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(-) Description

Title :  ECHINOMYCIN-(GCGTACGC)2 COMPLEX
 
Authors :  J. A. Cuesta-Seijo
Date :  26 May 03  (Deposition) - 08 Jun 04  (Release) - 27 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Bisintercalator, Hoogsteen Basepair, Depsipeptide, Quinoxaline, Thioacetal, Antibiotic, Antitumor, Dna-Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. A. Cuesta-Seijo, G. M. Sheldrick
Structures Of Complexes Between Echinomycin And Duplex Dna.
Acta Crystallogr. , Sect. D V. 61 442 2005
PubMed-ID: 15805599  |  Reference-DOI: 10.1107/S090744490500137X

(-) Compounds

Molecule 1 - 5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3'
    Chains: A
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - ECHINOMYCIN
    Chains: B
    Organism Scientific: STREPTOMYCES ECHINATUS
    Organism Taxid: 67293
    Synonym: QUINOMYCIN A

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 11)

Asymmetric Unit (6, 11)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2DSN2Mod. Amino AcidD-SERINE
3MVA2Mod. Amino AcidN-METHYLVALINE
4N2C2Mod. Amino AcidN,S-DIMETHYLCYSTEINE
5NCY2Mod. Amino AcidN-METHYLCYSTEINE
6QUI2Ligand/Ion2-CARBOXYQUINOXALINE
Biological Unit 1 (5, 20)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2DSN4Mod. Amino AcidD-SERINE
3MVA4Mod. Amino AcidN-METHYLVALINE
4N2C4Mod. Amino AcidN,S-DIMETHYLCYSTEINE
5NCY4Mod. Amino AcidN-METHYLCYSTEINE
6QUI4Ligand/Ion2-CARBOXYQUINOXALINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:2069BINDING SITE FOR RESIDUE CL A 20
2AC2SOFTWAREDG A:1 , DC A:2 , DG A:3 , DT A:4 , DA A:5 , DC A:6 , DG A:7 , DC A:8 , HOH B:2001 , HOH B:2002 , HOH B:2003 , HOH B:2005 , HOH B:2006 , HOH B:2007 , HOH B:2009 , HOH B:2010BINDING SITE FOR CHAIN B OF ECHINOMYCIN

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1PFE)

 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 1PFE)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:DNA  Length:8
                                      
                   1pfe A 1 GCGTACGC 8


Chain B from PDB  Type:PROTEIN  Length:10
                                        
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                   1pfe B 1 xAxxxxAxxx 8
                            | |||| ||8
                            1-DSN| |||
                              3-N2C|||
                               3-NCY||
                                4-MVA|
                                 5-DSN
                                   7-NCY
                                    7-N2C
                                     8-MVA
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1PFE)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1PFE)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

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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

185d SOLUTION STRUCTURE OF D(GACGTC) COMPLEXED WITH TRIOSTIN A
193d SOLUTION STRUCTURE OF D(ACACGTGT) COMPLEXED WITH QUINOMYCIN UK-6305
1vs2 CRYSTAL STRUCTURE OF D(GCGTACGC) COMPLEXED WITH TRIOSIN A
1xvk CRYSTAL STRUCTURE OF D(GCGTACGC) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P632
1xvn CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P632
1xvr CRYSTAL STRUCTURE OF D(CGTACG) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP C21
2adw CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P42212
2da8 SOLUTION STRUCTURE OF D(GATATC) COMPLEXED WITH A MODIFIED TRIOSTIN A AT POSITIONS 4 AND 8
3go3 CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P41212