2LQD

Reduced and CO-bound cytochrome P450cam (CYP101A1)

Summary for 2LQD

• Entry DOI: 10.2210/pdb2lqd/pdb
• Related: 2L8M 3CPP
• NMR Information: BMRB: 17415
• Descriptor: Camphor 5-monooxygenase, PROTOPORPHYRIN IX CONTAINING FE, CARBON MONOXIDE, ... (5 entities in total)
• Functional Keywords: metalloenzyme, monooxygenase, hydrolase
• Biological source: Pseudomonas putida
• Cellular location: Cytoplasm : P00183
• Total number of polymer chains: 1
• Total formula weight: 47171.37

Authors

Pochapsky, T.C.,Pochapsky, S.S.,Asciutto, E.,Madura, J.,Young, M.J. (deposition date: 2012-03-02, release date: 2012-05-09, Last modification date: 2024-05-01)

Primary citation

Asciutto, E.K.,Young, M.J.,Madura, J.,Pochapsky, S.S.,Pochapsky, T.C.
Solution Structural Ensembles of Substrate-Free Cytochrome P450(cam).
Biochemistry, 51:3383-3393, 2012

PubMed Abstract: Removal of substrate (+)-camphor from the active site of cytochrome P450(cam) (CYP101A1) results in nuclear magnetic resonance-detected perturbations in multiple regions of the enzyme. The (1)H-(15)N correlation map of substrate-free diamagnetic Fe(II) CO-bound CYP101A permits these perturbations to be mapped onto the solution structure of the enzyme. Residual dipolar couplings (RDCs) were measured for (15)N-(1)H amide pairs in two independent alignment media for the substrate-free enzyme and used as restraints in solvated molecular dynamics (MD) simulations to generate an ensemble of best-fit structures of the substrate-free enzyme in solution. Nuclear magnetic resonance-detected chemical shift perturbations reflect changes in the electronic environment of the NH pairs, such as hydrogen bonding and ring current shifts, and are observed for residues in the active site as well as in hinge regions between secondary structural features. RDCs provide information about relative orientations of secondary structures, and RDC-restrained MD simulations indicate that portions of a β-rich region adjacent to the active site shift so as to partially occupy the vacancy left by removal of the substrate. The accessible volume of the active site is reduced in the substrate-free enzyme relative to the substrate-bound structure calculated using the same methods. Both symmetric and asymmetric broadening of multiple resonances observed upon substrate removal as well as localized increased errors in RDC fits suggest that an ensemble of enzyme conformations are present in the substrate-free form.

PubMed: 22468842
DOI: 10.1021/bi300007r

Experimental method

SOLUTION NMR