Find PDB structures and Computed Structure Models (CSM) by combining queries from tools in this suite: Attribute Search, Sequence Similarity, Sequence Motif, 3D Similarity, and 3D Motif with 'AND' logic.
THE STRUCTURES WERE DETERMINED BY FIRST CALCULATING THE STRUCTURE OF THE HP62 MONOMER USING THE STANDARD XPLOR PARAMETER SETS FOR NMR STRUCTURE DETERMINATION. THE HP62 MONOMERS WERE SUBSEQUENTLY DUPLICATED AND DOCKED ONTO A B-DNA TEMPLATE STRUCTURE OF THE LAC OPERATOR, WHICH WAS ALLOWED TO BEND IN ORDER TO ACCOMODATE THE TWO HP62 MONOMERS. THE PROPERLY DOCKED STRUCTURES WERE PLACED IN A TIP3P WATERBOX WHICH WAS NEUTRALIZED BY ADDITION OF SODIUM-IONS. THE STRUCTURES WERE THEN FURTHER REFINED BY A RESTRAINED MD SIMULATION OF 24 PS IN THE CHARMM22 FORCEFIELD FOR PROTEINS AND NUCLEIC ACIDS. NCS SYMMETRY RESTRAINTS WERE USED DURING THE DOCKING AND REFINEMENT PROCEDURES. FOR FURTHER REFINEMENT DETAILS SEE THE PAPER DESCRIBING THE STRUCTURES
X-PLOR
NMR Ensemble Information
Conformer Selection Criteria
SEE ARTICLE
Conformers Calculated Total Number
14
Conformers Submitted Total Number
11
Additional NMR Experimental Information
Details
RESONANCE ASSIGNMENTS WERE BASED ON VARIOUS HOMONUCLEAR AND DOUBLE AND TRIPLE RESONANCE NMR EXPERIMENTS IN H2O/D2O (95%/5%) AND D2O. IN ADDITION ISOTOPE FILTER EXPERIMENTS WERE APPLIED TO OBTAIN ADDITIONAL ASSIGNMENTS AND TO ASSIGN INTER-MOLECULAR NOES. FOR FURTHER DETAILS SEE THE REFERENCE DESCRIBING THE STRUCTURES