1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Conibear, A.C. Rosengren, K. Daly, N.L. Troiera Henriques, S. Craik, D.J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C4 H9 N O2 103.120 n ALPHA-AMINOBUTYRIC ACID L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C2 H5 N O2 75.067 y GLYCINE 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 C N 7 N O 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 H N 15 N H N 16 N H N 17 N N N 18 S C N 19 N C N 20 N O N 21 N C N 22 N C N 23 N C N 24 N N N 25 N C N 26 N N N 27 N N N 28 N O N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H 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 N C N 46 N C N 47 N O N 48 N O N 49 N H N 50 N H N 51 N H N 52 N H N 53 N H N 54 N N N 55 S C N 56 N C N 57 N O N 58 N C N 59 N C N 60 N C N 61 N O N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 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 sing N 20 N sing N 21 N sing N 22 N doub N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing 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 doub N 37 N sing N 38 N sing 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 sing N 48 N doub 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 doub 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 sing US J.Biol.Chem. JBCHA3 0071 0021-9258 288 10830 10840 10.1074/jbc.M113.451047 23430740 The cyclic cystine ladder in theta-defensins is important for structure and stability, but not antibacterial activity. 2013 10.2210/pdb2m2x/pdb pdb_00002m2x 1982.434 [Aba3,5,7,12,14,16]BTD-2 1 syn polymer no yes GV(ABA)R(ABA)V(ABA)RRGV(ABA)R(ABA)V(ABA)RR GVARAVARRGVARAVARR A polypeptide(L) n n n n n n n n n n n n n n n n n n Head-to-tail (Arg-Gly) cyclic peptide. Residues 3, 5, 7, 12, 14, and 16 are replaced by alpha-aminobutyric acid. pdbx_database_related pdbx_entity_src_syn pdbx_nmr_sample_details pdbx_nmr_software pdbx_nmr_spectrometer struct_conn database_2 pdbx_database_status chem_comp_atom chem_comp_bond repository Initial release Database references Database references Data collection Database references Derived calculations Experimental preparation Source and taxonomy Database references Other Data collection 1 0 2013-02-27 1 1 2013-03-20 1 2 2013-07-10 1 3 2019-11-06 1 4 2023-06-14 1 5 2023-11-15 _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.organism_scientific _pdbx_nmr_sample_details.contents _pdbx_nmr_software.name _pdbx_nmr_spectrometer.model _struct_conn.pdbx_leaving_atom_flag _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_nmr_data High resolution NMR structure of a symmetrical theta-defensin, BTD-2 BMRB Y RCSB 2013-01-03 REL REL REL REL solid phase peptide synthesis 32630 synthetic construct sample Antimicrobial [Aba3,5,7,12,14,16]BTD-2 Cyclic peptide 100 60 6 6 28 0 4 0 11 10 structures with the lowest energy 50 20 2D 1H-1H TOCSY 2D 1H-1H NOESY 2D 1H-13C HSQC 2D DQF-COSY 2D 1H-1H ECOSY 0.4 mM 10 uM 0.5 mM 10 uM 5 ambient 298 K Structures were calculated using the scripts from the RECOORD database. Used to calculate preliminary structures simulated annealing, torsion angle dynamics 1 lowest energy 0.4 mM [Aba3,5,7,12,14,16]BTD-2-1, 10 uM DSS-2, 90% H2O/10% D2O 90% H2O/10% D2O 0.5 mM [Aba3,5,7,12,14,16]BTD-2-3, 10 uM DSS-4, 100% D2O 100% D2O