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(-) Description

Title :  CRYSTAL STRUCTURE OF THE NOVEL PHENAZINE PRENYLTRANSFERASE EPZP IN COMPLEX WITH S-THIOLODIPHOSPHATE (METHYLATED)
 
Authors :  G. Zocher, T. Stehle
Date :  28 Mar 12  (Deposition) - 14 Nov 12  (Release) - 14 Nov 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.67
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Pt Fold, Dihydrophenazine Carboxylate Prenyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Zocher, O. Saleh, J. B. Heim, D. A. Herbst, L. Heide, T. Stehle
Structure-Based Engineering Increased The Catalytic Turnove Rate Of A Novel Phenazine Prenyltransferase.
Plos One V. 7 48427 2012
PubMed-ID: 23119011  |  Reference-DOI: 10.1371/JOURNAL.PONE.0048427

(-) Compounds

Molecule 1 - PRENYLTRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: ROSETTA 2
    Expression System Taxid: 562
    Gene: EPZP
    Organism Scientific: STREPTOMYCES CINNAMONENSIS
    Organism Taxid: 1900

 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  (5, 22)

Asymmetric Unit (5, 22)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2MLY10Mod. Amino AcidN-DIMETHYL-LYSINE
3PG44Ligand/IonTETRAETHYLENE GLYCOL
4PIS1Ligand/IonTRIHYDROGEN THIODIPHOSPHATE
5SO46Ligand/IonSULFATE ION
Biological Unit 1 (4, 10)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MLY5Mod. Amino AcidN-DIMETHYL-LYSINE
3PG42Ligand/IonTETRAETHYLENE GLYCOL
4PIS1Ligand/IonTRIHYDROGEN THIODIPHOSPHATE
5SO42Ligand/IonSULFATE ION
Biological Unit 2 (3, 11)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MLY5Mod. Amino AcidN-DIMETHYL-LYSINE
3PG42Ligand/IonTETRAETHYLENE GLYCOL
4PIS-1Ligand/IonTRIHYDROGEN THIODIPHOSPHATE
5SO44Ligand/IonSULFATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:49 , LYS A:117 , TRP A:119 , ASN A:172 , TYR A:174 , TYR A:220 , ARG A:232 , MLY A:283 , HOH A:578 , HOH A:595 , HOH A:601BINDING SITE FOR RESIDUE PIS A 401
02AC2SOFTWARETHR A:64 , TRP A:119 , THR A:161 , TYR A:174 , PG4 A:403BINDING SITE FOR RESIDUE PG4 A 402
03AC3SOFTWARETHR A:64 , GLY A:266 , ARG A:267 , ASN A:268 , TYR A:287 , TRP A:290 , PG4 A:402 , HOH A:743BINDING SITE FOR RESIDUE PG4 A 403
04AC4SOFTWARETHR A:85 , ASP A:86 , ARG A:169 , THR A:276 , LYS A:278 , TYR A:281 , HOH A:584 , HOH A:650 , HOH A:706BINDING SITE FOR RESIDUE SO4 A 404
05AC5SOFTWAREMLY A:68 , GLY A:69 , LEU A:70 , ASP A:71 , HIS A:97 , HOH A:717BINDING SITE FOR RESIDUE SO4 A 405
06AC6SOFTWAREPRO A:184 , ALA A:185 , PRO B:184 , ALA B:185 , HOH B:505 , HOH B:536 , HOH B:620BINDING SITE FOR RESIDUE CL A 406
07AC7SOFTWAREARG B:267 , ASN B:268 , TYR B:287 , TRP B:290 , PG4 B:402 , HOH B:642BINDING SITE FOR RESIDUE PG4 B 401
08AC8SOFTWAREARG B:62 , THR B:64 , THR B:161 , TYR B:287 , PG4 B:401 , HOH B:750BINDING SITE FOR RESIDUE PG4 B 402
09AC9SOFTWAREMLY B:68 , GLY B:69 , LEU B:70 , ASP B:71 , HIS B:97 , HOH B:533 , HOH B:723BINDING SITE FOR RESIDUE SO4 B 403
10BC1SOFTWAREARG B:75 , HOH B:515 , HOH B:532 , HOH B:547 , HOH B:755BINDING SITE FOR RESIDUE SO4 B 404
11BC2SOFTWARETHR B:85 , ASP B:86 , ARG B:169 , THR B:276 , LYS B:278 , TYR B:281 , HOH B:784 , HOH B:803BINDING SITE FOR RESIDUE SO4 B 405
12BC3SOFTWARESER B:131 , ARG B:147 , HOH B:605 , HOH B:681BINDING SITE FOR RESIDUE SO4 B 406

