1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Arndt, H.D. Bockelmann, D. Knoll, A. Lamberth, S. Griesinger, C. Koert, U. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H13 N O2 131.173 D-LEUCINE D-peptide linking C5 H11 N O2 117.146 D-VALINE D-peptide linking C2 H7 N O 61.083 ETHANOLAMINE L-peptide COOH carboxy terminus C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking C7 H11 N O5 189.166 n 4-oxidanylidene-4-[[(2~{S})-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]butanoic acid L-peptide NH3 amino terminus 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 R C N 16 N C N 17 N C N 18 N C N 19 N C N 20 N C N 21 N O N 22 N O N 23 N H 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 H N 35 N H N 36 N N N 37 R C N 38 N C N 39 N C N 40 N C N 41 N C N 42 N O N 43 N O N 44 N H N 45 N H N 46 N H N 47 N H N 48 N H N 49 N H N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N C N 56 N N N 57 N C N 58 N O 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 N Y 75 N C Y 76 N C Y 77 N C Y 78 N C Y 79 N C N 80 N O 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 H N 90 N H N 91 N H N 92 N H N 93 N N N 94 S C N 95 N C N 96 N O N 97 N C N 98 N C N 99 N C N 100 N O N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N H N 112 N N N 113 S C N 114 N C N 115 N O N 116 N C N 117 N C N 118 N O N 119 N C N 120 N C N 121 N C N 122 N O N 123 N O N 124 N O N 125 N H N 126 N H N 127 N H N 128 N H N 129 N H N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 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 sing 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 doub 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 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 sing N 49 N doub 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 Y 78 N sing Y 79 N sing N 80 N sing Y 81 N sing Y 82 N doub N 83 N sing Y 84 N doub N 85 N sing Y 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N doub 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 sing N 108 N sing N 109 N doub N 110 N sing N 111 N sing N 112 N doub N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N doub N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing GE Angew.Chem.Int.Ed.Engl. 9999 1433-7851 41 4062 10.1002/1521-3773(20021104)41:21<4062::AID-ANIE4062>3.0.CO;2-U 12412082 Cation Control in Functional Helical Programming: Structures of a D,L-Peptide Ion Channel 2002 10.2210/pdb1kqe/pdb pdb_00001kqe 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M x-ray 1 1.0 GRAMICIDIN A RESIDUES 5-16 1613.939 MINI-GRAMICIDIN A 2 syn polymer GRAMICIDIN A RESIDUES 5-16 1513.866 MINI-GRAMICIDIN A 2 syn polymer no yes (X5P)(DVA)V(DVA)W(DLE)W(DLE)W(DLE)W(ETA) AVVVWLWLWLWX