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mm:parameters:iron:cccc
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Table of Contents
Iron(III) - CCCC
| Coordination Sphere | Oxidation State: Fe(III) Spin Multiplicity: 1 |
| PATH TO IMAGE1 | PATH TO IMAGE2 1) |
Structure chosen to parameterize
| TEST PROTEIN | |
| Protein | Rubredoxin |
| PDB Code | 1IRO |
| Crystallographic Resolution | 1.10 Å |
| Organism | Clostridium pasteurianum |
| [Dauter, 1996] | |
Parameters Determined
Atom Types
| ATOM TYPE | NEW ATOM TYPE | MASS | STRUCTURE |
| FE | FE | 55.845 | IMAGE |
| SF | S | 32.065 |
Bond Parameters
| BOND | Kl / kcal mol-1 | l / angstrom | REFERENCE |
| FE-SF | 80.75 | 2.3170 | [Carvalho, 2013] |
| CT-SF | 237.00 | 1.8100 |
Angle Parameters
| Angle | Ktheta / kcal mol-1 | theta / angstrom | REFERENCE |
| SF-FE-SF | 33.15 | 109.8650 | [Carvalho, 2013] |
| CT-SF-FE | 27.60 | 100.9150 | |
| SF-CT-H1 | 50.00 | 109.5000 | |
| CT-CT-SF | 50.00 | 108.6000 |
Van der Waals Parameters
| ATOM TYPE | Ri / angstrom | epsiloni / kcal mol-1 | REFERENCE |
| FE | 2.6500 | 0.0450 | [Giammona, 1984] |
| SF | 2.0000 | 0.2500 |
Validation of Parameters from MD Simulations
Bond Parameters
| BOND | l0 crystal | l0 opt | <l>MD ± sigma(l) | <l>MD ± 2sigma(l) |
1)
The schemes represent geometrical dispositions for crystal lattices. These should be roughly similar to the corresponding distorted geometries in enzymatic coordination spheres.
mm/parameters/iron/cccc.1375698387.txt.gz · Last modified: 2013/08/05 11:26 by ruineves
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