1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Ketchem, R.R. Roux, B. Cross, T.A. 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 C6 H11 N O3 145.156 n N-formyl-L-valine L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN 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 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 C N 67 N N N 68 N O N 69 S C N 70 N C N 71 N C N 72 N C N 73 N H N 74 N H N 75 N H N 76 N H N 77 N H N 78 N H N 79 N H N 80 N H N 81 N H N 82 N O N 83 N C N 84 N H N 85 N O N 86 N H N 87 N N N 88 N C N 89 N C N 90 N O N 91 N O N 92 N H N 93 N H N 94 N H N 95 N H N 96 N H N 97 N N N 98 S C N 99 N C N 100 N O N 101 N C Y 102 N C Y 103 N C Y 104 N C Y 105 N N Y 106 N C Y 107 N C Y 108 N C Y 109 N C Y 110 N C N 111 N O N 112 N H N 113 N H 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 N N 125 S C N 126 N C N 127 N O N 128 N C N 129 N C N 130 N C N 131 N O N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 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 doub N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N doub N 79 N sing N 80 N sing N 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 doub 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 sing N 97 N doub N 98 N sing N 99 N sing N 100 N sing N 101 N sing Y 102 N doub Y 103 N sing Y 104 N sing N 105 N sing Y 106 N doub Y 107 N sing Y 108 N sing N 109 N sing Y 110 N sing Y 111 N doub N 112 N sing Y 113 N doub N 114 N sing Y 115 N sing N 116 N sing N 117 N sing 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 doub N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing NE J.Biomol.NMR JBNME9 0800 0925-2738 8 1 10.1007/BF00198135 8810522 Macromolecular Structural Elucidation with Solid-State NMR-Derived Orientational Constraints. 1996 Boston : Birkhauser Biological Membranes: A Molecular Perspective from Computation and Experiment 0-8176-3827-X 299 Computational Refinement Through Solid State NMR and Energy Constraints of a Membrane Bound Polypeptide 1996 US Biochemistry BICHAW 0033 0006-2960 34 857 10.1021/BI00003A020 7530046 Lipid-Peptide Interface: Valine Conformation and Dynamics in the Gramicidin Channel 1995 US Biochemistry BICHAW 0033 0006-2960 34 14138 10.1021/BI00043A019 7578011 Tryptophan Dynamics and Structural Refinement in a Lipid Bilayer Environment: Solid State NMR of the Gramicidin Channel 1995 US Science SCIEAS 0038 0036-8075 261 1457 10.1126/science.7690158 7690158 High-Resolution Conformation of Gramicidin a in a Lipid Bilayer by Solid-State NMR 1993 1 2 10.2210/pdb1mag/pdb pdb_00001mag 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1882.294 GRAMICIDIN A 2 man polymer VALYL GRAMICIDIN no yes (FVA)GA(DLE)A(DVA)V(DVA)W(DLE)W(DLE)W(DLE)W(ETA) VGALAVVVWLWLWLWX A,B polypeptide(L) n n n n n n n n n n n n n n n n sample 1393 BREVIBACILLUS BREVIS citation pdbx_database_status diffrn diffrn_radiation diffrn_radiation_wavelength pdbx_nmr_refine pdbx_nmr_software pdbx_nmr_spectrometer