2L65

HADDOCK calculated model of the complex of the resistance protein CalC and Calicheamicin-Gamma


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 
  • Selection Criteria: structures with the least restraint violations 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Structural insight into the self-sacrifice mechanism of enediyne resistance.

Singh, S.Hager, M.H.Zhang, C.Griffith, B.R.Lee, M.S.Hallenga, K.Markley, J.L.Thorson, J.S.

(2006) ACS Chem Biol 1: 451-460

  • DOI: https://doi.org/10.1021/cb6002898
  • Primary Citation of Related Structures:  
    1ZXF, 2GKD, 2L65

  • PubMed Abstract: 

    The recent discovery of the first "self-sacrifice" mechanism for bacterial resistance to the enediyne antitumor antibiotics, where enediyne-induced proteolysis of the resistance protein CalC inactivates both the highly reactive metabolite and the resistance protein, revealed yet another ingenious bacterial mechanism for controlling reactive metabolites. As reported herein, the first 3D structures of CalC and CalC in complex with calicheamicin (CLM) divulge CalC to be a member of the steroidogenic acute regulatory protein (StAR)-related transfer (START) domain superfamily. In contrast to previous studies of proteins known to bind DNA-damaging natural products ( e.g ., bleomycins, mitomycins, and nine-membered chromoprotein enediynes), this is the first demonstrated involvement of a START domain fold. Consistent with the CalC self-sacrifice mechanism, CLM in complex with CalC is positioned for direct hydrogen abstraction from Gly113 to initiate the oxidative proteolysis-based resistance mechanism. These structural studies also illuminate, for the first time, a small DNA-binding region within CalC that may serve to localize CalC to the enediyne target (DNA). Given the role of START domains in nuclear/cytosolic transport and translocation, this structural study also may implicate START domains as post-endocytotic intracellular chaperones for enediyne-based therapeutics such as MyloTarg.


  • Organizational Affiliation

    Center for Eukaryotic Structural Genomics, Department of Biochemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706-1544, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CalC155Micromonospora echinosporaMutation(s): 0 
Gene Names: calC
UniProt
Find proteins for Q8KNF0 (Micromonospora echinospora)
Explore Q8KNF0 
Go to UniProtKB:  Q8KNF0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8KNF0
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2,4-dideoxy-4-(ethylamino)-3-O-methyl-alpha-L-threo-pentopyranose-(1-2)-4-amino-4,6-dideoxy-beta-D-glucopyranose
B
2N/AN/A
Glycosylation Resources
GlyTouCan:  G78634UT
GlyCosmos:  G78634UT
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MTC
Query on MTC

Download Ideal Coordinates CCD File 
F [auth A][1,8-DIHYDROXY-11-OXO-13-(2-METHYLTRITHIO-ETHYLIDENE)-BICYCLO[7.3.1]TRIDECA-4,9-DIENE-2,6-DIYN-10-YL]-CARBAMIC ACID METHYL ESTER
C18 H17 N O4 S3
PNQXYYVQKWQRKL-LUWMVQLVSA-N
HIB
Query on HIB

Download Ideal Coordinates CCD File 
D [auth A]4-HYDROXY-5-IODO-2,3-DIMETHOXY-6-METHYLBENZOIC ACID
C10 H11 I O5
JFNYBTUZUIKXSC-UHFFFAOYSA-N
MRP
Query on MRP

Download Ideal Coordinates CCD File 
E [auth A]3-O-methyl-alpha-L-rhamnopyranose
C7 H14 O5
OEKPKBBXXDGXNB-PAMBMQIZSA-N
DSR
Query on DSR

Download Ideal Coordinates CCD File 
C [auth A]2,6-dideoxy-4-thio-beta-D-allopyranose
C6 H12 O3 S
PYIPBDQDMFBTIQ-JGWLITMVSA-N
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 
  • Selection Criteria: structures with the least restraint violations 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-03-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary