data_PRD_002268
# 
_pdbx_reference_molecule.prd_id                       PRD_002268 
_pdbx_reference_molecule.name                         "Lipid II" 
_pdbx_reference_molecule.represent_as                 polymer 
_pdbx_reference_molecule.type                         Glycopeptide 
_pdbx_reference_molecule.type_evidence_code           ? 
_pdbx_reference_molecule.class                        "Glycan component" 
_pdbx_reference_molecule.class_evidence_code          ? 
_pdbx_reference_molecule.formula                      "C54 H93 N8 O26 P2" 
_pdbx_reference_molecule.formula_weight               1332.302 
_pdbx_reference_molecule.chem_comp_id                 ? 
_pdbx_reference_molecule.release_status               REL 
_pdbx_reference_molecule.replaces                     ? 
_pdbx_reference_molecule.replaced_by                  ? 
_pdbx_reference_molecule.compound_details             "Lipid II is a precursor molecule in the synthesis of the cell wall of bacteria" 
_pdbx_reference_molecule.description                  ? 
_pdbx_reference_molecule.representative_PDB_id_code   6YFY 
# 
loop_
_pdbx_reference_entity_list.prd_id 
_pdbx_reference_entity_list.ref_entity_id 
_pdbx_reference_entity_list.component_id 
_pdbx_reference_entity_list.type 
_pdbx_reference_entity_list.details 
PRD_002268 1 1 polymer     .   
PRD_002268 2 2 non-polymer 2HP 
PRD_002268 2 3 non-polymer 2HP 
PRD_002268 3 4 non-polymer P1W 
PRD_002268 3 5 non-polymer P1W 
PRD_002268 3 6 non-polymer P1W 
PRD_002268 4 7 non-polymer MUB 
PRD_002268 5 8 non-polymer NAG 
# 
loop_
_pdbx_reference_entity_nonpoly.prd_id 
_pdbx_reference_entity_nonpoly.ref_entity_id 
_pdbx_reference_entity_nonpoly.name 
_pdbx_reference_entity_nonpoly.chem_comp_id 
_pdbx_reference_entity_nonpoly.details 
PRD_002268 2 "DIHYDROGENPHOSPHATE ION" 2HP ? 
PRD_002268 3 3-methylbut-2-en-1-ol     P1W ? 
PRD_002268 4 "N-ACETYLMURAMIC ACID"    MUB ? 
PRD_002268 5 N-ACETYL-D-GLUCOSAMINE    NAG ? 
# 
loop_
_pdbx_reference_entity_link.prd_id 
_pdbx_reference_entity_link.link_id 
_pdbx_reference_entity_link.link_class 
_pdbx_reference_entity_link.ref_entity_id_1 
_pdbx_reference_entity_link.entity_seq_num_1 
_pdbx_reference_entity_link.comp_id_1 
_pdbx_reference_entity_link.atom_id_1 
_pdbx_reference_entity_link.ref_entity_id_2 
_pdbx_reference_entity_link.entity_seq_num_2 
_pdbx_reference_entity_link.comp_id_2 
_pdbx_reference_entity_link.atom_id_2 
_pdbx_reference_entity_link.value_order 
_pdbx_reference_entity_link.component_1 
_pdbx_reference_entity_link.component_2 
_pdbx_reference_entity_link.details 
_pdbx_reference_entity_link.nonpoly_res_num_1 
_pdbx_reference_entity_link.nonpoly_res_num_2 
PRD_002268 1 PN 1 1 ALA N  4 . MUB C10 sing 1 7 . ? ? 
PRD_002268 2 NN 2 . 2HP P  4 . MUB O1  sing 2 7 . ? ? 
PRD_002268 3 NN 2 . 2HP O4 2 . 2HP P   sing 2 3 . ? ? 
PRD_002268 4 NN 2 . 2HP O4 3 . P1W C1  sing 3 4 . ? ? 