A,D polypeptide(L) no yes A(DVA)V(DVA)W(DLE)W(DLE)W(DLE)W(ETA) AVVVWLWLWLWX B,E polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n pdbx_molecule_features atom_site chem_comp database_2 entity entity_poly entity_poly_seq pdbx_entity_nonpoly pdbx_entity_src_syn pdbx_molecule pdbx_nonpoly_scheme pdbx_poly_seq_scheme pdbx_struct_assembly_gen struct_asym struct_conn struct_ref struct_ref_seq struct_site struct_site_gen atom_site chem_comp_atom chem_comp_bond struct_conn repository Initial release Version format compliance Version format compliance Atomic model Database references Derived calculations Non-polymer description Structure summary Advisory Other Structure summary Database references Derived calculations Data collection Structure summary Atomic model Data collection Database references Derived calculations Non-polymer description Polymer sequence Source and taxonomy Structure summary Atomic model Data collection Derived calculations 1 0 2002-11-27 1 1 2011-06-14 1 2 2011-07-13 1 3 2011-07-27 1 4 2011-08-10 1 5 2012-12-12 1 6 2013-03-06 1 7 2013-03-27 1 8 2013-04-10 1 9 2018-07-18 2 0 2023-06-14 3 0 2023-11-15 _pdbx_molecule_features.details _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.group_PDB _atom_site.label_asym_id _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.type_symbol _chem_comp.formula _chem_comp.formula_weight _chem_comp.id _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.type _database_2.pdbx_DOI _database_2.pdbx_database_accession _entity.details _entity.formula_weight _entity.pdbx_description _entity.pdbx_number_of_molecules _entity.type _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_struct_assembly_gen.asym_id_list _struct_ref_seq.pdbx_db_accession _struct_ref_seq.ref_id _struct_site.pdbx_num_residues _atom_site.auth_atom_id _atom_site.label_atom_id _struct_conn.pdbx_leaving_atom_flag CRYSTAL STRUCTURE OF GRAMICIDIN S COMPLEXED WITH ALKALINE PROTEINASE SAVINASE CRYSTAL STRUCTURE OF GRAMICIDIN A FROM CRYSTALS GROWN IN A LIPID CUBIC PHASE. CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLEXED WITH CESIUM CHLORIDE CRYSTAL STRUCTURE OF GRAMICIDIN A FROM BACILLUS BREVIS CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLEXED WITH CESIUM CHLORIDE CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLRXED WITH POTASSIUM THIOCYANATE SOLUTION STRUCTURE OF THE GRAMICIDIN A SOLUTION STRUCTURE OF GRAMICIDIN A IN SODIUM DODECYL SULFATE MICELLES SOLID STATE NMR STRUCTURE OF GRAMICIDIN A IN HYDRATED DMPC BILAYERS, SOLUTION STRUCTURE OF GRAMICIDIN A IN METHANOL IN THE PRESENCE OF CACL SOLUTION STRUCTURE OF GRAMICIDIN A (W15G) IN SODIUM DODECYL SULFATE MICELLES SOLUTION