IL.4

PYROPHOSPHATE SYNTHASE

PDB

The ligand-free form

2ihi_AB [Alignment: 1 2]

The ligand-bound form

3cc9_AB[Alignment: 1 2]

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the structural change



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Function

EC*1

CSA distance*2

3.5

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

Ligand

PDB*1

Full name

2xGRG

2x(GERANYLGERANYL DIPHOSPHATE)

*1 Ligand name designated by the PDB identifiers.

Segments

Component No.

Fixed*1

Moving*1

Motion type

Ligand binding

Coupled motion type

1

D1(38A-97A,100A-208A,212A-293A,304A-348A,355A-395A,35B-92B,101B-206B,215B-218B,227B-262B,269B-273B)

L3(349A-353A)

Local

Independent

2

D1

L4(263B-268B)

Local

Independent

3

D2(93B-100B,225B-226B,274B-292B,304B-389B)

L5(293B-302B)

Local

Independent

*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

Yes

+3

2

Yes

-2

3

Yes

+10

*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.

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