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(-) Description

Title :  CLAVULANIC ACID BIOSYNTHESIS OLIGOPEPTIDE BINDING PROTEIN 2 COMPLEXED WITH ARGININE
 
Authors :  A. K. Mackenzie, K. Valegard, A. Iqbal, M. E. C. Caines, N. J. Kershaw, S. E. Jensen, C. J. Schofield, I. Andersson
Date :  27 Jul 09  (Deposition) - 08 Dec 09  (Release) - 09 Feb 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Peptide Binding Protein, Peptide Binding Protein-Peptide Complex, Solute-Binding Protein, Clavulanic Acid Biosynthesis, Oligopeptide Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. K. Mackenzie, K. Valegard, A. Iqbal, M. E. C. Caines, N. J. Kershaw, S. E. Jensen, C. J. Schofield, I. Andersson
Crystal Structures Of An Oligopeptide-Binding Protein From The Biosynthetic Pathway Of The Beta- Lactamase Inhibitor Clavulanic Acid.
J. Mol. Biol. V. 396 332 2010
PubMed-ID: 19941870  |  Reference-DOI: 10.1016/J.JMB.2009.11.045

(-) Compounds

Molecule 1 - CLAVULANIC ACID BIOSYNTHESIS OLIGOPEPTIDE BINDING PROTEIN 2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET 28A
    Organism Scientific: STREPTOMYCES CLAVULIGERUS
    Organism Taxid: 1901
    Synonym: ORF15

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2ARG1Mod. Amino AcidARGININE
3GOL1Ligand/IonGLYCEROL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:52 , VAL A:54 , TRP A:57 , TRP A:453 , GLY A:454 , ALA A:455 , ASP A:456 , TRP A:480 , GOL A:564 , ACT A:565 , HOH A:2434 , HOH A:2519BINDING SITE FOR RESIDUE ARG A 563
2AC2SOFTWARETRP A:57 , TYR A:70 , ALA A:455 , ASP A:456 , PRO A:458 , ALA A:547 , PHE A:548 , ARG A:563 , HOH A:2222 , HOH A:2520BINDING SITE FOR RESIDUE GOL A 564
3AC3SOFTWAREASP A:452 , ARG A:563BINDING SITE FOR RESIDUE ACT A 565

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Pro A:314 -Pro A:315

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2WOP)

(-) 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:555
 aligned with Q8KRB4_STRCL | Q8KRB4 from UniProtKB/TrEMBL  Length:562

    Alignment length:557
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     562 
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556     | 
         Q8KRB4_STRCL     7 RPAPTTAGAGWDAGVGALVNPSRRRGGTLRLVSSADVDSLDPARTYYVWVWLLQRLLNRTLMAYPTDPGPAGLVPAPDLAEGPGEVSDGGRTWTYRLRRGLRYDDGTPITSDDVRHAVQRVFAQDVLPGGPTYLIPLLDDPERPYPGPYRTDEPLRSVLTPDEHTIVFRLTRPFSDFDHLMAQPCAAPVPRRSDTGADYGRDPRSSGPYRVARHEPDTLLHLERNPHWDRATDPIRPALPDRVELTIGLDVDVLDARLIAGEFDINLEGRGLQHAAQRRATADEVLRSHTDNPRTSFLHFVAMQPHIPPFDNVHVRRAVQYAADKILLQDARGGPVNGGDLTTALFPPTLPAHQDLDLYPTGPDLRGDLDAARAELAAAGLPDGFRAVIGTQRGKFRLVADAVVESLARVGIELTVKELDVATYFSLGAGHPETVREHGLGLLVTDWGADFPTEYGFLAPLVDGRQIKRNGGNWNLPELDDPEVNALIDETLHTTDPAARAELWRAVERRVMEHAVLLPLVHDKTLHFRNPWVTNVYVHPAFGLYDIQAMGLAEED-   -
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------SBP_bac_5-2wopA01 A:80-475                                                                                                                                                                                                                                                                                                                                                                                  ---------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh......................eeee..............hhhhhhhhhhhh...ee............ee........ee....eeeee.............hhhhhhhhhhhhh..........hhhhhhh..................eeeee..eeeee......hhhhhhhhhhhh..hhhhh..............eeeeeee...eeeeee....hhhhh........eeeee...hhhhhhhhhhh....ee......hhhhhhhhhhhhhhhh.ee..eeeeeeeee.........hhhhhhhhhhh.hhhhhhhhh...................................hhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhh...eeee..............hhhhhhhh....eeeee..........hhhhhh.................hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.eeeeeeee..ee.................hhhhh....--. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wop A   7 RPAPTTAGAGWDAGVGALVNPSRRRGGTLRLVSSADVDSLDPARTYYVWVWLLQRLLNRTLMAYPTDPGPAGLVPAPDLAEGPGEVSDGGRTWTYRLRRGLRYDDGTPITSDDVRHAVQRVFAQDVLPGGPTYLIPLLDDPERPYPGPYRTDEPLRSVLTPDEHTIVFRLTRPFSDFDHLMAQPCAAPVPRRSDTGADYGRDPRSSGPYRVARHEPDTLLHLERNPHWDRATDPIRPALPDRVELTIGLDVDVLDARLIAGEFDINLEGRGLQHAAQRRATADEVLRSHTDNPRTSFLHFVAMQPHIPPFDNVHVRRAVQYAADKILLQDARGGPVNGGDLTTALFPPTLPAHQDLDLYPTGPDLRGDLDAARAELAAAGLPDGFRAVIGTQRGKFRLVADAVVESLARVGIELTVKELDVATYFSLGAGHPETVREHGLGLLVTDWGADFPTEYGFLAPLVDGRQIKRNGGNWNLPELDDPEVNALIDETLHTTDPAARAELWRAVERRVMEHAVLLPLVHDKTLHFRNPWVTNVYVHPAFGLYDIQAMGLAE--R 563
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556   |  |
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   560  |
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      563
   Legend:   → Mismatch (orange background)
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  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 2WOP)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2WOP)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: PBP (391)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q8KRB4_STRCL | Q8KRB4)
biological process
    GO:0033050    clavulanic acid biosynthetic process    The chemical reactions and pathways resulting in the formation of clavulanic acid, (2R,3Z,5R)-3-(2-hydroxyethylidene)-7-oxo-4-oxa-1-azabicyclo[3.2.0]heptane-2-carboxylic acid.
    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
cellular component
    GO:0043190    ATP-binding cassette (ABC) transporter complex    A complex for the transport of metabolites into and out of the cell, typically comprised of four domains; two membrane-associated domains and two ATP-binding domains at the intracellular face of the membrane, that form a central pore through the plasma membrane. Each of the four core domains may be encoded as a separate polypeptide or the domains can be fused in any one of a number of ways into multidomain polypeptides. In Bacteria and Archaebacteria, ABC transporters also include substrate binding proteins to bind substrate external to the cytoplasm and deliver it to the transporter.

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 Related Entries

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        Q8KRB4_STRCL | Q8KRB4: 2wok 2wol

(-) Related Entries Specified in the PDB File

2wok CLAVULANIC ACID BIOSYNTHESIS OLIGOPEPTIDE PERMEASE-LIKE BINDING PROTEIN 2 COMPLEXED WITH BRADYKININ
2wol CLAVULANIC ACID BIOSYNTHESIS OLIGOPEPTIDE PERMEASE-LIKE BINDING PROTEIN 2