STRUCTURE OF GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE MICELLES SOLUTION STRUCTURE OF GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE MICELLES IN THE PRESENCE OF EXCESS NA+ SOLUTION STRUCTURE OF GRAMICIDIN A (V1F) IN SODIUM DODECYL SULFATE MICELLES SOLUTION STRUCTURE OF GRAMICIDIN B IN SODIUM DODECYL SULFATE MICELLES SOLUTION STRUCTURE OF GRAMICIDIN C IN SODIUM DODECYL SULFATE MICELLES SOLUTION STRUCTURE OF F1-GRAMICIDIN C IN SODIUM DODECYL SULFATE MICELLES SOLUTION STRUCTURE OF A LINKED UNSYMMETRIC GRAMICIDIN A IN A MEMBRANE-ISOELECTRICAL SOLVENTS MIXTURE, IN THE PRESENCE OF CSCL CRYSTAL STRUCTURE OF GRAMICIDIN D IN ETHANOL CRYSTAL STRUCTURE OF GRAMICIDIN D COMPLEX WITH KI IN METHANOL CRYSTAL STRUCTURE OF GRAMICIDIN D COMPLEX WITH NAI CRYSTAL STRUCTURE OF GRAMICIDIN D IN N-PROPANOL CRYSTAL STRUCTURE OF GRAMICIDIN D IN METHANOL CRYSTAL STRUCTURE OF GRAMICIDIN D IN ETHANOL RCSB Y RCSB 2002-01-05 REL REL 1393 Brevibacillus brevis sample 1 12 1393 Brevibacillus brevis sample 1 12 GRAMICIDIN IS A HETEROGENEOUS MIXTURE OF SEVERAL COMPOUNDS INCLUDING GRAMICIDIN A, B AND C WHICH ARE OBTAINED FROM BACILLUS BREVIS AND CALLED COLLECTIVELY GRAMICIDIN D HERE, A MODIFIDED GRAMICIDIN A IS REPRESENTED BY TWO SEQUENCES (SEQRES) AND ONE HET (SIN) Antibiotic THE N-TERMINI OF THE TWO IDENTICAL PEPTIDES, EACH A TRUNCATED GRAMICIDIN A WERE LINKED BY A SUCCINIC ACID IN A HEAD-TO-HEAD MANNER. MINI-GRAMICIDIN A DIMER Polypeptide MINIMIZED AVERAGE STRUCTURE CALCULATED FROM THE SIXTEEN ENERGETICALLY FAVOURED STRUCTURES OUT OF THE TOTAL 200 CALCULATED STRUCTURES 200 1 DQF-COSY 2D NOESY 293 K simulated annealing closest to the average BRUNGER refinement X-PLOR structure solution X-PLOR 600 Bruker AMX XXX 5 n 1 X5P 5 A DVA 6 n 2 DVA 6 A VAL 7 n 3 VAL 7 A DVA 8 n 4 DVA 8 A TRP 9 n 5 TRP 9 A DLE 10 n 6 DLE 10 A TRP 11 n 7 TRP 11 A DLE 12 n 8 DLE 12 A TRP 13 n 9 TRP 13 A DLE 14 n 10 DLE 14 A TRP 15 n 11 TRP 15 A ETA 16 n 12 ETA 16 A ALA 5 n 1 ALA 5 B DVA 6 n 2 DVA 6 B VAL 7 n 3 VAL 7 B DVA 8 n 4 DVA 8 B TRP 9 n 5 TRP 9 B DLE 10 n 6 DLE 10 B TRP 11 n 7 TRP 11 B DLE 12 n 8 DLE 12 B TRP 13 n 9 TRP 13 B DLE 14 n 10 DLE 14 B TRP 15 n 11 TRP 15 B ETA 16 n 12 ETA 16 B XXX 5 n 1 X5P 5 D DVA 6 n 2 DVA 6 D VAL 7 n 3 VAL 7 D DVA 8 n 4 DVA 8 D TRP 9 n 5 TRP 9 D DLE 10 n 6 DLE 10 D TRP 11 n 7 TRP 11 D DLE 12 n 8 DLE 12 D TRP 13 n 9 TRP 13 D DLE 14 n 10 DLE 14 D TRP 15 n 11 TRP 15 D ETA 16 n 12 ETA 16 D ALA 5 n 1 ALA 5 E DVA 6 n 2 DVA 6 E VAL 7 n 3 VAL 7 E DVA 8 n 4 DVA 8 E TRP 9 n 5 TRP 9 E DLE 10 n 6 DLE 10 E TRP 11 n 7 TRP 11 E DLE 12 n 8 DLE 12 E TRP 13 n 9 TRP 13 E DLE 14 n 10 DLE 14 E TRP 15 n 11 TRP 15 E ETA 16 n 12 ETA 16 E author_defined_assembly 4 tetrameric 