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(-) Description

Title :  DROSOPHILA PROTEIN ISOASPARTYL METHYLTRANSFERASE WITH S-ADENOSYL-L-HOMOCYSTEINE
 
Authors :  E. J. Bennett, J. Bjerregaard, J. E. Knapp, D. A. Chavous, A. M. Friedman W. E. Royer Jr. , C. M. O'Connor
Date :  23 Sep 03  (Deposition) - 09 Dec 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Methyltransferase, Isomerization, Protein Repair, S-Adenosyl Homocysteine, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. J. Bennett, J. Bjerregaard, J. E. Knapp, D. A. Chavous, A. M. Friedman, W. E. Royer Jr. , C. M. O'Connor
Catalytic Implications From The Drosophila Protein L-Isoaspartyl Methyltransferase Structure And Site-Directed Mutagenesis.
Biochemistry V. 42 12844 2003
PubMed-ID: 14596598  |  Reference-DOI: 10.1021/BI034891+
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN-L-ISOASPARTATE(D-ASPARTATE)-O-METHYLTRANSFERASE
    Chains: A
    EC Number: 2.1.1.77
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PGEX2-T
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PCMT
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
    Synonym: PROTEIN-BETA-ASPARTATE METHYLTRANSFERASE, PIMT, PROTEIN L- ISOASPARTYL/D-ASPARTYL METHYLTRANSFERASE, L-ISOASPARTYL PROTEIN CARBOXYL METHYLTRANSFERASE

 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  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1SAH1Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1SAH1Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1SAH2Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:58 , ILE A:59 , HIS A:65 , GLY A:86 , SER A:87 , GLY A:88 , SER A:89 , ILE A:114 , GLU A:115 , HIS A:116 , GLN A:117 , LEU A:120 , GLY A:146 , ASP A:147 , GLY A:148 , ALA A:165 , HOH A:302 , HOH A:304BINDING SITE FOR RESIDUE SAH A 300

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1R18)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:156 -Pro A:157

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1R18)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PCMTPS01279 Protein-L-isoaspartate(D-aspartate) O-methyltransferase signature.PIMT_DROME146-161  1A:146-161
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PCMTPS01279 Protein-L-isoaspartate(D-aspartate) O-methyltransferase signature.PIMT_DROME146-161  1A:146-161
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PCMTPS01279 Protein-L-isoaspartate(D-aspartate) O-methyltransferase signature.PIMT_DROME146-161  2A:146-161

(-) Exons   (0, 0)

(no "Exon" information available for 1R18)

(-) 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:223
 aligned with PIMT_DROME | Q27869 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:223
                              1                                                                                                                                                                                                                            
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218   
           PIMT_DROME     - --MAWRSVGANNEDLIRQLKDHGVIASDAVAQAMKETDRKHYSPRNPYMDAPQPIGGGVTISAPHMHAFALEYLRDHLKPGARILDVGSGSGYLTACFYRYIKAKGVDADTRIVGIEHQAELVRRSKANLNTDDRSMLDSGQLLIVEGDGRKGYPPNAPYNAIHVGAAAPDTPTELINQLASGGRLIVPVGPDGGSQYMQQYDKDANGKVEMTRLMGVMYVPL 221
               SCOP domains d1r18a_ A: Protein-L-isoaspartyl O-methyltransferase                                                                                                                                                                            SCOP domains
               CATH domains 1r18A00 A:-1-221 Vaccinia Virus protein VP39                                                                                                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhh....hhhhhhhhhh.hhhhh..........eeee..eee.hhhhhhhhhhhh........eeeee....hhhhhhhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhh.eeeeee.......hhhhhhheeeeeeeeeee......eeeeeeee.....eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------PCMT            ------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1r18 A  -1 IHMAWRSVGANNEDLIRQLKDHGVIASDAVAQAMKETDRKHYSPRNPYMDAPQPIGGGVTISAPHMHAFALEYLRDHLKPGARILDVGSGSGYLTACFYRYIKAKGVDADTRIVGIEHQAELVRRSKANLNTDDRSMLDSGQLLIVEGDGRKGYPPNAPYNAIHVGAAAPDTPTELINQLASGGRLIVPVGPDGGSQYMQQYDKDANGKVEMTRLMGVMYVPL 221
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1R18)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A   (PIMT_DROME | Q27869)
molecular function
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    GO:0004719    protein-L-isoaspartate (D-aspartate) O-methyltransferase activity    Catalysis of the reaction: S-adenosyl-L-methionine + protein L-beta-aspartate = S-adenosyl-L-homocysteine + protein L-beta-aspartate methyl ester.
    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:0006464    cellular protein modification process    The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications) occurring at the level of an individual cell. Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
    GO:0042742    defense response to bacterium    Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.
    GO:0006479    protein methylation    The addition of a methyl group to a protein amino acid. A methyl group is derived from methane by the removal of a hydrogen atom.
    GO:0030091    protein repair    The process of restoring a protein to its original state after damage by such things as oxidation or spontaneous decomposition of residues.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  1r18
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  2.1.1.77
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1dl5 THERMOTOGA MARITIMA PIMT WITH ADOHCY
1i1n HUMAN PIMT WITH ADOHCY
1jg1 PYROCOCCUS FURIOSUS PIMT WITH ADOHCY
1jg3 PYROCOCCUS FURIOSUS PIMT WITH ADENOSINE AND PEPTIDE SUBSTRATE