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(-) Description

Title :  E. COLI METHIONINE AMINOPEPTIDASE IN COMPLEX WITH INHIBITOR 7-METHOXY-2-METHYLEN-3,4-DIHYDRONAPHTHALEN-1(2H)-ONE
 
Authors :  A. J. Scheidig, M. Altmeyer, C. D. Klein
Date :  23 May 14  (Deposition) - 23 Jul 14  (Release) - 10 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.54
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase(Alpha-Aminoacylpeptide), Metal Complex, Methionine Aminopeptidase, Covalent Inhibitor, 1-Tetralone, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Altmeyer, E. Amtmann, C. Heyl, A. Marschner, A. J. Scheidig, C. D. Klein
Beta-Aminoketones As Prodrugs For Selective Irreversible Inhibitors Of Type-1 Methionine Aminopeptidases.
Bioorg. Med. Chem. Lett. V. 24 5310 2014
PubMed-ID: 25293447  |  Reference-DOI: 10.1016/J.BMCL.2014.09.047

(-) Compounds

Molecule 1 - METHIONINE AMINOPEPTIDASE
    Chains: A
    EC Number: 3.4.11.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MAP, BN17_45901, BU34_07510, ECS0170, LF82_1274
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: METAP,PEPTIDASE M

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
17NP1Ligand/Ion(2S)-7-METHOXY-2-METHYL-3,4-DIHYDRONAPHTHALEN-1(2H)-ONE
2CO3Ligand/IonCOBALT (II) ION
3NA1Ligand/IonSODIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:59 , TYR A:62 , TYR A:65 , CYS A:70 , HIS A:79 , PHE A:177 , HIS A:178 , TRP A:221 , HOH A:628 , HOH A:873binding site for residue 7NP A 301
2AC2SOFTWAREASP A:97 , ASP A:108 , GLU A:235 , CO A:303 , HOH A:634 , HOH A:684binding site for residue CO A 302
3AC3SOFTWAREASP A:108 , HIS A:171 , THR A:202 , GLU A:204 , GLU A:235 , CO A:302 , HOH A:684binding site for residue CO A 303
4AC4SOFTWAREHIS A:54 , HOH A:425 , HOH A:489 , HOH A:517 , HOH A:538binding site for residue CO A 304
5AC5SOFTWARESER A:72 , ASN A:74 , VAL A:76 , SER A:231 , HOH A:838binding site for residue NA A 305

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:180 -Pro A:181

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 4PNC)

(-) 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:262
                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh...ee...hhhhh....eeee..eee..............eeeeeeeeee..eeeeeeeeee....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..ee.....eee......eeeee................eeee..eee.....eee......eee.....eee..eeeeee..eeee...........eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pnc A   2 AISIKTPEDIEKMRVAGRLAAEVLEMIEPYVKPGVSTGELDRICNDYIVNEQHAVSACLGYHGYPKSVCISINEVVCHGIPDDAKLLKDGDIVNIDVTVIKDGFHGDTSKMFIVGKPTIMGERLCRITQESLYLALRMVKPGINLREIGAAIQKFVEAEGFSVVREYCGHGIGQGFHEEPQVLHYDSRETNVVLKPGMTFTIEPMVNAGKKEIRTMKDGWTVKTKDRSLSAQYEHTIVVTDNGCEILTLRKDDTIPAIISHD 263
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261
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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 4PNC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Glu A:180 - Pro A:181   [ RasMol ]  
 

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 Related Entries

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(-) Related Entries Specified in the PDB File

1xnz MN(II) FORM OF THE E. COLI METHIONINE AMINOPEPTIDASE IN COMPLEX WITH 5-(2-CHLOROPHENYL)FURAN-2-CARBOXYLIC ACID
1yvm CO(II) FORM OF THE E. COLI METHIONINE AMINOPEPTIDASE IN COMPLEX WITH THIABENDAZOLE
3mat CO(II) FORM OF THE E. COLI METHIONINE AMINOPEPTIDASE WITHOUT LIGAND