ID.7

ARGININE KINASE

PDB

The ligand-free form

1m80_A [Alignment: 1]

The ligand-bound form

1bg0_A[Alignment: 1]

View

Animations of

the structural change



Using Jmol

Function

EC*1

CSA distance*2

2.7.3.3

1.5

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

Ligand

PDB*1

Full name

ADP,DAR

ADENOSINE-5'-DIPHOSPHATE,D-ARGININE

*1 Ligand name designated by the PDB identifiers.

Segments

Component No.

Fixed*1

Moving*1

Motion type

Ligand binding

Coupled motion type

1

D1(4A-98A,129A-156A,164A-172A,187A-212A,219A-230A,258A-276A)

D2(99A-128A,157A-163A,173A-186A,213A-218A,231A-257A,277A-308A,321A-355A)

Domain

Independent

2

D2

L3(309A-321A)

Local

Coupled

Closure

3

D2

L4(174A-180A)

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

2.9

2

Yes

+12

3

5.7

*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.

Crystal environment

Component No.

Open state*1

Crystal packing*2

1

Free

Coupled

2

3

Free

Coupled

*1 Distinction between the open state and the closed state required for examining the influence of the crystal environment.
*2 Crystal packing: Whether the change in the crystal environment is coupled with the structural change.

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