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(-) Description

Title :  CRYSTAL STRUCTURE OF A COMPLEX BETWEEN THE MARINE ANTICANCER DRUG VARIOLIN B AND DNA
 
Authors :  A. Canals, R. Arribas-Bosacoma, M. Alvarez, F. Albericio, J. Aymami, M
Date :  10 Sep 13  (Deposition) - 11 Mar 15  (Release) - 22 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dna Duplex, Intercalation, Drug Binding, Nucleus, Dna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Canals, R. Arribas-Bosacoma, F. Albericio, M. Alvarez, J. Aymami, M. Coll
Intercalative Dna Binding Of The Marine Anticancer Drug Variolin B.
Sci Rep V. 7 39680 2017
PubMed-ID: 28051169  |  Reference-DOI: 10.1038/SREP39680

(-) Compounds

Molecule 1 - 5'-D(*CP*GP*TP*AP*CP*G)-3'
    Chains: A, B
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric/Biological Unit (4, 7)
No.NameCountTypeFull Name
1CO1Ligand/IonCOBALT (II) ION
2NA1Ligand/IonSODIUM ION
3NCO3Ligand/IonCOBALT HEXAMMINE(III)
4VAR2Ligand/Ion9-AMINO-5-(2-AMINOPYRIMIDIN-4-YL)PYRIDO[3',2':4,5]PYRROLO[1,2-C]PYRIMIDIN-4-OL

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREDC A:5 , DG A:6 , VAR A:102 , HOH A:207 , DC B:7 , DG B:8 , NCO B:102BINDING SITE FOR RESIDUE VAR A 101
2AC2SOFTWAREDC A:5 , DG A:6 , VAR A:101 , DC B:7 , DG B:8 , NCO B:102BINDING SITE FOR RESIDUE VAR A 102
3AC3SOFTWAREDG A:2 , DT A:3 , HOH A:205 , DC B:11BINDING SITE FOR RESIDUE NCO A 103
4AC4SOFTWAREDG A:6BINDING SITE FOR RESIDUE CO A 104
5AC5SOFTWAREDA A:4 , HOH A:211 , DG B:12 , HOH B:202BINDING SITE FOR RESIDUE NCO B 101
6AC6SOFTWAREVAR A:101 , VAR A:102 , DC B:7 , DG B:8 , HOH B:210BINDING SITE FOR RESIDUE NCO B 102
7AC7SOFTWAREDG B:8BINDING SITE FOR RESIDUE NA B 103

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4MNB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MNB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MNB)

(-) Exons   (0, 0)

(no "Exon" information available for 4MNB)

(-) Sequences/Alignments

Asymmetric/Biological Unit
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:DNA  Length:5
                                    
                  4mnb A  2 GTACG  6


Chain B from PDB  Type:DNA  Length:6
                                     
                  4mnb B  7 CGTACG 12
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4MNB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4MNB)

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 Related Entries

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