Motion in Formate Dehydrogenase (FDH) [fdh]

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Classification Known Domain Motion, Hinge Mechanism [D-h-2]

Structures
2NAC 2.0 A, missing 19 C-terminal residuesOpen Form [ PartsList ]
2NAD complex with NADClosed Form [ PartsList ]

Description
2 interdomain linkages, 2 hinges, 7.5 degree rotation. Upon binding coenzyme, one domain rotates relative to the other to close over the active site. Each of the two hinges occurs in the middle of an alpha helix.

Particular values describing motion
Annotation Level (1..10) = 8
Maximum CA displacement (A) = 5.5
Maximum Rotation (degrees) = 8
Experimental Methods = x (Traditional x-ray)
Creation Date = 19970822
Modification Date = 19970822

References
V S Lamzin, Z Dauter, V O Popov, E H Harutyunyan and K S Wilson (1994). High resolution structures of holo and apo formate dehydrogenase. J Mol Biol. 236: 759-785. [Medline info for 94157912]

Data and Graphics
Detailed README Describes motion and gives orientation matrices.
Atom deviations after sieve-fit Central column is difference in atomic positions between the two structures after they have been superimposed on one domain.
Changes in Torsions ... column4=dphi column5=dpsi column6=phi-open column7=phi-closed ...
fdh-down-screw-axis A view of FDH looking directly down the screw axis. Residues 148-149 and 334-335 are highlighted.
Another view of motion This shows the motion from a slightly different viewpoint that better shows the two hinges.
MOVIES A page giving pointers to movies of the motion in FDH.

GO terms associated with structures
Molecular functionoxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
Biological processL-serine biosynthesis

Morphs

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Best representative
Morph Morph name Structure #1 Structure #2 Residues
FDH (Pseudomonas) 2nac [ A ] 2nad [ A ] 393



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Copyright 1995-2005 M. Gerstein, W. Krebs, S. Flores, N. Echols, and others
Email: Mark.Gerstein _at_ yale.edu