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(-) Description

Title :  CRYSTAL STRUCTURE OF A TRAP PERIPLASMIC SOLUTE BINDING PROTEIN FROM DESULFOVIBRIO SALEXIGENS DSM2638 (DESAL_3247), TARGET EFI-510112, PHASED WITH I3C, OPEN COMPLEX, C-TERMINUS OF SYMMETRY MATE BOUND IN LIGAND BINDING SITE
 
Authors :  M. W. Vetting, N. F. Al Obaidi, M. Stead, J. D. Attonito, A. Scott Glenn S. Chowdhury, B. Evans, B. Hillerich, J. Love, R. D. Seidel, H. J. Imker J. A. Gerlt, S. C. Almo, Enzyme Function Initiative (Efi)
Date :  11 Oct 13  (Deposition) - 30 Oct 13  (Release) - 25 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Trap Periplasmic Solute Binding Family, Enzyme Function Initiative, Efi, Structural Genomics, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. W. Vetting, N. Al-Obaidi, S. Zhao, B. San Francisco, J. Kim, D. J. Wichelecki, J. T. Bouvier, J. O. Solbiati, H. Vu, X. Zhang, D. A. Rodionov, J. D. Love, B. S. Hillerich, R. D. Seidel, R. J. Quinn, A. L. Osterman, J. E. Cronan, M. P. Jacobson, J. A. Gerlt, S. C. Almo
Experimental Strategies For Functional Annotation And Metabolism Discovery: Targeted Screening Of Solute Binding Proteins And Unbiased Panning Of Metabolomes.
Biochemistry V. 54 909 2015
PubMed-ID: 25540822  |  Reference-DOI: 10.1021/BI501388Y

(-) Compounds

Molecule 1 - TRAP DICARBOXYLATE TRANSPORTER-DCTP SUBUNIT
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DESAL_3247
    Organism Scientific: DESULFOVIBRIO SALEXIGENS
    Organism Taxid: 526222
    Strain: ATCC 14822 / DSM 2638 / NCIB 8403 / VKM B-1763
    Synonym: TRAP PERIPLASMIC SOLUTE BINDING PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
3I3C2Ligand/Ion5-AMINO-2,4,6-TRIIODOBENZENE-1,3-DICARBOXYLIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:60 , SER A:71 , THR A:72 , ARG A:260 , TYR A:336 , HOH A:716 , HOH A:719 , HOH A:742 , HOH A:803BINDING SITE FOR RESIDUE I3C A 401
2AC2SOFTWAREARG A:81 , ARG A:138 , LYS A:282 , ASP A:283 , LYS A:303 , HOH A:530 , HOH A:732 , HOH A:754BINDING SITE FOR RESIDUE I3C A 402
3AC3SOFTWARESER A:33 , LYS A:57 , GLN A:66 , TYR A:68BINDING SITE FOR RESIDUE CL A 403
4AC4SOFTWAREPHE A:37 , THR A:79 , CYS A:92 , SER A:94 , HIS A:98 , LEU A:343 , HOH A:620BINDING SITE FOR RESIDUE EDO A 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4N6D)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4N6D)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4N6D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4N6D)

(-) Exons   (0, 0)

(no "Exon" information available for 4N6D)

(-) 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    
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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:319
                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhhhh...eeeeee.........hhhhhhhh....eeeee.hhh.....hhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.eeeeeeee....eeee.....hhhhhh..eee.hhhhhhhhhhh..eee..hhhhhhhhhhh....eeee..hhhhhhhhhhh..eee.......eeeeeeehhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee..hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh...hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4n6d A  28 ADISLSYANFPPAKTFPCVQMERWKQEVEKRTAGKVQVQTYPGSTLLGAKNTLRGVMQGQADIGCVSLAYHPGVFPLSSVFELPLGFTSSTSASLALWDLYTKYQPKEFKRFKVLTMFASAPSNIMTKVPVRNLDDLKGLEVRASGILSKILESLGATPVSMPMSATPEALQKGVVKGLFSSFEVLKDLNFAEICRYETETNTAVYPFAIIMNMNSWNSLPDDVKKVLNDLGREQAEWTGKYMDEHVKRSLAWAKDKYSIEMIKMSDADMQAIKDKTLPLIEDWKEKAAAKGVDGAAVLSDVEELRIKYEGKAENLYFQ 346
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337
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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 4N6D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4N6D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4N6D)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

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