 26)
No.NameCountTypeFull Name
12PE1Ligand/IonNONAETHYLENE GLYCOL
2ACT2Ligand/IonACETATE ION
3C8E13Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
4CA1Ligand/IonCALCIUM ION
5LDA9Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
Biological Unit 1 (3, 16)
No.NameCountTypeFull Name
12PE-1Ligand/IonNONAETHYLENE GLYCOL
2ACT1Ligand/IonACETATE ION
3C8E8Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
4CA-1Ligand/IonCALCIUM ION
5LDA7Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
Biological Unit 2 (4, 9)
No.NameCountTypeFull Name
12PE1Ligand/IonNONAETHYLENE GLYCOL
2ACT1Ligand/IonACETATE ION
3C8E5Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
4CA-1Ligand/IonCALCIUM ION
5LDA2Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE

(-) Sites  (25, 25)

Asymmetric Unit (25, 25)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:423 , HIS A:425 , ASP B:53 , HOH B:477 , HOH B:534 , HOH B:649BINDING SITE FOR RESIDUE CA A 428
02AC2SOFTWARETHR A:187 , ASN A:244 , ALA A:246 , TYR A:250 , C8E B:435BINDING SITE FOR RESIDUE C8E A 429
03AC3SOFTWAREVAL A:387 , TRP A:411 , PHE B:421BINDING SITE FOR RESIDUE C8E A 430
04AC4SOFTWAREGLN A:169 , GLN A:180 , GLN B:180 , C8E B:435 , HOH B:640BINDING SITE FOR RESIDUE LDA A 431
05AC5SOFTWARETRP A:209 , TYR A:227 , TRP A:275BINDING SITE FOR RESIDUE LDA A 432
06AC6SOFTWAREGLN A:180 , ILE B:170 , C8E B:435BINDING SITE FOR RESIDUE LDA A 433
07AC7SOFTWAREGLY A:48 , MET A:82 , HOH B:599BINDING SITE FOR RESIDUE LDA A 434
08AC8SOFTWAREALA A:148BINDING SITE FOR RESIDUE LDA A 436
09AC9SOFTWAREGLY A:132 , ALA A:133BINDING SITE FOR RESIDUE LDA A 437
10BC1SOFTWAREALA A:153 , ILE A:155 , ASN A:201 , PHE A:235 , ASN A:238 , TYR A:239 , GLY A:265 , LEU A:269 , ASN A:270 , TRP A:298 , PHE A:301BINDING SITE FOR RESIDUE C8E A 438
11BC2SOFTWAREALA A:77 , PRO A:80 , SER A:100 , GLY A:103 , LEU A:123 , THR A:125 , ARG A:366 , MET A:390 , ALA A:410 , HOH A:583 , HOH A:662 , HOH A:783BINDING SITE FOR RESIDUE C8E A 439
12BC3SOFTWAREGLN A:4 , ASN A:6 , GLU A:7 , TRP A:368 , HOH A:772BINDING SITE FOR RESIDUE ACT A 1428
13BC4SOFTWARELEU A:162 , GLY A:163 , GLN A:169 , ILE A:191 , C8E A:442 , HOH A:775BINDING SITE FOR RESIDUE C8E A 440
14BC5SOFTWAREASP A:336 , TRP A:339 , VAL A:383 , PHE B:207 , LDA B:429 , HOH B:550BINDING SITE FOR RESIDUE C8E A 441
15BC6SOFTWAREVAL A:166 , GLN A:169 , PRO A:401 , C8E A:440 , C8E A:443 , HOH A:707 , GLY B:251BINDING SITE FOR RESIDUE C8E A 442
16BC7SOFTWAREGLY A:251 , C8E A:442 , VAL B:166 , GLN B:169 , C8E B:435BINDING SITE FOR RESIDUE C8E A 443
17BC8SOFTWAREC8E A:441 , ALA B:96 , ILE B:98BINDING SITE FOR RESIDUE LDA B 429
18BC9SOFTWARELEU B:225 , TYR B:227 , TRP B:275BINDING SITE FOR RESIDUE LDA B 430
19CC1SOFTWAREGLY B:2 , ALA B:153 , LEU B:200 , ASN B:201 , GLY B:202 , PHE B:235 , GLY B:237 , ASN B:238 , GLY B:265 , LEU B:269 , ASN B:270 , LEU B:271 , TRP B:298 , PHE B:301 , ALA B:306 , ILE B:361BINDING SITE FOR RESIDUE C8E B 431
20CC2SOFTWAREILE B:52 , ALA B:77 , TRP B:78 , PRO B:80 , SER B:100 , LEU B:104 , THR B:125 , MET B:126 , LYS B:409 , ALA B:410 , HOH B:451 , HOH B:619 , HOH B:756 , ACT B:1428BINDING SITE FOR RESIDUE C8E B 432
21CC3SOFTWAREALA A:49 , TRP A:78 , VAL A:385 , PHE A:413 , GLY A:414 , THR A:415 , PHE B:92 , GLY B:93 , TRP B:94 , GLY B:132 , ALA B:133 , HOH B:599BINDING SITE FOR RESIDUE C8E B 433
22CC4SOFTWAREGLN B:4 , ASN B:6 , GLU B:7 , ARG B:366 , TRP B:368 , C8E B:432BINDING SITE FOR RESIDUE ACT B 1428
23CC5SOFTWAREGLN B:169 , ILE B:191 , LEU B:243 , PHE B:247 , HOH B:488 , HOH B:624BINDING SITE FOR RESIDUE C8E B 434
24CC6SOFTWAREC8E A:429 , LDA A:431 , LDA A:433 , C8E A:443 , THR B:187 , ASN B:244 , PHE B:247 , HOH B:734BINDING SITE FOR RESIDUE C8E B 435
25CC7SOFTWAREASP B:218 , ASN B:221 , VAL B:277 , ASN B:281 , ILE B:289 , TYR B:291 , ILE B:327BINDING SITE FOR RESIDUE 2PE B 436