CCPN data analysis CcpNmr 2.1 CCPN chemical shift assignment CcpNmr 2.1 CCPN peak picking CcpNmr 2.1 Bruker Biospin collection TopSpin 2.1 Bruker Biospin processing TopSpin 2.1 Guntert, Mumenthaler and Wuthrich structure solution CYANA 3.0 Brunger, Adams, Clore, Gros, Nilges and Read refinement CNS 2.1 Guntert, Mumenthaler and Wuthrich refinement CYANA 3.0 500 Bruker AVANCE Bruker Avance 600 Bruker AVANCE Bruker Avance GLY 1 n 1 GLY 1 A VAL 2 n 2 VAL 2 A ABA 3 n 3 ABA 3 A ARG 4 n 4 ARG 4 A ABA 5 n 5 ABA 5 A VAL 6 n 6 VAL 6 A ABA 7 n 7 ABA 7 A ARG 8 n 8 ARG 8 A ARG 9 n 9 ARG 9 A GLY 10 n 10 GLY 10 A VAL 11 n 11 VAL 11 A ABA 12 n 12 ABA 12 A ARG 13 n 13 ARG 13 A ABA 14 n 14 ABA 14 A VAL 15 n 15 VAL 15 A ABA 16 n 16 ABA 16 A ARG 17 n 17 ARG 17 A ARG 18 n 18 ARG 18 A author_defined_assembly 1 monomeric A ABA 3 ALPHA-AMINOBUTYRIC ACID A ABA 3 ALA A ABA 5 ALPHA-AMINOBUTYRIC ACID A ABA 5 ALA A ABA 7 ALPHA-AMINOBUTYRIC ACID A ABA 7 ALA A ABA 12 ALPHA-AMINOBUTYRIC ACID A ABA 12 ALA A ABA 14 ALPHA-AMINOBUTYRIC ACID A ABA 14 ALA A ABA 16 ALPHA-AMINOBUTYRIC ACID A ABA 16 ALA 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N VAL 2 A N VAL 2 A O ARG 17 A O ARG 17 2 A ABA 14 -143.58 57.71 4 A ABA 7 -118.68 74.31 4 A ABA 14 -95.39 39.16 4 A ABA 16 -150.83 80.96 5 A ABA 16 -160.16 83.24 6 A ARG 13 -56.69 104.46 6 A ABA 14 -154.30 45.99 6 A ABA 16 -101.47 63.51 7 A VAL 11 -173.62 128.67 8 A ARG 4 -66.45 99.23 8 A VAL 11 -147.33 39.83 9 A ARG 9 -57.00 97.96 9 A ABA 14 -93.10 50.37 10 A ABA 5 -102.69 53.06 10 A ABA 7 -102.53 66.62 11 A ABA 5 -76.45 -163.69 12 A ABA 7 -118.70 73.93 12 A VAL 11 -114.91 77.01 12 A ABA 14 -103.60 78.86 12 A ABA 16 -112.28 70.29 13 A ABA 16 -63.92 89.09 15 A ARG 13 -63.69 94.79 15 A ABA 16 -101.65 65.38 16 A ABA 12 -104.30 -169.01 17 A ABA 7 -116.79 65.75 17 A ABA 12 -111.67 50.00 18 A VAL 2 -151.59 79.51 18 A ABA 5 -111.85 77.44 18 A ARG 17 -28.32 114.55 19 A ABA 7 -68.21 94.43 19 A ABA 14 -115.37 63.95 lowest energy, model1 Solution structure of the antimicrobial peptide [Aba3,5,7,12,14,16]BTD-2 1 N N covale 1.302 both A GLY 1 A N GLY 1 1_555 A ARG 18 A C ARG 18 1_555 covale 1.301 both sing A VAL 2 A C VAL 2 1_555 A ABA 3 A N ABA 3 1_555 covale 1.300 both sing A ABA 3 A C ABA 3 1_555 A ARG 4 A N ARG 4 1_555 covale 1.306 both sing A ARG 4 A C ARG 4 1_555 A ABA 5 A N ABA 5 1_555 covale 1.306 both sing A ABA 5 A C ABA 5 1_555 A VAL 6 A N VAL 6 1_555 covale 1.284 both sing A VAL 6 A C VAL 6 1_555 A ABA 7 A N ABA 7 1_555 covale 1.302 both sing A ABA 7 A C ABA 7 1_555 A ARG 8 A N ARG 8 1_555 covale 1.302 both sing A VAL 11 A C VAL 11 1_555 A ABA 12 A N ABA 12 1_555 covale 1.298 both sing A ABA 12 A C ABA 12 1_555 A ARG 13 A N ARG 13 1_555 covale 1.310 both sing A ARG 13 A C ARG 13 1_555 A ABA 14 A N ABA 14 1_555 covale 1.304 both sing A ABA 14 A C ABA 14 1_555 A VAL 15 A N VAL 15 1_555 covale 1.276 both sing A VAL 15 A C VAL 15 1_555 A ABA 16 A N ABA 16 1_555 covale 1.300 both sing A ABA 16 A C ABA 16 1_555 A ARG 17 A N ARG 17 1_555 ANTIMICROBIAL PROTEIN theta-defensin, cyclic peptides, cyclic cystine ladder, disulfide bond, antimicrobial peptide, ANTIMICROBIAL PROTEIN 2M2X PDB 1 2M2X GVXRXVXRRGVXRXVXRR 1 18 2M2X 1 18 2M2X A 1 1 18 2 anti-parallel A VAL 2 A VAL 2 A ABA 3 A ABA 3 A ABA 16 A ABA 16 A ARG 17 A ARG 17