CD.13

OROTATE PHOSPHORIBOSYLTRANSFERASE 1

PDB

The ligand-free form

2pry_AA [Alignment: 1 2]

The ligand-bound form

2prz_CD[Alignment: 1 2]

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the linear response theory


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Function

EC*1

CSA distance*2

2.4.2.10

5.7

*1 Enzyme commission number.
*2 The distance between the active site annotated in CSA23 and the ligand-binding sites.

Ligand

PDB*1

Full name

2xOMP

2x(OROTIDINE-5'-MONOPHOSPHATE)

*1 Ligand name designated by the PDB identifiers.

Segments

Component No.

Fixed*1

Moving*1

Motion type

Ligand binding

Coupled motion type

1

D1(6C-19C,40C-108C,115C-135C,139C-164C,175C-195C,199C-199C,223C-224C,2D-20D,39D-108D,115D-135D,139D-164D,175D-197D,199D-200D)

D2(20C-39C,165C-166C,196C-198C,200C-222C)

Domain

Coupled

Closure

2

D1

L3(135C-139C)

Local

Coupled

Opening

*1 The location of the fixed and moving segments indicated by the residue number assigned in the ligand-bound form. The background color of characters indicates the corresponding segment in the structure. The colored segments not described in the Table are: 1) a part of component in which the motion is small (< 1.0 A), or, 2) a part of a protomer of homodimers, for which a corresponding part of the other protomer is shown in the Table.

Displacement and disorder

Component No.

RMSD*1

Displacement*2

Disorder-order transition*3

Disorder residue*4

Helix-Coil*5

1

2.1

2

Yes

+3

*1 The root-mean-square displacement of a component of motion calculated for the domain motions.
*2 The mean displacement of a component of motion calculated for the local motions.
*3 Order-disorder transition: Whether the open form contains the disordered structure.
*4 The number of disordered residues.
*5 The number of residues exhibiting the alpha-helix to coil transition.

Linear response

Component No.

Correlation coefficient*1

1

0.67

2

*1 The correlation coefficient between the displacement vector predicted by the linear response theory and the one observed in the crystal structures.

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