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139555
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
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Structure Summary
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Sequence
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Structure Similarity
Experiment
1CS9
SOLUTION STRUCTURE OF CGGIRGERA IN CONTACT WITH THE MONOCLONAL ANTIBODY MAB 4X11, NMR, 7 STRUCTURES
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SOLUTION NMR Experimental Data
Experimental Details
Sample Conditions
Sample Contents
5 MM PEPTIDE, 0.1MM MAB; 100 MM PHOSPHATE BUFFER CONTAINING 0.02% SODIUM AZIDE
Solvent
n/a
Ionic Strength
0.1M PHOSPHATE
pH
7
Pressure
1
Temperature (K)
277
Experiment(s):
TOCSY, NOESY, COSY
Spectrometer Information
Manufacturer
Model
Field Strength
Bruker
DRX
400.0
NMR Refinement
Method
ENERGY MINIMIZATION MOLECULAR DYNAMICS
Details
ENERGY MINIMISATION. A DISTANT DEPENDENT DIELECTRIC CONSTANT EQUAL TO 4R WAS APPLIED. THE NET ELECTRIC CHARGES WERE DECREASED, WHILE THOSE OF THE N AND C TERMINAL CHARGED GROUPS WERE NEGLECTED. IN THE PDB, NH3+ IS INCLUDED IN THE RESIDUE CYS, AND COO- IS INCLUDED IN THE RESIDUE ALA. THE RESIDUE GLU HAS MISSING ATOMS HE2 IN ALL STRUCTURES BECAUSE IN DISCOVER, THIS RESIDUE IS MODELLED AS A CHARGED GROUP(WE HAVE COO- AND NOT COOH).
NMR Ensemble Information
Conformer Selection Criteria
structures with the lowest energy
Conformers Calculated Total Number
50
Conformers Submitted Total Number
7
Representative Model Choice Rationale
1
lowest energy
Additional NMR Experimental Information
1
THE PEPTIDE/MAB MOLAR RATIO WAS ADJUSTED TO 50/1 (I.E. 5MM OF PEPTIDE AND 0.1MM OF MAB)
Computation: NMR Software
#
Classification
Software Name
Author
1
structure solution version: 1.4
DYANA
GUNTERT, WUTHRICH
2
structure solution version: 3
DISCOVER
MOLECULAR SIMULATIONS INC., SAN DIEGO, CA
3
refinement version: 3
DISCOVER
MOLECULAR SIMULATIONS INC.