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(-) Description

Title :  CRYSTAL STRUCTURE OF CALO1, METHYLTRANSFERASE IN CALICHEAMICIN BIOSYNTHESIS, SAH BOUND FORM
 
Authors :  A. Chang, S. Singh, C. A. Bingman, J. S. Thorson, G. N. Phillips Jr. , Cen Eukaryotic Structural Genomics (Cesg)
Date :  12 Feb 10  (Deposition) - 02 Mar 10  (Release) - 16 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Calicheamicin, Methyltransferase, Calo1, Enediyne, Sah, Structural Genomics, Psi-2, Protein Structure Initiative, Center For Eukaryotic Structural Genomics, Cesg, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Chang, S. Singh, C. A. Bingman, J. S. Thorson, G. N. Phillips
Structural Characterization Of Calo1: A Putative Orsellinic Acid Methyltransferase In The Calicheamicin-Biosynthetic Pathway.
Acta Crystallogr. , Sect. D V. 67 197 2011
PubMed-ID: 21358050  |  Reference-DOI: 10.1107/S090744491100360X

(-) Compounds

Molecule 1 - CALO1 METHYLTRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET16B
    Expression System Strain: B834 P(RARE2)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CALO1
    Organism Common: MICROMONOSPORA PURPUREA
    Organism Scientific: MICROMONOSPORA ECHINOSPORA
    Organism Taxid: 1877

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 26)

Asymmetric Unit (3, 26)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2MSE22Mod. Amino AcidSELENOMETHIONINE
3SAH2Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE
Biological Unit 1 (3, 26)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2MSE22Mod. Amino AcidSELENOMETHIONINE
3SAH2Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE
Biological Unit 2 (3, 26)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2MSE22Mod. Amino AcidSELENOMETHIONINE
3SAH2Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:166 , GLY A:189 , GLY A:190 , ASP A:212 , ARG A:213 , VAL A:216 , ASP A:237 , PHE A:238 , LYS A:251 , ARG A:252 , ILE A:253 , TRP A:257 , HOH A:359 , HOH A:390BINDING SITE FOR RESIDUE SAH A 346
2AC2SOFTWAREGLU A:26 , TYR A:32 , ARG A:79 , HOH A:381BINDING SITE FOR RESIDUE EDO A 347
3AC3SOFTWAREGLY B:189 , ASP B:212 , ARG B:213 , VAL B:216 , GLY B:236 , ASP B:237 , PHE B:238 , LYS B:251 , ARG B:252 , ILE B:253 , TRP B:257 , HOH B:354BINDING SITE FOR RESIDUE SAH B 346
4AC4SOFTWAREGLU B:26 , GLY B:29 , TYR B:32 , ARG B:79BINDING SITE FOR RESIDUE EDO B 347

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LST)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Thr A:62 -Gly A:63
2Phe B:140 -Gly B:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LST)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3LST)

(-) Exons   (0, 0)

(no "Exon" information available for 3LST)

(-) 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:333
 aligned with Q8KNE5_MICEC | Q8KNE5 from UniProtKB/TrEMBL  Length:345