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 O DVA 8 A O DVA 4 E N VAL 7 D N VAL 3 B O DVA 8 B O DVA 4 D N VAL 7 C N VAL 3 1 A E H O DLE TRP 14 11 1.52 1 A E O H TRP DLE 11 14 1.53 1 B D O H TRP DLE 11 14 1.55 1 B D H O DLE TRP 14 11 1.56 1 A TRP 15 13.52 1 E TRP 15 13.77 1 A DVA 8 124.00 165.26 1 A TRP 13 -161.16 101.64 1 B DVA 8 125.10 167.57 1 B TRP 13 -160.06 100.74 1 B TRP 15 -156.63 38.50 1 D DVA 8 125.02 167.21 1 D TRP 15 -156.98 42.47 1 E DVA 8 124.12 165.85 data collection Felix2000 refinement X-PLOR data reduction FELIX2000 Solution structure of a linked shortened gramicidin A in benzene/acetone 10:1 1 N N 2 N N 1 N N 2 N N covale 1.341 both A X5P 5 A C1 X5P 1 1_555 B ALA 5 B N ALA 1 1_555 covale 1.326 both A DVA 6 A C DVA 2 1_555 A VAL 7 A N VAL 3 1_555 covale 1.329 both A VAL 7 A C VAL 3 1_555 A DVA 8 A N DVA 4 1_555 covale 1.320 both A DVA 8 A C DVA 4 1_555 A TRP 9 A N TRP 5 1_555 covale 1.320 both A TRP 9 A C TRP 5 1_555 A DLE 10 A N DLE 6 1_555 covale 1.317 both A DLE 10 A C DLE 6 1_555 A TRP 11 A N TRP 7 1_555 covale 1.331 both A TRP 11 A C TRP 7 1_555 A DLE 12 A N DLE 8 1_555 covale 1.309 both A DLE 12 A C DLE 8 1_555 A TRP 13 A N TRP 9 1_555 covale 1.306 both A TRP 13 A C TRP 9 1_555 A DLE 14 A N DLE 10 1_555 covale 1.322 both A DLE 14 A C DLE 10 1_555 A TRP 15 A N TRP 11 1_555 covale 1.339 both A TRP 15 A C TRP 11 1_555 A ETA 16 A N ETA 12 1_555 covale 1.329 both B ALA 5 B C ALA 1 1_555 B DVA 6 B N DVA 2 1_555 covale 1.328 both B DVA 6 B C DVA 2 1_555 B VAL 7 B N VAL 3 1_555 covale 1.330 both B VAL 7 B C VAL 3 1_555 B DVA 8 B N DVA 4 1_555 covale 1.318 both B DVA 8 B C DVA 4 1_555 B TRP 9 B N TRP 5 1_555 covale 1.327 both B TRP 9 B C TRP 5 1_555 B DLE 10 B N DLE 6 1_555 covale 1.319 both B DLE 10 B C DLE 6 1_555 B TRP 11 B N TRP 7 1_555 covale 1.321 both B TRP 11 B C TRP 7 1_555 B DLE 12 B N DLE 8 1_555 covale 1.313 both B DLE 12 B C DLE 8 1_555 B TRP 13 B N TRP 9 1_555 covale 1.310 both B TRP 13 B C TRP 9 1_555 B DLE 14 B N DLE 10 1_555 covale 1.326 both B DLE 14 B C DLE 10 1_555 B TRP 15 B N TRP 11 1_555 covale 1.338 both B TRP 15 B C TRP 11 1_555 B ETA 16 B N ETA 12 1_555 covale 1.340 both D X5P 5 C C1 X5P 1 1_555 E ALA 5 D N ALA 1 1_555 covale 1.327 both D DVA 6 C C DVA 2 1_555 D VAL 7 C N VAL 3 1_555 covale 1.330 both D VAL 7 C C VAL 3 1_555 D DVA 8 C N DVA 4 1_555 covale 1.318 both D DVA 8 C C DVA 4 1_555 D TRP 9 C N TRP 5 1_555 covale 1.327 both D TRP 9 C C TRP 5 1_555 D DLE 10 C N DLE 6 1_555 covale 1.320 both D DLE 10 C C DLE 6 1_555 D TRP 11 C N TRP 7 1_555 covale 1.323 both D TRP 11 C C TRP 7 1_555 D DLE 12 C N DLE 8 1_555 covale 1.314 both D DLE 12 C C DLE 8 1_555 D TRP 13 C N TRP 9 1_555 covale 1.311 both D TRP 