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(-) Description

Title :  CRYSTAL STRUCTURE OF A TRAP PERIPLASMIC SOLUTE BINDING PROTEIN FROM COLWELLIA PSYCHRERYTHRAEA (CPS_0129, TARGET EFI-510097) WITH BOUND CALCIUM AND PYRUVATE
 
Authors :  M. W. Vetting, N. F. Al Obaidi, L. L. Morisco, S. R. Wasserman, M. Stead, J. D. Attonito, A. Scott Glenn, S. Chowdhury, B. Evans, B. Hillerich, R. D. Seidel, K. L. Whalen, J. A. Gerlt, S. C. Almo, Enzyme Function In (Efi)
Date :  24 Apr 14  (Deposition) - 14 May 14  (Release) - 26 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Trap Periplasmic Solute Binding Family, Enzyme Function Initiative, Efi, Structural Genomics, Solute-Binding 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 - EXTRACELLULAR SOLUTE-BINDING PROTEIN, FAMILY 7
    Chains: A, B
    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: CPS_0129
    Organism Scientific: COLWELLIA PSYCHRERYTHRAEA
    Organism Taxid: 167879
    Strain: 34H / ATCC BAA-681

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 43)

Asymmetric/Biological Unit (4, 43)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2CL1Ligand/IonCHLORIDE ION
3MSE38Mod. Amino AcidSELENOMETHIONINE
4PYR2Ligand/IonPYRUVIC ACID

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:107 , ASN A:109 , GLN A:144binding site for residue CL A 401
2AC2SOFTWAREPHE A:49 , TYR A:101 , TYR A:102 , GLN A:158 , ARG A:179 , PRO A:181 , GLU A:216 , TRP A:217 , GLU A:241 , CA A:403binding site for residue PYR A 402
3AC3SOFTWAREGLN A:158 , GLU A:216 , TRP A:217 , GLU A:241 , PYR A:402binding site for residue CA A 403
4AC4SOFTWARETYR B:101 , TYR B:102 , GLN B:158 , ARG B:179 , PRO B:181 , GLU B:216 , TRP B:217 , GLU B:241 , CA B:402binding site for residue PYR B 401
5AC5SOFTWAREGLN B:158 , GLU B:216 , TRP B:217 , GLU B:241 , PYR B:401binding site for residue CA B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4PET)

(-) 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:329
                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee.......hhhhhhhhhhhhhhhhh...eeeeeehhhhhh...hhhhhhhh....eeeehhhhhh..hhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee......eee.....hhhhhh..eee.hhhhhhhhhhh..eee..hhhhhhhhhhh....ee...........hhhhh..eee........eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pet A  31 DKKYRWKLAETWGPNFPIFGDATKNmAKmVKEmSNGRLTIRIDSSNKHKSALGIFDFVKSGQYQmGHSASYYWKGKNFNTmFFTTVPFGmIASEQHAWFYYGGGmELmKKVYDQYGImSFPGGNTGNQmGGWFKKEINSVEDLKGLKmRIPGFAGEVLAKLGAKPTNIPSGELYTALERNTIDALEWVGPSLDLRmGFHKIAPYYYTGWHEPGTELQFmVNQKAYNSLPKDLQKILTVAmKAAAYDmYSQSmHASGVNLASLKKDYPNVQmRSFPKPVmEAIVQANDELLEEFAAKDPmTAEILKSLNDYKHQIRAWTNLSDRAYLDNF 359
                                    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         
                                                    56-MSE  |                              95-MSE         111-MSE  120-MSE        135-MSE      148-MSE    159-MSE            178-MSE                                         226-MSE                249-MSE              270-MSE  |    |                301-MSE 309-MSE             329-MSE                          
                                                       59-MSE                                                                        138-MSE                                                                                                                                    277-MSE|                                                                             
                                                           63-MSE                                                                                                                                                                                                                    282-MSE                                                                         


Chain B from PDB  Type:PROTEIN  Length:328
                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.......hhhhhhhhhhhhhhhhh...eeeeeehhhhhh...hhhhhhhhh...eeeehhhhhh..hhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee......eee.....hhhhhh..eee.hhhhhhhhhhh..ee......hhhhhhhh....ee...hhhhhh..hhhhhh.eee........eeeeeeehhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pet B  32 KKYRWKLAETWGPNFPIFGDATKNmAKmVKEmSNGRLTIRIDSSNKHKSALGIFDFVKSGQYQmGHSASYYWKGKNFNTmFFTTVPFGmIASEQHAWFYYGGGmELmKKVYDQYGImSFPGGNTGNQmGGWFKKEINSVEDLKGLKmRIPGFAGEVLAKLGAKPTNIPSGELYTALERNTIDALEWVGPSLDLRmGFHKIAPYYYTGWHEPGTELQFmVNQKAYNSLPKDLQKILTVAmKAAAYDmYSQSmHASGVNLASLKKDYPNVQmRSFPKPVmEAIVQANDELLEEFAAKDPmTAEILKSLNDYKHQIRAWTNLSDRAYLDNF 359
                                    41        51    |  |61 |      71        81        91   |   101       111       121       131   |  |141      |151       161       171      |181       191       201       211       221    |  231       241       251       261       271     | 281|      291       301       311       321       331       341       351        
                                                   56-MSE  |                              95-MSE         111-MSE  120-MSE        135-MSE      148-MSE    159-MSE            178-MSE                                         226-MSE                249-MSE              270-MSE  |    |                301-MSE 309-MSE             329-MSE                          
                                                      59-MSE                                                                        138-MSE                                                                                                                                    277-MSE|                                                                             
                                                          63-MSE                                                                                                                                                                                                                    282-MSE
   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 4PET)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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