PRD_002268 5 NN 3 . P1W C4 3 . P1W C1  sing 4 5 . ? ? 
PRD_002268 6 NN 3 . P1W C4 3 . P1W C1  sing 5 6 . ? ? 
PRD_002268 7 NN 4 . MUB O4 5 . NAG C1  sing 7 8 . ? ? 
# 
loop_
_pdbx_reference_entity_poly_link.prd_id 
_pdbx_reference_entity_poly_link.ref_entity_id 
_pdbx_reference_entity_poly_link.link_id 
_pdbx_reference_entity_poly_link.atom_id_1 
_pdbx_reference_entity_poly_link.comp_id_1 
_pdbx_reference_entity_poly_link.entity_seq_num_1 
_pdbx_reference_entity_poly_link.atom_id_2 
_pdbx_reference_entity_poly_link.comp_id_2 
_pdbx_reference_entity_poly_link.entity_seq_num_2 
_pdbx_reference_entity_poly_link.value_order 
_pdbx_reference_entity_poly_link.component_id 
_pdbx_reference_entity_poly_link.details 
_pdbx_reference_entity_poly_link.insert_code_1 
_pdbx_reference_entity_poly_link.insert_code_2 
PRD_002268 1 1 C  ALA 1 N DGL 2 sing 1 ? ? ? 
PRD_002268 1 2 CD DGL 2 N LYS 3 sing 1 ? ? ? 
PRD_002268 1 3 C  LYS 3 N DAL 4 sing 1 ? ? ? 
PRD_002268 1 4 C  DAL 4 N DAL 5 sing 1 ? ? ? 
# 
_pdbx_reference_entity_poly.prd_id          PRD_002268 
_pdbx_reference_entity_poly.ref_entity_id   1 
_pdbx_reference_entity_poly.db_code         . 
_pdbx_reference_entity_poly.db_name         . 
_pdbx_reference_entity_poly.type            peptide-like 
# 
_pdbx_reference_entity_sequence.prd_id          PRD_002268 
_pdbx_reference_entity_sequence.ref_entity_id   1 
_pdbx_reference_entity_sequence.type            peptide-like 
_pdbx_reference_entity_sequence.NRP_flag        N 
# 
loop_
_pdbx_reference_entity_poly_seq.prd_id 
_pdbx_reference_entity_poly_seq.ref_entity_id 
_pdbx_reference_entity_poly_seq.num 
_pdbx_reference_entity_poly_seq.mon_id 
_pdbx_reference_entity_poly_seq.parent_mon_id 
_pdbx_reference_entity_poly_seq.hetero 
_pdbx_reference_entity_poly_seq.observed 
PRD_002268 1 1 ALA ALA N Y 
PRD_002268 1 2 DGL .   N Y 
PRD_002268 1 3 LYS LYS N Y 
PRD_002268 1 4 DAL .   N Y 
PRD_002268 1 5 DAL .   N Y 
# 
_pdbx_reference_entity_src_nat.prd_id                PRD_002268 
_pdbx_reference_entity_src_nat.ref_entity_id         1 
_pdbx_reference_entity_src_nat.ordinal               1 
_pdbx_reference_entity_src_nat.taxid                 1286 
_pdbx_reference_entity_src_nat.organism_scientific   "Staphylococcus simulans" 
_pdbx_reference_entity_src_nat.source                . 
_pdbx_reference_entity_src_nat.db_code               . 
_pdbx_reference_entity_src_nat.db_name               . 
_pdbx_reference_entity_src_nat.strain                ? 
# 
loop_
_pdbx_prd_audit.prd_id 
_pdbx_prd_audit.date 
_pdbx_prd_audit.processing_site 
_pdbx_prd_audit.action_type 
PRD_002268 2020-06-04 PDBE "Create molecule" 
PRD_002268 2020-08-10 PDBE "Modify class"    
PRD_002268 2020-08-19 RCSB "Initial release" 
PRD_002268 2023-06-11 RCSB "Modify audit"    
# 
