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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF SELENOMETHIONINE SUBSTITUTED ISOFLAVONE O-METHYLTRANSFERASE
 
Authors :  C. Zubieta, R. A. Dixon, J. P. Noel
Date :  31 Aug 00  (Deposition) - 07 Mar 01  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Selenomethionine, S-Adenosymethionine Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Zubieta, X. Z. He, R. A. Dixon, J. P. Noel
Structures Of Two Natural Product Methyltransferases Reveal The Basis For Substrate Specificity In Plant O-Methyltransferases.
Nat. Struct. Biol. V. 8 271 2001
PubMed-ID: 11224575  |  Reference-DOI: 10.1038/85029

(-) Compounds

Molecule 1 - ISOFLAVONE-O-METHYLTRANSFERASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: PET15B
    Expression System Vector Type: PLASMID
    Organism Scientific: MEDICAGO SATIVA
    Organism Taxid: 3879
    Synonym: IOMT

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 10)

Asymmetric Unit (2, 10)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
2SAM1Ligand/IonS-ADENOSYLMETHIONINE
Biological Unit 1 (2, 20)
No.NameCountTypeFull Name
1MSE18Mod. Amino AcidSELENOMETHIONINE
2SAM2Ligand/IonS-ADENOSYLMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMSE A:168 , GLY A:196 , ASP A:219 , ARG A:220 , ASP A:239 , MSE A:240 , PHE A:241 , LYS A:253 , TYR A:254 , ILE A:255 , HOH A:1704 , HOH A:1713 , HOH A:1717 , HOH A:1732 , HOH A:1748 , HOH A:1768 , HOH A:1769BINDING SITE FOR RESIDUE SAM A 1699

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1FPX)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1FPX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1FPX)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SAM_OMT_IIPS51683 SAM-dependent O-methyltransferase class II-type profile.7OMT8_MEDSA21-352  1A:21-352
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SAM_OMT_IIPS51683 SAM-dependent O-methyltransferase class II-type profile.7OMT8_MEDSA21-352  2A:21-352

(-) Exons   (0, 0)

(no "Exon" information available for 1FPX)

(-) 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:345
 aligned with 7OMT8_MEDSA | O24529 from UniProtKB/Swiss-Prot  Length:352

    Alignment length:345
                                    17        27        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       347     
          7OMT8_MEDSA     8 RKPSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPISLSNLVSILQVPSSKIGNVRRLMRYLAHNGFFEIITKEEESYALTVASELLVRGSDLCLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSKLINLALRDCDFVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDMFTSIPNADAVLLKYILHNWTDKDCLRILKKCKEAVTNDGKRGKVTIIDMVIDKKKDENQVTQIKLLMDVNMACLNGKERNEEEWKKLFIEAGFQHYKISPLTGFLSLIEIYP 352
               SCOP domains d1fpxa1 A:8-108 Isoflavone O-methyltransferase                                                       d1fpxa2 A:109-352 Isoflavone O-methyltransferase                                                                                                                                                                                                     SCOP domains
               CATH domains 1fpxA01 A:8-103 'winged helix' repressor DNA binding domain                                     1fpxA02 A:104-352 Vaccinia Virus protein VP39                                                                                                                                                                                                             CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhh.hhhhhhhhhhhhhhhhhh...eeee...eeee.hhhhhh........hhhhhhhhhhhhhhhh..hhhhhhh....hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhh...eeeeeehhhhhh.......eeeee...........eeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee.ee.....hhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhh...eeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------SAM_OMT_II  PDB: A:21-352 UniProt: 21-352                                                                                                                                                                                                                                                                                                    PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1fpx A   8 RKPSEIFKAQALLYKHIYAFIDSmSLKWAVEmNIPNIIQNHGKPISLSNLVSILQVPSSKIGNVRRLmRYLAHNGFFEIITKEEESYALTVASELLVRGSDLCLAPmVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAmASDSKLINLALRDCDFVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDmFTSIPNADAVLLKYILHNWTDKDCLRILKKCKEAVTNDGKRGKVTIIDmVIDKKKDENQVTQIKLLmDVNmACLNGKERNEEEWKKLFIEAGFQHYKISPLTGFLSLIEIYP 352
                                    17        27   |    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       347     
                                                  31-MSE  39-MSE                              75-MSE                                114-MSE                                               168-MSE                                                                 240-MSE                                          289-MSE           307-MSE                                         
                                                                                                                                                                                                                                                                                                                                         311-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  (2, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1FPX)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A   (7OMT8_MEDSA | O24529)
molecular function
    GO:0008171    O-methyltransferase activity    Catalysis of the transfer of a methyl group to the oxygen atom of an acceptor molecule.
    GO:0033800    isoflavone 7-O-methyltransferase activity    Catalysis of the reaction: S-adenosyl-L-methionine + a 7-hydroxyisoflavone = S-adenosyl-L-homocysteine + a 7-methoxyisoflavone.
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    GO:0046983    protein dimerization activity    The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        7OMT8_MEDSA | O24529: 1fp2

(-) Related Entries Specified in the PDB File

1fp1 CRYSTAL STRUCTURE ANALYSIS OF CHALCONE O-METHYLTRANSFERASE
1fp2 CRYSTAL STRUCTURE ANALYSIS OF ISOFLAVONE O-METHYLTRANSFERASE
1fpq CRYSTAL STRUCTURE ANALYSIS OF SELENOMETHIONINE SUBSTITUTED CHALCONE O-METHYLTRANSFERASE