1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 0000-0002-5007-8434 Rosengren, K.J. 0000-0002-9316-1465 Payne, C.D. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C3 H7 N O2 89.093 y ALANINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N O N 22 N N N 23 N O N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N N N 35 N C N 36 N C N 37 N O N 38 N O N 39 N H N 40 N H N 41 N H N 42 N H N 43 N H N 44 N N N 45 S C N 46 N C N 47 N O N 48 N C N 49 N C N 50 N C N 51 N C N 52 N O N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N H N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N N N 67 S C N 68 N C N 69 N O N 70 N C Y 71 N C Y 72 N C Y 73 N C Y 74 N C Y 75 N C Y 76 N C N 77 N O N 78 N H N 79 N H N 80 N H N 81 N H N 82 N H N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N N N 90 S C N 91 N C N 92 N O N 93 R C N 94 N O N 95 N C N 96 N O N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N N N 107 S C N 108 N C N 109 N O N 110 N C N 111 N C N 112 N C N 113 N O N 114 N H N 115 N H N 116 N H N 117 N H N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N doub N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N sing N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N doub N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N doub N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N sing N 68 N doub N 69 N sing N 70 N sing N 71 N sing N 72 N sing Y 73 N doub Y 74 N sing Y 75 N sing N 76 N sing Y 77 N doub N 78 N sing Y 79 N doub N 80 N sing Y 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N doub N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N sing N 107 N doub N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing US J.Biol.Chem. JBCHA3 0071 1083-351X 295 14510 14521 10.1074/jbc.RA120.014781 32817170 The genetic origin of evolidine, the first cyclopeptide discovered in plants, and related orbitides. 2020 0000-0002-6971-4285 0000-0001-6614-4216 0000-0002-7671-6983 0000-0002-5007-8434 0000-0003-4957-6388 10.2210/pdb6wpv/pdb pdb_00006wpv 10.13018/BMR30747 833.971 Xanthoxycyclin D 1 syn polymer no no GTVAVQFL GTVAVQFL A polypeptide(L) n n n n n n n n citation citation_author citation citation_author database_2 pdbx_database_status chem_comp_atom chem_comp_bond database_2 pdbx_entry_details pdbx_modification_feature repository Initial release Database references Database references Database references Other Data collection Database references Structure summary 1 0 2020-08-26 1 1 2020-09-02 1 2 2020-10-28 1 3 2023-06-14 1 4 2024-11-06 _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation_author.identifier_ORCID _citation.journal_volume _citation.page_first _citation.page_last _citation_author.identifier_ORCID _citation_author.name _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_nmr_data _database_2.pdbx_DOI Australia Australian Research Council (ARC) DP190102058 Solution NMR structure of the orbitide xanthoxycyclin D N RCSB Y RCSB 2020-04-28 REL REL REL REL 1312821 Melicope xanthoxyloides sample 1 8 Y A GLY 1 Non-standard linkage N A GLY 1 A LEU 8 C A LEU 8 1_555 1_555 None structures with the lowest energy 50 20 isotropic 1 2D 1H-1H TOCSY isotropic 1 2D 1H-1H NOESY isotropic 1 2D DQF-COSY isotropic 1 2D 1H-13C HSQC 8 mg/mL natural abundance 0 mM Xanthoxycyclin D 3.5 pH 1 atm 298 K Initial calculations for distance restraints simulated annealing Minimization in explicit water, Simulated annealing with torsion angle dynamics simulated annealing 1 lowest energy 8 mg/mL Xanthoxycyclin D, 90% H2O/10% D2O Xanthoxycyclin D 90% H2O/10% D2O solution Brunger, Adams, Clore, Gros, Nilges and Read refinement CNS 1.2 Brunger, Adams, Clore, Gros, Nilges and Read structure calculation CNS 1.2 Guntert, Mumenthaler and Wuthrich refinement CYANA 3.97 Keller and Wuthrich chemical shift assignment CARA Keller and Wuthrich peak picking CARA Bruker Biospin processing TopSpin 4.0.3 Guntert, Mumenthaler and Wuthrich structure calculation CYANA 3.97 equipped with cryoprobe. 700 Bruker AVANCE III GLY 1 n 1 GLY 1 A THR 2 n 2 THR 2 A VAL 3 n 3 VAL 3 A ALA 4 n 4 ALA 4 A VAL 5 n 5 VAL 5 A GLN 6 n 6 GLN 6 A PHE 7 n 7 PHE 7 A LEU 8 n 8 LEU 8 A author_defined_assembly 1 monomeric mass spectrometry 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 identity operation 0.0000000000 0.0000000000 0.0000000000 N Solution NMR structure of the orbitide xanthoxycyclin D 1 N N covale 1.319 both sing A GLY 1 A N GLY 1 1_555 A LEU 8 A C LEU 8 1_555 PLANT PROTEIN orbitide, cyclic plant peptide, PLANT PROTEIN 6WPV PDB 1 1 6WPV 1 8 6WPV 1 8 6WPV A 1 1 8