modeller_script.cgi for script to model 3D complex using MODELLER. coded by T.Kawabata. LastModified:2025/10/09 *Example for homo-multimer model. modeller_script.cgi PID=12345 pdb_id=1gvj asym1=A oper1=1 asym2=B oper2=1 sbjidA=1gvj_A *Example for hetero-multimer model. model_info.cgi PID=12345 pdb_id=1gvj asym1=A oper1=1 asym2=B oper2=1 sbjidA=1gvj_A sbjidB=1gvj_B *Example for only one protein modeller_script.cgi PID=12345 pdb_id=2wkl asym0=B sbjidA=2wkl_B *Example for one_protein_and_another_protein modeller_script.cgi PID=12345 pdb_id=1e2s asym0=A asym1=D oper0=1 oper1=1 sbj0=A sbj1=N sbjidA 1e2s_A PID : process_id evalue : evalue threshold for BLAST [] pdb_id : pdb_id asym[n] : asym_id for subunit[n]. (n is 0,1,2,3,..) oper[n] : oper_expression for subunit[n]. (n is 0,1,2,3,..) que[n] : query type for subunit[n]. (n is 0,1,2,3,..) : ('A':blast A, 'B': blast B, 'K':kcombu compound model,'N','':use it as it is.) sbjidA : subject id for BLAST for the query protein A. sbjidB : subject id for BLAST for the query protein B. queryA : name of query protein A (optional).[queryA] queryB : name of query protein B (optional).[queryB] alignA : rank of alignment for modeling of query protein A (1,2,3,...) [1] alignB : rank of alignment for modeling of query protein B (1,2,3,...) [1] glolocA : alignment type fo query A. 'L':local, 'GS':global only for Sbjct,'GQS':global both Query and Sbjct [GS] glolocB : alignment type fo query B. 'L':local, 'GS':global only for Sbjct,'GQS':global both Query and Sbjct [GS] comp_id : comp_id for KCOMBU for the query compound QUNIPROT_AC_A :Query UniProt AC for query protein A (optional)[] QUNIPROT_AC_B :Query UniProt AC for query protein B (optional)[] QGENPEPT_ID_A :Query GenPept ID for query protein A (optional)[] QGENPEPT_ID_B :Query GenPept ID for query protein B (optional)[] QLIG_PDB3LETTER : PDB 3 letters for Query Ligand [] QLIG_KEGG_COMPOUND_DRUG_ID: KEGG_COMPOUND_ID (C*****) or KEGG_DRUG_ID (D*****)[] QLIG_FILETYPE : File type for QLIG_UPLOADFILE [] QPDB_ID_A : Query PDB_ID for query protein A [] QASYM_ID_A : Query asym_id for query protein A [] QPDB_ID_B : Query PDB_ID for query protein B [] QASYM_ID_B : Query asym_id for query protein B [] precalc_blt: Use precalculated BLAST for Uniprot for query proteins []