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(-) Description

Title :  CRYSTAL STRUCTURE OF THE RALSTONIA PICKETTII TOLUENE TRANSPORTER TBUX
 
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. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
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 - TBUX
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PBAD22
    Expression System Strain: C43(DE3)
    Expression System Vector Type: PLASMID
    Fragment: SEQUENCE DATABASE RESIDUES 26-458
    Gene: TBUX
    Organism Scientific: RALSTONIA PICKETTII
    Strain: PKO1

 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, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1C8E2Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1C8E1Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1C8E1Ligand/Ion(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE B:4 , ILE B:202 , MET B:311 , LEU B:326 , LEU B:328 , TYR B:332BINDING SITE FOR RESIDUE C8E B 501
2AC2SOFTWAREILE A:202 , PHE A:275 , MET A:311 , LEU A:326 , LEU A:328 , TYR A:332BINDING SITE FOR RESIDUE C8E A 502

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3BRY)

(-) 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:389
 aligned with Q9RBW8_RALPI | Q9RBW8 from UniProtKB/TrEMBL  Length:458

    Alignment length:434
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          458 
                                    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       455  | 
         Q9RBW8_RALPI    26 VFNLEGFGPVSRAMGGTGAAFDIGPAAMMENPATLGLMGEGRHFSLGLDVVSTDIKVTNTATGETASSGNHGNNNGPYFAPQTAFVYRQGRYAFGAGIFAEGGLGTQYGGSSFLSRTSNGVDTGLDQFSRLLVLRVPFSAAYHVTDKLTVGASVDAVWTSLNLGTLLDVSQIGTLAGQGRVSGTLVPTLLGVPGLSGGYIDFSRNAPVGGGVQAWGIGGRLGLTYQVTPDTRIGAAYQAKTHVGDLTGQATLSAVSSVAGNIPLKGDVTVRNFQMPAQLTVGISHQFNDQLSVSADYQRVFWSSVMKDMNVGFVQSGSAANLDLSLPQNYRDISVFGIGAEYRYNAKWTFRGGFHYAQEAIPGNMLLAVVPATPTTSLTGGVSYAIGKNDVIDFALSVALRKTLDNASQPNTAVPISVTHSQVNAVIAYQKRF-   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bryA00 A:3-436 Outer membrane protein transport protein (      OMPP1/FadL/TodX)                                                                                                                                                                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhh.........hhhhhhhhhhhh.....eeeeeeeeeeeeeeeee.------.............eeeeeeeeeeee..eeeeeeeeee....ee....................eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeeee..............................eeee..-------.eeeeeeeeeeeeeeeee..eeeeeeee.......eeeee.....----......eeeeee......eeeeeeeee....eeeeeeeeee.hhhh..eeeeee...........eee.....eeeeeeeeeeeee..eeeeeeeeeee.---------------.eeeeeeeeee....eeeeeeeeee....-------------.eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bry A   3 VFNLEGFGPVSRAMGGTGAAFDIGPAAMMENPATLGLMGEGRHFSLGLDVVSTDIKVT------TASSGNHGNNNGPYFAPQTAFVYRQGRYAFGAGIFAEGGLGTQYGGSSFLSRTSNGVDTGLDQFSRLLVLRVPFSAAYHVTDKLTVGASVDAVWTSLNLGTLLDVSQIGTLAGQGRVSGTLVPTLLGVPGLSGGYIDFS-------GVQAWGIGGRLGLTYQVTPDTRIGAAYQAKTHVGDLTGQATLSAV----GNIPLKGDVTVRNFQMPAQLTVGISHQFNDQLSVSADYQRVFWSSVMKDMNVGFVQSGSAANLDLSLPQNYRDISVFGIGAEYRYNAKWTFRGGFHYAQE---------------TTSLTGGVSYAIGKNDVIDFALSVALRKT-------------SVTHSQVNAVIAYQKRFH 436
                                    12        22        32        42        52       | -    |   72        82        92       102       112       122       132       142       152       162       172       182       192       202  |      -|      222       232       242       252    |  262       272       282       292       302       312       322       332       342       352        |-         -    |  382       392       402  |      -      |422       432    
                                                                                    60     67                                                                                                                                       205     213                                         257  262                                                                                                361             377                         405           419                 


Chain B from PDB  Type:PROTEIN  Length:389
 aligned with Q9RBW8_RALPI | Q9RBW8 from UniProtKB/TrEMBL  Length:458

    Alignment length:434
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          458 
                                    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       455  | 
         Q9RBW8_RALPI    26 VFNLEGFGPVSRAMGGTGAAFDIGPAAMMENPATLGLMGEGRHFSLGLDVVSTDIKVTNTATGETASSGNHGNNNGPYFAPQTAFVYRQGRYAFGAGIFAEGGLGTQYGGSSFLSRTSNGVDTGLDQFSRLLVLRVPFSAAYHVTDKLTVGASVDAVWTSLNLGTLLDVSQIGTLAGQGRVSGTLVPTLLGVPGLSGGYIDFSRNAPVGGGVQAWGIGGRLGLTYQVTPDTRIGAAYQAKTHVGDLTGQATLSAVSSVAGNIPLKGDVTVRNFQMPAQLTVGISHQFNDQLSVSADYQRVFWSSVMKDMNVGFVQSGSAANLDLSLPQNYRDISVFGIGAEYRYNAKWTFRGGFHYAQEAIPGNMLLAVVPATPTTSLTGGVSYAIGKNDVIDFALSVALRKTLDNASQPNTAVPISVTHSQVNAVIAYQKRF-   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bryB00 B:3-436 Outer membrane protein transport protein (      OMPP1/FadL/TodX)                                                                                                                                                                                                                                                                                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhh.........hhhhhhhhhhhh.....eeeeeeeeeeeeeeeee.------.............eeeeeeeeeeee..eeeeeeeeee....ee....................eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeeeee..............................eeee..-------.eeeeeeeeeeeeeeeee..eeeeeeee.......eeeee.....----......eeeeee......eeeeeeeee....eeeeeeeeee.hhhh..eeeeee...........eee.....eeeeeeeeeeeee..eeeeeeeeeee.---------------.eeeeeeeeee....eeeeeeeeee....-------------.eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bry B   3 VFNLEGFGPVSRAMGGTGAAFDIGPAAMMENPATLGLMGEGRHFSLGLDVVSTDIKVT------TASSGNHGNNNGPYFAPQTAFVYRQGRYAFGAGIFAEGGLGTQYGGSSFLSRTSNGVDTGLDQFSRLLVLRVPFSAAYHVTDKLTVGASVDAVWTSLNLGTLLDVSQIGTLAGQGRVSGTLVPTLLGVPGLSGGYIDFS-------GVQAWGIGGRLGLTYQVTPDTRIGAAYQAKTHVGDLTGQATLSAV----GNIPLKGDVTVRNFQMPAQLTVGISHQFNDQLSVSADYQRVFWSSVMKDMNVGFVQSGSAANLDLSLPQNYRDISVFGIGAEYRYNAKWTFRGGFHYAQE---------------TTSLTGGVSYAIGKNDVIDFALSVALRKT-------------SVTHSQVNAVIAYQKRFH 436
                                    12        22        32        42        52       | -    |   72        82        92       102       112       122       132       142       152       162       172       182       192       202  |      -|      222       232       242       252    |  262       272       282       292       302       312       322       332       342       352        |-         -    |  382       392       402  |      -      |422       432    
                                                                                    60     67                                                                                                                                       205     213                                         257  262                                                                                                361             377                         405           419
   Legend:   → Mismatch (orange background)
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  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 3BRY)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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3brz 3bs0