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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PSEUDOMONAS PUTIDA TOLUENE TRANSPORTER TODX
 
Authors :  E. M. Hearn, D. R. Patel, B. Van Den Berg
Date :  21 Dec 07  (Deposition) - 10 Jun 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Beta Barrel, Outer Membrane Protein, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. M. Hearn, D. R. Patel, B. Van Den Berg
Outer-Membrane Transport Of Aromatic Hydrocarbons As A First Step In Biodegradation.
Proc. Natl. Acad. Sci. Usa V. 105 8601 2008
PubMed-ID: 18559855  |  Reference-DOI: 10.1073/PNAS.0801264105
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TODX
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PBAD22
    Expression System Strain: C43(DE3)
    Expression System Vector Type: PLASMID
    Fragment: SEQUENCE DATABASE RESIDUES 21-453
    Gene: TODX
    Organism Scientific: PSEUDOMONAS PUTIDA
    Strain: F1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:164 , GLN A:172 , LEU A:176BINDING SITE FOR RESIDUE C8E A 500
2AC2SOFTWAREALA A:191 , ALA A:200 , ILE A:322BINDING SITE FOR RESIDUE C8E A 501
3AC3SOFTWAREALA A:336 , TYR A:356 , GLN A:358BINDING SITE FOR RESIDUE C8E A 502
4AC4SOFTWARELEU A:50 , LEU A:394BINDING SITE FOR RESIDUE C8E A 503

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3BRZ)

(-) Sequences/Alignments

Asymmetric/Biological 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:404
 aligned with A5W4F4_PSEP1 | A5W4F4 from UniProtKB/TrEMBL  Length:453

    Alignment length:433
                                    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       430       440       450   
         A5W4F4_PSEP1    21 TQVFDLEGYGAISRAMGGTSSSYYTGNAALISNPATLSFAPDGNQFELGLDVVTTDIKVHDSHGAEAKSSTRSNNRGPYVGPQLSYVAQLDDWRFGAGLFVSSGLGTEYGSKSFLSQTENGIQTSFDNSSRLIVLRAPIGFSYQATSKLTFGASVDLVWTSLNLELLLPSSQVGALTAQGNLSGGLVPSLAGFVGTGGAAHFSLSRNSTAGGAVDAVGWGGRLGLTYKLTDNTVLGAMYNFKTSVGDLEGKATLSAISGDGAVLPLDGDIRVKNFEMPASLTLGLAHQFNERWVVAADIKRAYWGDVMDSMNVAFISQLGGIDVALPHRYQDITVASIGTAYKYNNDLTLRAGYSYAQQALDSELILPVIPAYLKRHVTFGGEYDFDKDSRINLAISFGLRERVQTPSYLAGTEMLRQSHSQINAVVSYSKNF 453
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3brzA00 A:1-433 Outer membrane protein transport protein (OM   PP1/FadL      /TodX)                                                                                                                                                                                                                                                                                                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhh........hhhhhhhh..hhhhhh....eee...ee.....eee---........------..ee...eeeeee..eeeeee.eeeeeeeee....hhh.ee...ee.....eeeeeeee..eeeeee....eeeeeeeeeeeeeeeeeeeeehhhhhhhhhh..ee.hhhhhhh..hhhh.eeeee..----.....eeeeeeeeeeeeee....eeeeeeee.......eeeeeeeeee.....eeeeeeeeeee.....eeeeeeeee......eeeeeeeeee......eeeeeee....eeeeeee.....eeeeeeeeee.....eeeeeeeeee.------............eeeeeeee........eeeeeee..eee----------..eeee..eeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3brz A   1 TQVFDLEGYGAISRAMGGTSSSYYTGNAALISNPATLSFAPDGNQFELGLDVVTTDIKVH---GAEAKSST------PYVGPQLSYVAQLDDWRFGAGLFVSSGLGTEYGSKSFLSQTENGIQTSFDNSSRLIVLRAPIGFSYQATSKLTFGASVDLVWTSLNLELLLPSSQVGALTAQGNLSGGLVPSLAGFVGTGGAAHFSLS----AGGAVDAVGWGGRLGLTYKLTDNTVLGAMYNFKTSVGDLEGKATLSAISGDGAVLPLDGDIRVKNFEMPASLTLGLAHQFNERWVVAADIKRAYWGDVMDSMNVAFISQLGGIDVALPHRYQDITVASIGTAYKYNNDLTLRAGYSYAQ------LILPVIPAYLKRHVTFGGEYDFDKDSRINLAISFGLRERV----------MLRQSHSQINAVVSYSKNF 433
                                    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       | -    |  370       380       390       400   |     -    |  420       430   
                                                                                      60  64     71     78                                                                                                                            205  210                                                                                                                                                 358    365                                    404        415                  


