Checklist

• Tests added for the new code
• Documentation added for the code changes
• Does not break licensing
• Does not add any dependencies, if it does please add a thorough explanation

Summary of the Pull Request

this Pull Request adds support for new glycans in HADDOCK3, namely:

1. BDP (beta-D-glucuronic acid) (present in 98 PDB entries): this is glucose with an extra carboxylic acid. Everything is taken from CHARMM36 and introduced into HADDOCK following the syntax used for beta-glucose
2. MMA (methyl alpha-D-mannopyranoside) (present in 91 PDB entries): For adding a methyl group to pyranoses, a CHARMM patch simplifies the process. The necessary adjustments in the HADDOCK force field are:

• Removing OH1 and adjusting charges for C1 and O1.

• Incorporating C7 and methyl hydrogen charges and types from CHARMM, with additional bond and dihedral setup.

• Similar to the MAG group in CHARMM, methyl hydrogen dihedrals and impropers are ignored, pending further discussion.

• Ensuring linkage compatibility with glycans like 2AUY and 2OVU.

There is also methyl beta-D-mannopyranoside (YZ0 see https://www.rcsb.org/ligand/YZ0), but it's very rarely present..should it be added as well?

3. XYS (alpha-D-xylopyranose) (present in 147 PDB entries): Parameters from XYP were copied, with the improper angle adjusted to define an alpha configuration.

4. RAM (alpha-L-rhamnopyranose) (present in 96 PDB entries): here the topology was available but the glycan was not in the list of possible alpha linkages

5. ABE (alpha-D-Abequopyranose) (present in 7 PDB entries): the trickiest one probably. Here I followed this strategy:

• generated atoms and bonds topology from CHARMM using ABEQ
• added all the dihedrals coming from GLA (as in charmm)
• from those dihedrals, (H3 C3 O3 HO3), (H5 C5 C6 O6) and (C5 C6 O6 H61) were removed and (H5 C5 C6 H61) was added, as in fucoses and RAM
• added all the impropers proper to GLA
• as for the improper with C3 as central atom, the following line was added
  IMPRoper H31 H32 C4 C2 {C3}
  as in SIA. This did not work as C2 is in SIA CCE and here is CCS, therefore I checked the value of the improper angle for the existing angle in the solved ABE structures. Having verified it is almost equal to SIA's value, I added the corresponding improper to the param file.

Overall this PR extends the current carbohydrate force field to incorporate five new monosaccharides.

Related Issue

Closes #1154