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3PGS)

(-) Exons   (0, 0)

(no "Exon" information available for 3PGS)

(-) 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:427
 aligned with FADL_ECOLI | P10384 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:427
                                                                                                                                                                                                                                                                                                                                                                                                                                                              446      
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445|      
           FADL_ECOLI    26 AGFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF------   -
               SCOP domains d3pgsa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeeeeeeeee.................eeeeeeeeeee....eeeeeeee...eeeee............eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeeeeeeeeeeeee..eeeeeeee..eeeeeeeeee...hhhhh..............eeeeeeeee..eeeeeeeeeee..eeeeeeeeee.hhhh.eeeee.....eeeeee.....eeeeeeeeeee....eeeeeeeeee....hhhhh........eeeeeeeeeee....eeeeeeeeeeee..eeeee..eeeeeeeeeeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pgs A   1 AGGQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAFHHHHHH 427
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       


Chain B from PDB  Type:PROTEIN  Length:426
 aligned with FADL_ECOLI | P10384 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:426
                                                                                                                                                                                                                                                                                                                                                                                                                                                              446     
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445|     
           FADL_ECOLI    26 AGFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAF-----   -
               SCOP domains d3pgsb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) Toluene_X-3pgsB01 B:1-421                                                                                                                                                                                                                                                                                                                                                                                                            ----- Pfam domains (1)
           Pfam domains (2) Toluene_X-3pgsB02 B:1-421                                                                                                                                                                                                                                                                                                                                                                                                            ----- Pfam domains (2)
         Sec.struct. author ........hhhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeeeeeeeeee................eeeeeeeeeee....eeeeeeee...eeeee............eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeeeeeeeeeeeee..eeeeeeee..eeeeeeeeee...hhhhh..............eeeeeeeee..eeeeeeeeeee..eeeeeeeeee.hhhh.eeeee.....eeeeee.....eeeeeeeeee.....eeeeeeeeee....hhhhh........eeeeeeeeeee....eeeeeeeeeeee..eeeee..eeeeeeeeeeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3pgs B   1 AGGQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFDDSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAFHHHHH 426
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420
   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  (0, 0)

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

(-) 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 2r8a 3dwn 3pf1 3pgr 3pgu

(-) Related Entries Specified in the PDB File

1t16 WILD-TYPE ECFADL, ALTERNATIVE N-TERMINAL CONFORMATION
1t1l WILD-TYPE ECFADL, ALTERNATIVE N-TERMINAL CONFORMATION