If the error is defined as
then
P part is 
I part is 
D part is 
and you can arrange then in the state-space form. For example, a Double Integrator system
can be rewritten in state-space as:
.The PID has 3 terms, and the state-space is in differential form. So you have no issue with the P and the D part, because they are part of the state variables. The I part is in integral form, so you have to create an additional state variable. See Example below:
[t, x] = ode45(@DIsystem, [0 20], [0; 0; 0]);
plot(t, x(:,1), 'linewidth', 1.5)
grid on, xlabel('t'), ylabel('y(t)'), % ylim([-0.2 1.2])
function dxdt = DIsystem(t, x)
dxdt = zeros(3, 1);
% construction of PID
r = 1; % reference signal
e = x(1) - r; % error signal
Kp = 1 + sqrt(2); % proportional gain
Ki = 1; % integral gain
Kd = 1 + sqrt(2); % derivative gain
u = - Kp*e - Ki*x(3) - Kd*x(2); % the PID thing
% the dynamics
A = [0 1; 0 0]; % state matrix
B = [0; 1]; % input matrix
dxdt(1:2) = A*[x(1); x(2)] + B*u; % the Double Integrator system
dxdt(3) = e; % for integral action in PID
end
