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vmdmagazinedatabase: 5 Hits

solvent and found several angstroms away from the protein surface. ### ### In this package are illustrated... Version 1.1}} //**Languages: **// en ---- ====== Protein Structure ====== ### Protein structure is the three-dimensional arrangement of atoms in a protein molecule. Proteins are polymers formed from sequenc... // (2016/12/20) {{::software:vmdmagazine:download:protein_structure.zip|Version 1.1}} //**Languages: **//

volarea: 3 Hits

ture. This is particularly useful to characterize protein:ligand complexes or corresponding binding sites, as well as protein:protein interfaces. The volume algorithm can be used to predict the space occupie

chem-path-tracker: 3 Hits

o locate functionally relevant chemical motifs in protein structures. ### ### The chemical motifs can be a small group of residues or structure protein fragments with highly conserved properties that have im... come together to form a functional group when the protein is folded into its three dimensional structure. F

biopathfinder: 3 Hits

o locate functionally relevant chemical motifs in protein structures. ### ### The chemical motifs can be a small group of residues or structure protein fragments with highly conserved properties that have im... come together to form a functional group when the protein is folded into its three dimensional structure. F

madamm: 3 Hits

mpling and scoring over conventional single rigid protein docking. We observe that the orientation of particular residues, at the interface between the protein and the ligand, have a crucial influence on the w... ng the researcher to understand the importance of protein flexibility during the binding processes of the l

mm:parameters:iron:cccc: 3 Hits

are not directly connected in the backbone of the protein. ### | **COORDINATION SPHERE** || | {{ :mm:pa... tructure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | Rubredoxin | | //PDB C

mm:parameters:copper_zinc:hhh_cu_h_zn_dhh: 3 Hits

stidines. Validation for this metal centre in the protein environment is additionally provided. ### | **C... Structure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | Cu, Zn Superoxide Dismut

mm:parameters:manganese:dedwawawa: 2 Hits

tructure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | Muconate Cycloisomerase

mm:parameters:manganese:hdewawawa: 2 Hits

tructure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | Citochrome //c// Oxidase

mm:parameters:manganese:denwawawa: 2 Hits

tructure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | D-Glucarate Dehydratase

mm:parameters:manganese:dee_so2: 2 Hits

tructure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | Mandelate Racemase | |

mm:parameters:zinc:hdc_fp: 2 Hits

Structure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | Farnesyltransferase | |

mm:parameters:manganese:ded_cl: 2 Hits

tructure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | Chloromuconate Cycloisom

mm:parameters:manganese:ed_py2_wawa: 2 Hits

tructure chosen to parameterize ===== | **TEST PROTEIN** || | //Protein// | Pyruvate Kinase | | //

compasm: 2 Hits

mm:parameters:zinc:hdc: 2 Hits

mm:parameters:manganese:ddwawawawa: 2 Hits

mm:parameters:manganese:hhdh_ho_o: 2 Hits

mm:parameters:manganese:hhdh_ho: 2 Hits

mm:parameters:manganese:hhdhwa: 2 Hits

mm:parameters:manganese:hhe_d2: 2 Hits

mm:parameters:zinc:hdcc: 2 Hits

mm:parameters:zinc:hc_d2: 2 Hits

mm:parameters:manganese:hhewawa: 2 Hits

mm:parameters:zinc:hdc_czl: 2 Hits

mm:parameters:iron:cc_c_2: 2 Hits

mm:parameters:iron:cc_fe_ss_fe_cc: 2 Hits

mm:parameters:zinc: 1 Hits

mm:parameters:copper: 1 Hits

software: 1 Hits

mm:parameters:iron: 1 Hits

mm:parameters:manganese: 1 Hits

molup: 1 Hits