pdbx_struct_assembly pdbx_struct_assembly_prop pdbx_struct_oper_list atom_site chem_comp_atom chem_comp_bond database_2 struct_conn repository Initial release Version format compliance Version format compliance Atomic model Database references Derived calculations Non-polymer description Structure summary Other Database references Other Data collection Derived calculations Refinement description Atomic model Data collection Database references Derived calculations 1 0 1997-01-11 1 1 2011-06-14 1 2 2011-07-13 1 3 2011-07-27 1 4 2012-12-12 1 5 2017-12-20 1 6 2018-03-14 2 0 2023-11-15 _citation.pdbx_database_id_DOI _pdbx_database_status.process_site _pdbx_nmr_refine.details _pdbx_nmr_refine.method _pdbx_nmr_software.authors _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.model _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly_prop.value _pdbx_struct_oper_list.symmetry_operation _atom_site.auth_atom_id _atom_site.label_atom_id _database_2.pdbx_DOI _database_2.pdbx_database_accession _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 SOLUTION STRUCTURE OF A LINKED SHORTENED GRAMICIDIN A IN BENZENE/ACETONE 10:1 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 Y BNL 1996-06-06 REL 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, GRAMICIDIN A IS REPRESENTED BY THE SEQUENCE (SEQRES) Antibiotic GRAMICIDIN A IS A HEXADECAMERIC HELICAL PEPTIDE WITH ALTERNATING D,L CHARACTERISTICS. THE N-TERM IS FORMYLATED (RESIDUE 0). THE C-TERM IS CAPPED WITH ETHANOLAMINE (RESIDUE 16). GRAMICIDIN A Polypeptide 1 SOLID STATE CROSS POLARIZED 7.0 303 K CHARMM23 STRUCTURE REFINED WITH TORC (TOTAL REFINEMENT OF CONSTRAINTS), DEVELOPED IN AUTHORS' LAB. TORC RUNS AS A MODULE WITHIN CHARMM AND UTILIZES A SIMULATED ANNEALING PROTOCOL TO REFINE THE STRUCTURE AGAINST BOTH THE SOLID STATE NMR DATA (INCLUDING SOLID STATE NMR DERIVED ORIENTATIONAL CONSTRAINTS) AND THE CHARMM ENERGY. simulated annealing KETCHEM,ROUX,CROSS refinement TORC KETCHEM,ROUX,CROSS structure solution TORC 400 CHEMAGNETICS CMX FVA 1 n 1 FVA 1 A GLY 2 n 2 GLY 2 A ALA 3 n 3 ALA 3 A DLE 4 n 4 DLE 4 A ALA 5 n 5 ALA 5 A DVA 6 n 6 DVA 6 A VAL 7 n 7 VAL 7 A DVA 8 n 8 DVA 8 A TRP 9 n 9 TRP 9 A DLE 10 n 10 DLE 10 A TRP 11 n 11 TRP 11 A DLE 12 n 12 DLE 12 A TRP 13 n 13 TRP 13 A DLE 14 n 14 DLE 14 A TRP 15 n 15 TRP 15 A ETA 16 n 16 ETA 16 A FVA 1 n 1 FVA 1 B GLY 2 n 2 GLY 2 B ALA 3 n 3 ALA 3 B DLE 4 n 4 DLE 4 B ALA 5 n 5 ALA 5 B DVA 6 n 6 DVA 6 B VAL 7 n 7 VAL 7 B DVA 8 n 8 DVA 8 B TRP 9 n 9 TRP 9 B DLE 10 n 10 DLE 10 B TRP 11 n 11 TRP 11 B DLE 12 n 12 DLE 12 B TRP 13 n 13 TRP 13 B DLE 14 n 14 DLE 14 B TRP 15 n 15 TRP 15 B ETA 16 n 16 ETA 16 B author_defined_assembly 2 dimeric 770 -2 2810 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 A N ALA 3 A N ALA 3 B O ALA 3 B O ALA 3 1 17.66 1.70 111.00 128.66 A A A CB CG CD2 DLE DLE DLE 4 4 4 N 1 10.55 1.70 111.00 121.55 A A A CB CG CD2 DLE DLE DLE 10 10 10 N 1 14.25 1.70 111.00 125.25 A A A CB CG CD1 DLE DLE DLE 12 12 12 