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(-) Description

Title :  CRYSTAL STRUCTURE OF A TRAP PERIPLASMIC SOLUTE BINDING PROTEIN FROM ANAEROCOCCUS PREVOTII DSM 20548 (APRE_1383), TARGET EFI-510023, WITH BOUND ALPHA/BETA D-GLUCURONATE
 
Authors :  M. W. Vetting, N. F. Al Obaidi, L. L. Morisco, S. R. Wasserman, S. Sojitr M. Stead, J. D. Attonito, A. Scott Glenn, S. Chowdhury, B. Evans, B. Hi J. Love, R. D. Seidel, H. J. Imker, J. A. Gerlt, S. C. Almo, Enzyme Funct Initiative (Efi)
Date :  18 Oct 13  (Deposition) - 13 Nov 13  (Release) - 25 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
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: APRE_1383
    Organism Common: PEPTOSTREPTOCOCCUS PREVOTII
    Organism Scientific: ANAEROCOCCUS PREVOTI
    Organism Taxid: 525919
    Strain: DSM 20548

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 13)

Asymmetric Unit (5, 13)
No.NameCountTypeFull Name
1BDP1Ligand/IonBETA-D-GLUCOPYRANURONIC ACID
2CL1Ligand/IonCHLORIDE ION
3GCU1Ligand/IonD-GLUCURONIC ACID
4MSE9Mod. Amino AcidSELENOMETHIONINE
5PG41Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 1 (4, 12)
No.NameCountTypeFull Name
1BDP1Ligand/IonBETA-D-GLUCOPYRANURONIC ACID
2CL-1Ligand/IonCHLORIDE ION
3GCU1Ligand/IonD-GLUCURONIC ACID
4MSE9Mod. Amino AcidSELENOMETHIONINE
5PG41Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 2 (4, 24)
No.NameCountTypeFull Name
1BDP2Ligand/IonBETA-D-GLUCOPYRANURONIC ACID
2CL-1Ligand/IonCHLORIDE ION
3GCU2Ligand/IonD-GLUCURONIC ACID
4MSE18Mod. Amino AcidSELENOMETHIONINE
5PG42Ligand/IonTETRAETHYLENE GLYCOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:38 , GLN A:39 , GLN A:77 , ALA A:151 , ARG A:154 , ARG A:175 , GLN A:177 , PHE A:198 , ASN A:215 , ASP A:242 , HOH A:506 , HOH A:513 , HOH A:518BINDING SITE FOR RESIDUE GCU A 401
2AC2SOFTWAREASN A:38 , GLN A:39 , GLN A:77 , ARG A:154 , ARG A:175 , GLN A:177 , PHE A:198 , ASN A:215 , ASN A:216 , ASP A:242 , HOH A:513 , HOH A:518 , HOH A:539BINDING SITE FOR RESIDUE BDP A 402
3AC3SOFTWAREGLN A:77 , ILE A:78 , HOH A:520BINDING SITE FOR RESIDUE CL A 403
4AC4SOFTWAREGLU A:129 , SER A:137 , LYS A:320 , PHE A:324BINDING SITE FOR RESIDUE PG4 A 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4N91)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4N91)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4N91)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4N91)

(-) Exons   (0, 0)

(no "Exon" information available for 4N91)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee......hhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhhhh....eeeeehhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh.hhhh.eeeeeee....eeeee......hhhhhh..eeee..hhhhhhhhhhh..eeee.hhhhhhhhhhh....eeee.hhhhhh.hhhhh..eeeeeeee...eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee...hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4n91 A  30 KTIIRVGHNQSQNHPTHLGLLAFEEYVEDKLGDKYDIQVYPSELLGSQIDmVQLTQTGAINICVASNAILETFNDVWEIFNLPYLFASSEAYHHVmDDPEIVKPIFESTREGGFEGVTWLDAGSRSFYTKDKPVNSPEDLSGLKIRVQQSPTNVRmmDLLGSSASPmGFGEVYTALQSGIIDGAENNEmSLTDNGHGEVCKYYSYDmHQmVPDIVIANYSWLEGLPEEDRKVFDEGFKVLNEVQRKEWKVAVDKAKEKASEmGVEFIYPDQKPFVDAVAPLTKEVLERNDKLAPFYDAIQKYNEEYPA 337
                                    39        49        59        69        79|       89        99       109       119     | 129       139       149       159       169       179     ||189      |199       209       219       229      |239       249       259       269       279       289 |     299       309       319       329        
                                                                             80-MSE                                      125-MSE                                                     185-MSE    196-MSE               218-MSE           236-MSE                                                291-MSE                                          
                                                                                                                                                                                      186-MSE                                              239-MSE
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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 4N91)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4N91)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4N91)

(-) Gene Ontology  (2, 2)

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 Related Entries

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(-) Related Entries Specified in the PDB File

4n8y