    Alignment length:333
                                    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       302       312       322       332       342   
         Q8KNE5_MICEC    13 DMDRLQSALALYEEAMGYTYAAALRAAAAVGVADHLVDGPRTPAELAAATGTDADALRRVLRLLAVRDVVRESDGRFALTDKGAALRSDSPVPARAGILMFTDTMFWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGMETVSAAEHLILARAGDFPATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAGRWKVVEGDFLREVPHADVHVLKRILHNWGDEDSVRILTNCRRVMPAHGRVLVIDAVVPEGNDAHQSKEMDFMMLAARTGQERTAAELEPLFTAAGLRLDRVVGTSSVMSIAVGVPA 345
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhh..eeee..eeee...hhhhh......hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh.hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeee....hhhhhhhhhhh..eeeeeeehhhhhh.....hhhhh..eeeee...........eeeee.hhhhhhhhhhhhhhhhhhhh.....eeeeee.........hhhhhhhhhhhhh......hhhhhhhhhhhh.eeeeeeee.....eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lst A  13 DmDRLQSALALYEEAmGYTYAAALRAAAAVGVADHLVDGPRTPAELAAATGTDADALRRVLRLLAVRDVVRESDGRFALTDKGAALRSDSPVPARAGILmFTDTmFWTmSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGmETVSAAEHLILARAGDFPATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAGRWKVVEGDFLREVPHADVHVLKRILHNWGDEDSVRILTNCRRVmPAHGRVLVIDAVVPEGNDAHQSKEmDFmmLAARTGQERTAAELEPLFTAAGLRLDRVVGTSSVmSIAVGVPA 345
                             |      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     | 302       312       322       332    |  342   
                             |            28-MSE                                                                             112-MSE|   |                                      162-MSE                                                                                                        273-MSE                  298-MSE                                337-MSE    
                            14-MSE                                                                                                117-MSE                                                                                                                                                                                 301-MSE                                        
                                                                                                                                      121-MSE                                                                                                                                                                              302-MSE                                       


Chain B from PDB  Type:PROTEIN  Length:333
 aligned with Q8KNE5_MICEC | Q8KNE5 from UniProtKB/TrEMBL  Length:345

    Alignment length:333
                                    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       302       312       322       332       342   
         Q8KNE5_MICEC    13 DMDRLQSALALYEEAMGYTYAAALRAAAAVGVADHLVDGPRTPAELAAATGTDADALRRVLRLLAVRDVVRESDGRFALTDKGAALRSDSPVPARAGILMFTDTMFWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGMETVSAAEHLILARAGDFPATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAGRWKVVEGDFLREVPHADVHVLKRILHNWGDEDSVRILTNCRRVMPAHGRVLVIDAVVPEGNDAHQSKEMDFMMLAARTGQERTAAELEPLFTAAGLRLDRVVGTSSVMSIAVGVPA 345
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---------------------------------------------------------------------Methyltransf_2-3lstB01 B:82-321                                                                                                                                                                                                                 ------------------------ Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------Methyltransf_2-3lstB02 B:82-321                                                                                                                                                                                                                 ------------------------ Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.hhhhhhhhhhhhhhh..eeee..eeee...hhhhh......hhhhhhhhhhhhhhhhhhh.hhhhh....hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh...eeeeeehhhhhh.....hhhhh..eeeee...........eeeee.hhhhhhhhhhhhhhhhhhhh.....eeeeee.........hhhhhhhhhhhhhh.....hhhhhhhhhhhh.eeeeeee......eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lst B  13 DmDRLQSALALYEEAmGYTYAAALRAAAAVGVADHLVDGPRTPAELAAATGTDADALRRVLRLLAVRDVVRESDGRFALTDKGAALRSDSPVPARAGILmFTDTmFWTmSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGmETVSAAEHLILARAGDFPATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAGRWKVVEGDFLREVPHADVHVLKRILHNWGDEDSVRILTNCRRVmPAHGRVLVIDAVVPEGNDAHQSKEmDFmmLAARTGQERTAAELEPLFTAAGLRLDRVVGTSSVmSIAVGVPA 345
                             |      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     | 302       312       322       332    |  342   
                            14-MSE        28-MSE                                                                             112-MSE|   |                                      162-MSE                                                                                                        273-MSE                  298-MSE                                337-MSE    
                                                                                                                                  117-MSE                                                                                                                                                                                 301-MSE                                        
                                                                                                                                      121-MSE                                                                                                                                                                              302-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (0, 0)

(no "SCOP Domain" information available for 3LST)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3LST)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q8KNE5_MICEC | Q8KNE5)
molecular function
    GO:0008171    O-methyltransferase activity    Catalysis of the transfer of a methyl group to the oxygen atom of an acceptor molecule.
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
biological process
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.

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