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4EE7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4EE7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4EE7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4EE7)

(-) Exons   (0, 0)

(no "Exon" information available for 4EE7)

(-) 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:290
                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4ee7a_ A: automated matches                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh..eeeeeee.hhhhhh.eeeeeeee...hhhhhhhhh........hhhhhhhhhhhhh.eeeeeeeee...eeeeeeeee......hhhhhh......hhhhhhhhhhhhh.....eeeeeee....eeeeee........hhhhhhhhhhhhhhhhh.....hhhhhhhhh...eeeeeee.......eeeeeeee.hhhhh....hhhhhhhhhhh........eeeeeee....eeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ee7 A   3 ESADLTELYSIIEkTAQVVDVTASHDKVWPILNAFQDVIADSVISFRASTGSSADDLDCRFTMLPkGLDPYARALEHGLTPkTDHPVGSLLKEVHENLPITSCGVDFGVAGGFTKTWSFPSAEkLGKVSELVKLPSIPDAVAANRDFFEKWGIADMVSTVGIDYSKRTMNLYFGGGVGDRVPAGVFEEKGVRAILGELGLAAPSEELLKFCERSFVIYVTLSWDSPKINRFTYSVMTPEPLGLPVDLAPTFERLIKSAPYDTEGRNYVYGIASTPKGEYHkIASYYQWQK 292
                                    12   |    22        32        42        52        62     |  72        82 |      92       102       112       122   |   132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282|      292
                                        16-MLY                                              68-MLY          84-MLY                                   126-MLY                                                                                                                                                      283-MLY     


Chain B from PDB  Type:PROTEIN  Length:288
                                                                                                                                                                                                                                                                                                                                
               SCOP domains d4ee7b_ B: automated matches                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh..eeeeeee.hhhhhh.eeeeeeee...hhhhhhhhh........hhhhhhhhhhhhh.eeeeeeeee...eeeeeeeee......hhhhhh.....hhhhhhhhhhhhhh.....eeeeeee....eeeeee........hhhhhhhhhhhhhhhhh.....hhhhhhhhh...eeeeeee.......eeeeeeee.hhhhh....hhhhhhhhhhh........eeeeeee....eeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ee7 B   5 ADLTELYSIIEkTAQVVDVTASHDKVWPILNAFQDVIADSVISFRASTGSSADDLDCRFTMLPkGLDPYARALEHGLTPkTDHPVGSLLKEVHENLPITSCGVDFGVAGGFTKTWSFPSAEkLGKVSELVKLPSIPDAVAANRDFFEKWGIADMVSTVGIDYSKRTMNLYFGGGVGDRVPAGVFEEKGVRAILGELGLAAPSEELLKFCERSFVIYVTLSWDSPKINRFTYSVMTPEPLGLPVDLAPTFERLIKSAPYDTEGRNYVYGIASTPKGEYHkIASYYQWQK 292
                                    14 |      24        34        44        54        64   |    74        84        94       104       114       124 |     134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284        
                                      16-MLY                                              68-MLY          84-MLY                                   126-MLY                                                                                                                                                      283-MLY
   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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4EE7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4EE7)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)

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4ee6 4ee8