1EKI

AVERAGE SOLUTION STRUCTURE OF D(TTGGCCAA)2 BOUND TO CHROMOMYCIN-A3 AND COBALT

  • Classification: DNA
  • Deposited: 2000-03-08 Released: 2000-03-20
  • Deposition author(s): Gochin, M.

Structural Biology Knowledgebase: 1EKI SBKB.org


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 1
  • Conformers Submitted: 1
  • Selection Criteria: Average Structure

Literature

Macromolecules
Sequence Display for 1EKI

Classification: DNA

Total Structure Weight: 7286.79

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*TP*TP*GP*GP*CP*CP*AP*A)-3') A, B 8 synthetic TWO MOLECULES OF THE DRUG CHROMOMYCIN A3 (1GL-2GL-DXB-DDA-DDA-1AR, CHAINS C, AND D) ARE BOUND IN THE MINOR GROOVE

Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CPH
Query on CPH

A, B (1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10- tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen- 2-yl]-D-xylulose
None (Synonym)
C21 H24 O9
AOCJXLJIUYHXRS-PKRZCTMMSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ERI
Query on ERI

B 4-O-ACETYL-2,6-DIDEOXY-3-C-METHYL-BETA-L- ARABINO-HEXOPYRANOSE
C9 H16 O5
YJOQPCPEUGDGFS-VHKYIWFCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
2GL
Query on 2GL

A, B 4-O-ACETYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE
C8 H14 O5
VJCDYXNEQSTOMG-JBBNEOJLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
1GL
Query on 1GL

A, B 4-O-METHYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE
C7 H14 O4
CDRBUGSWTNDUSM-JWXFUTCRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DDA
Query on DDA

B 2,6-DIDEOXY-BETA-D-GLUCOSE
2,6-DIDEOXY-BETA-D-MANNOSE (Synonym)
C6 H12 O4
FDWRIIDFYSUTDP-KVTDHHQDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CO
Query on CO

A COBALT (II) ION
Co
XLJKHNWPARRRJB-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 1
  • Conformers Submitted: 1
  • Selection Criteria: average structure

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2000-03-08
  • Released Date: 2000-03-20
  • Deposition author(s): Gochin, M.

Revision History

  • 2011-12-28
    Type: Advisory | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4