N 1 -13.02 2.00 110.40 97.38 A A A N CA CB DLE DLE DLE 14 14 14 N 1 11.95 1.70 111.00 122.95 A A A CB CG CD1 DLE DLE DLE 14 14 14 N 1 17.66 1.70 111.00 128.66 B B B CB CG CD2 DLE DLE DLE 4 4 4 N 1 10.55 1.70 111.00 121.55 B B B CB CG CD2 DLE DLE DLE 10 10 10 N 1 14.25 1.70 111.00 125.25 B B B CB CG CD1 DLE DLE DLE 12 12 12 N 1 -13.02 2.00 110.40 97.38 B B B N CA CB DLE DLE DLE 14 14 14 N 1 11.95 1.70 111.00 122.95 B B B CB CG CD1 DLE DLE DLE 14 14 14 N GRAMICIDIN A IN HYDRATED DMPC BILAYERS, SOLID STATE NMR 1 N N 1 N N covale 1.344 both A FVA 1 A C FVA 1 1_555 A GLY 2 A N GLY 2 1_555 covale 1.342 both A ALA 3 A C ALA 3 1_555 A DLE 4 A N DLE 4 1_555 covale 1.366 both A DLE 4 A C DLE 4 1_555 A ALA 5 A N ALA 5 1_555 covale 1.336 both A ALA 5 A C ALA 5 1_555 A DVA 6 A N DVA 6 1_555 covale 1.354 both A DVA 6 A C DVA 6 1_555 A VAL 7 A N VAL 7 1_555 covale 1.345 both A VAL 7 A C VAL 7 1_555 A DVA 8 A N DVA 8 1_555 covale 1.351 both A DVA 8 A C DVA 8 1_555 A TRP 9 A N TRP 9 1_555 covale 1.340 both A TRP 9 A C TRP 9 1_555 A DLE 10 A N DLE 10 1_555 covale 1.340 both A DLE 10 A C DLE 10 1_555 A TRP 11 A N TRP 11 1_555 covale 1.329 both A TRP 11 A C TRP 11 1_555 A DLE 12 A N DLE 12 1_555 covale 1.342 both A DLE 12 A C DLE 12 1_555 A TRP 13 A N TRP 13 1_555 covale 1.336 both A TRP 13 A C TRP 13 1_555 A DLE 14 A N DLE 14 1_555 covale 1.354 both A DLE 14 A C DLE 14 1_555 A TRP 15 A N TRP 15 1_555 covale 1.346 both A TRP 15 A C TRP 15 1_555 A ETA 16 A N ETA 16 1_555 covale 1.344 both B FVA 1 B C FVA 1 1_555 B GLY 2 B N GLY 2 1_555 covale 1.342 both B ALA 3 B C ALA 3 1_555 B DLE 4 B N DLE 4 1_555 covale 1.366 both B DLE 4 B C DLE 4 1_555 B ALA 5 B N ALA 5 1_555 covale 1.336 both B ALA 5 B C ALA 5 1_555 B DVA 6 B N DVA 6 1_555 covale 1.354 both B DVA 6 B C DVA 6 1_555 B VAL 7 B N VAL 7 1_555 covale 1.345 both B VAL 7 B C VAL 7 1_555 B DVA 8 B N DVA 8 1_555 covale 1.351 both B DVA 8 B C DVA 8 1_555 B TRP 9 B N TRP 9 1_555 covale 1.340 both B TRP 9 B C TRP 9 1_555 B DLE 10 B N DLE 10 1_555 covale 1.340 both B DLE 10 B C DLE 10 1_555 B TRP 11 B N TRP 11 1_555 covale 1.329 both B TRP 11 B C TRP 11 1_555 B DLE 12 B N DLE 12 1_555 covale 1.342 both B DLE 12 B C DLE 12 1_555 B TRP 13 B N TRP 13 1_555 covale 1.336 both B TRP 13 B C TRP 13 1_555 B DLE 14 B N DLE 14 1_555 covale 1.354 both B DLE 14 B C DLE 14 1_555 B TRP 15 B N TRP 15 1_555 covale 1.346 both B TRP 15 B C TRP 15 1_555 B ETA 16 B N ETA 16 1_555 ANTIBIOTIC GRAMICIDIN, ANTIFUNGAL, ANTIBACTERIAL, ANTIBIOTIC, MEMBRANE ION CHANNEL, LINEAR GRAMICIDIN, ORIENTED BILAYERS NOR00243 NOR 1 NOR00243 1 16 1MAG 1 16 NOR00243 A 1 1 16 1 16 1MAG 1 16 NOR00243 B 1 1 16 2 anti-parallel A GLY 2 A GLY 2 A TRP 15 A TRP 15 B GLY 2 B GLY 2 B TRP 15 B TRP 15 BINDING SITE FOR CHAIN A OF GRAMICIDIN A Software 3 BINDING SITE FOR CHAIN B OF GRAMICIDIN A Software 3 B GLY 2 B GLY 2 3 1_555 B ALA 3 B ALA 3 3 1_555 B ALA 5 B ALA 5 3 1_555 A GLY 2 A GLY 2 3 1_555 A ALA 3 A ALA 3 3 1_555 A ALA 5 A ALA 5 3 1_555 1 P 1