Chain A from PDB  Type:PROTEIN  Length:404
 aligned with Q51971_PSEPU | Q51971 from UniProtKB/TrEMBL  Length:453

    Alignment length:433
                                    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       430       440       450   
         Q51971_PSEPU    21 TQVFDLEGYGAISRAMGGTSSSYYTGNAALISNPATLSFAPDGNQFELGLDVVTTDIKVHDSHGAEPKSSTRSNNRAPYVGPQLSYVAQLDDWRFGAGLFVSSGLGTEYGSKSFLSQTENGIQTSFDNSSRLIVLRAPIGFSYQATSKLTFGASVDLVWTSLNLELLLPSSQVGALTAQGNLSGGLVPSLAGFVGTGGAAHFSLSRNSTAGGAVDAVGWGGRLGLTYKLTDNTVLGAMYNFKTSVGDLEGKATLSAISGDGAVLPLDGDIRVKNFEMPASLTLGLAHQFNERWVVAADIKRAYWGDVMDSMNVAFISQLGGIDVALPHRYQDITVASIGTAYKYNNDLTLRAGYSYAQQALDSELILPVIPAYLKRHVTFGGEYDFDKDSRINLAISFGLRERVQTPSYLAGTEMLRQSHSQINAVVSYSKNF 453
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3brzA00 A:1-433 Outer membrane protein transport protein (OM   PP1/FadL      /TodX)                                                                                                                                                                                                                                                                                                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhh........hhhhhhhh..hhhhhh....eee...ee.....eee---........------..ee...eeeeee..eeeeee.eeeeeeeee....hhh.ee...ee.....eeeeeeee..eeeeee....eeeeeeeeeeeeeeeeeeeeehhhhhhhhhh..ee.hhhhhhh..hhhh.eeeee..----.....eeeeeeeeeeeeee....eeeeeeee.......eeeeeeeeee.....eeeeeeeeeee.....eeeeeeeee......eeeeeeeeee......eeeeeee....eeeeeee.....eeeeeeeeee.....eeeeeeeeee.------............eeeeeeee........eeeeeee..eee----------..eeee..eeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3brz A   1 TQVFDLEGYGAISRAMGGTSSSYYTGNAALISNPATLSFAPDGNQFELGLDVVTTDIKVH---GAEAKSST------PYVGPQLSYVAQLDDWRFGAGLFVSSGLGTEYGSKSFLSQTENGIQTSFDNSSRLIVLRAPIGFSYQATSKLTFGASVDLVWTSLNLELLLPSSQVGALTAQGNLSGGLVPSLAGFVGTGGAAHFSLS----AGGAVDAVGWGGRLGLTYKLTDNTVLGAMYNFKTSVGDLEGKATLSAISGDGAVLPLDGDIRVKNFEMPASLTLGLAHQFNERWVVAADIKRAYWGDVMDSMNVAFISQLGGIDVALPHRYQDITVASIGTAYKYNNDLTLRAGYSYAQ------LILPVIPAYLKRHVTFGGEYDFDKDSRINLAISFGLRERV----------MLRQSHSQINAVVSYSKNF 433
                                    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       | -    |  370       380       390       400   |     -    |  420       430   
                                                                                      60  64     71     78                                                                                                                            205  210                                                                                                                                                 358    365                                    404        415
   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 3BRZ)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3BRZ)

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q51971_PSEPU | Q51971: 3bs0
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(-) Related Entries Specified in the PDB File

3bry 3bs0