13 C C TRP 9 1_555 D DLE 14 C N DLE 10 1_555 covale 1.326 both D DLE 14 C C DLE 10 1_555 D TRP 15 C N TRP 11 1_555 covale 1.340 both D TRP 15 C C TRP 11 1_555 D ETA 16 C N ETA 12 1_555 covale 1.328 both E ALA 5 D C ALA 1 1_555 E DVA 6 D N DVA 2 1_555 covale 1.328 both E DVA 6 D C DVA 2 1_555 E VAL 7 D N VAL 3 1_555 covale 1.328 both E VAL 7 D C VAL 3 1_555 E DVA 8 D N DVA 4 1_555 covale 1.319 both E DVA 8 D C DVA 4 1_555 E TRP 9 D N TRP 5 1_555 covale 1.322 both E TRP 9 D C TRP 5 1_555 E DLE 10 D N DLE 6 1_555 covale 1.315 both E DLE 10 D C DLE 6 1_555 E TRP 11 D N TRP 7 1_555 covale 1.329 both E TRP 11 D C TRP 7 1_555 E DLE 12 D N DLE 8 1_555 covale 1.312 both E DLE 12 D C DLE 8 1_555 E TRP 13 D N TRP 9 1_555 covale 1.305 both E TRP 13 D C TRP 9 1_555 E DLE 14 D N DLE 10 1_555 covale 1.319 both E DLE 14 D C DLE 10 1_555 E TRP 15 D N TRP 11 1_555 covale 1.339 both E TRP 15 D C TRP 11 1_555 E ETA 16 D N ETA 12 1_555 ANTIBIOTIC GRAMICIDIN, ANTIFUNGAL, ANTIBACTERIAL, ANTIBIOTIC, MEMBRANE ION CHANNEL, LINEAR GRAMICIDIN, METAL TRANSPORT 1KQE PDB 1 1 1KQE 1KQE PDB 2 1 1KQE 5 16 1KQE 5 16 1KQE A 1 1 12 5 16 1KQE 5 16 1KQE B 2 1 12 5 16 1KQE 5 16 1KQE D 1 1 12 5 16 1KQE 5 16 1KQE E 2 1 12 2 2 anti-parallel anti-parallel A DVA 6 A DVA 2 A DLE 14 A DLE 10 E DVA 6 D DVA 2 E DLE 14 D DLE 10 B DVA 6 B DVA 2 B DLE 14 B DLE 10 D DVA 6 C DVA 2 D DLE 14 C DLE 10 BINDING SITE FOR CHAINS A AND B OF A LINKED GRAMICIDIN Software 23 BINDING SITE FOR CHAINS D AND E OF A LINKED GRAMICIDIN Software 23 D DVA 6 C DVA 2 23 1_555 D VAL 7 C VAL 3 23 1_555 D DVA 8 C DVA 4 23 1_555 D TRP 9 C TRP 5 23 1_555 D DLE 10 C DLE 6 23 1_555 D TRP 11 C TRP 7 23 1_555 D DLE 12 C DLE 8 23 1_555 D TRP 13 C TRP 9 23 1_555 D DLE 14 C DLE 10 23 1_555 D TRP 15 C TRP 11 23 1_555 D ETA 16 C ETA 12 23 1_555 E ALA 5 D ALA 1 23 1_555 E DVA 6 D DVA 2 23 1_555 E VAL 7 D VAL 3 23 1_555 E DVA 8 D DVA 4 23 1_555 E TRP 9 D TRP 5 23 1_555 E DLE 10 D DLE 6 23 1_555 E TRP 11 D TRP 7 23 1_555 E DLE 12 D DLE 8 23 1_555 E TRP 13 D TRP 9 23 1_555 E DLE 14 D DLE 10 23 1_555 E TRP 15 D TRP 11 23 1_555 E ETA 16 D ETA 12 23 1_555 A DVA 6 A DVA 2 23 1_555 A VAL 7 A VAL 3 23 1_555 A DVA 8 A DVA 4 23 1_555 A TRP 9 A TRP 5 23 1_555 A DLE 10 A DLE 6 23 1_555 A TRP 11 A TRP 7 23 1_555 A DLE 12 A DLE 8 23 1_555 A TRP 13 A TRP 9 23 1_555 A DLE 14 A DLE 10 23 1_555 A TRP 15 A TRP 11 23 1_555 A ETA 16 A ETA 12 23 1_555 B ALA 5 B ALA 1 23 1_555 B DVA 6 B DVA 2 23 1_555 B VAL 7 B VAL 3 23 1_555 B DVA 8 B DVA 4 23 1_555 B TRP 9 B TRP 5 23 1_555 B DLE 10 B DLE 6 23 1_555 B TRP 11 B TRP 7 23 1_555 B DLE 12 B DLE 8 23 1_555 B TRP 13 B TRP 9 23 1_555 B DLE 14 B DLE 10 23 1_555 B TRP 15 B TRP 11 23 1_555 B ETA 16 B ETA 12 23 1_555 1 P 1