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(-) Description

Title :  CRYSTAL STRUCTURE OF THE APO-FORM OF A NEOCARZINOSTATIN MUTANT EVOLVED TO BIND TESTOSTERONE.
 
Authors :  A. Drevelle, M. Graille, B. Heyd, I. Sorel, N. Ulryck, F. Pecorari, M. Desmadril, H. Van Tilbeurgh, P. Minard
Date :  06 Jan 06  (Deposition) - 22 Mar 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.03
Chains :  Asym./Biol. Unit :  A
Keywords :  Antibiotic, Antimicrobial, Dna-Binding, Phage-Display (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Drevelle, M. Graille, B. Heyd, I. Sorel, N. Ulryck, F. Pecorari, M. Desmadril, H. Van Tilbeurgh, P. Minard
Structures Of In Vitro Evolved Binding Sites On Neocarzinostatin Scaffold Reveal Unanticipated Evolutionary Pathways.
J. Mol. Biol. V. 358 455 2006
PubMed-ID: 16529771  |  Reference-DOI: 10.1016/J.JMB.2006.02.002
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NEOCARZINOSTATIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BLR(DE3) PLYSS
    Expression System Taxid: 562
    Fragment: RESIDUES 35-146
    Mutation: YES
    Organism Scientific: STREPTOMYCES CARZINOSTATICUS
    Organism Taxid: 1897
    Synonym: NCS, MITOMALCIN, MMC

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1MES1Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:37 , ARG A:39 , GLY A:43 , TRP A:45 , GLY A:96 , GLY A:102BINDING SITE FOR RESIDUE MES A1113

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:88 -A:93

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Thr A:8 -Pro A:9

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2CBM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2CBM)

(-) Exons   (0, 0)

(no "Exon" information available for 2CBM)

(-) 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    
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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:112
 aligned with NCZS_STRCZ | P0A3R9 from UniProtKB/Swiss-Prot  Length:147

    Alignment length:112
                                    44        54        64        74        84        94       104       114       124       134       144  
           NCZS_STRCZ    35 AAPTATVTPSSGLSDGTVVKVAGAGLQAGTAYDVGQCAWVDTGVLACNPADFSSVTADANGSASTSLTVRRSFEGFLFDGTRWGTVDCTTAACQVGLSDAAGNGPEGVAISF 146
               SCOP domains d2cbma_ A: automated matches                                                                                     SCOP domains
               CATH domains 2cbmA00 A:1-112  [code=2.60.40.230, no name defined]                                                             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.........eeeeeee......eeeeeeeeeee..eeee.....eeee......eeeeee...eeeee.....eeeeee.....eeeeee.........ee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 2cbm A   1 AAPTATVTPSSGLSDGTVVKVAGAGLQAGTAYWVAQWARVDTGVWAYNPADNSSVTADANGSASTSLTVRRSFEGFLFDGTRWGTVDCTTAACQVGLSDAAGNGPEGVAISF 112
                                    10        20        30        40        50        60        70        80        90       100       110
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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/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CBM)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (NCZS_STRCZ | P0A3R9)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0006952    defense response    Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
    GO:0042742    defense response to bacterium    Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.

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  2cbm
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 Related Entries

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

UniProtKB/Swiss-Prot
        NCZS_STRCZ | P0A3R9: 1j5h 1j5i 1nco 1noa 1o5p 2cbo 2cbq 2cbt 2g0k 2g0l

(-) Related Entries Specified in the PDB File

1j5h SOLUTION STRUCTURE OF APO-NEOCARZINOSTATIN
1j5i SOLUTION STRUCTURE OF A NOVEL CHROMOPROTEIN DERIVED FROMAPO-NEOCARZINOSTATIN AND A SYNTHETIC CHROMOPHORE
1kvh NCSI-GB-BULGE-DNA COMPLEX INDUCED FORMATION OF A DNA BULGESTRUCTURE BY A MOLECULAR WEDGE LIGAND-POST-ACTIVATEDNEOCARZINOSTATIN CHROMOPHORE
1mp7 A THIRD COMPLEX OF POST-ACTIVATED NEOCARZINOSTATINCHROMOPHORE WITH DNA. BULGE DNA BINDING FROM THE MINORGROOVE
1nco HOLO-NEOCARZINOSTATIN (CONTAINING CHROMOPHORE) COMPLEX WITH APO-CARZINOSTATIN (CONTAINING MPD)
1noa NEOCARZINOSTATIN
1o5p SOLUTION STRUCTURE OF HOLO-NEOCARZINOSTATIN
2cbo CRYSTAL STRUCTURE OF THE NEOCARZINOSTATIN 3TES24 MUTANT BOUND TO TESTOSTERONE HEMISUCCINATE.
2cbq CRYSTAL STRUCTURE OF THE NEOCARZINOSTATIN 1TES15 MUTANT BOUND TO TESTOSTERONE HEMISUCCINATE.
2cbt CRYSTAL STRUCTURE OF THE NEOCARZINOSTATIN 4TES1 MUTANT BOUND TESTOSTERONE HEMISUCCINATE.