PDB Short entry for 3L8L HEADER ANTIBIOTIC 31-DEC-09 3L8L TITLE GRAMICIDIN D COMPLEX WITH SODIUM IODIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GRAMICIDIN D; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: VAL-GRAMICIDIN A; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: GRAMICIDIN D; COMPND 7 CHAIN: B, D; COMPND 8 SYNONYM: VAL-GRAMICIDIN A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS BREVIS; SOURCE 3 ORGANISM_TAXID: 1393; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: BACILLUS BREVIS; SOURCE 6 ORGANISM_TAXID: 1393 KEYWDS GRAMICIDIN, ANTIFUNGAL, ANTIBACTERIAL, ANTIBIOTIC, MEMBRANE ION KEYWDS 2 CHANNEL, LINEAR GRAMICIDIN, GRAMICIDIN-NAI COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.OLCZAK,M.L.GLOWKA,M.SZCZESIO,J.BOJARSKA,Z.WAWRZAK,W.L.DUAX REVDAT 7 15-NOV-23 3L8L 1 LINK ATOM REVDAT 6 06-SEP-23 3L8L 1 REMARK SEQADV LINK REVDAT 5 13-FEB-13 3L8L 1 REMARK REVDAT 4 28-MAR-12 3L8L 1 JRNL REVDAT 3 27-JUL-11 3L8L 1 ATOM HETATM REMARK SEQRES REVDAT 2 13-JUL-11 3L8L 1 VERSN REVDAT 1 28-JUL-10 3L8L 0 JRNL AUTH A.OLCZAK,M.L.GLOWKA,M.SZCZESIO,J.BOJARSKA,Z.WAWRZAK,W.L.DUAX JRNL TITL THE FIRST CRYSTAL STRUCTURE OF A GRAMICIDIN COMPLEX WITH JRNL TITL 2 SODIUM: HIGH-RESOLUTION STUDY OF A NONSTOICHIOMETRIC JRNL TITL 3 GRAMICIDIN D-NAI COMPLEX. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 66 874 2010 JRNL REFN ISSN 0907-4449 JRNL PMID 20693686 JRNL DOI 10.1107/S0907444910019876 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.164 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 24628 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.153 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 19883 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 566 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 42 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 566.51 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 556.13 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 26 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 5345 REMARK 3 NUMBER OF RESTRAINTS : 6738 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 ANGLE DISTANCES (A) : 0.035 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.033 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.146 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.126 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.000 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.006 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.041 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.000 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3L8L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000056969. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 2000 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 5ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19883 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 26.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1W5U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 23.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BATCH CRYSTALLIZATION WITH 30 MG/ML REMARK 280 GRAMICIDIN AND SATURATED NAI IN METHANOL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 14.90800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 25.83350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 15.62750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 25.83350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 14.90800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 15.62750 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 2930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 2900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 GRAMICIDIN IS A HETEROGENEOUS MIXTURE OF SEVERAL COMPOUNDS REMARK 400 INCLUDING GRAMICIDIN A, B AND C WHICH ARE OBTAINED FROM REMARK 400 BACILLUS BREVIS AND CALLED COLLECTIVELY GRAMICIDIN D. REMARK 400 HERE, GRAMICIDIN D IS REPRESENTED BY THE SEQUENCE (SEQRES) REMARK 400 REMARK 400 THE GRAMICIDIN D IS POLYPEPTIDE, A MEMBER OF ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: GRAMICIDIN D REMARK 400 CHAIN: A, B, C, D REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: GRAMICIDIN D IS A HEXADECAMERIC HELICAL PEPTIDE WITH REMARK 400 ALTERNATING D,L CHARACTERISTICS. THE N-TERM IS REMARK 400 FORMYLATED (RESIDUE 1). THE C-TERM IS CAPPED WITH REMARK 400 ETHANOLAMINE (RESIDUE 16). REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DLE A 10 CB - CA - C ANGL. DEV. = -14.0 DEGREES REMARK 500 TRP C 15 CA - CB - CG ANGL. DEV. = 13.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1001 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DVA A 8 O REMARK 620 2 DLE A 10 O 141.7 REMARK 620 3 DVA B 6 O 86.1 64.9 REMARK 620 4 HOH B2005 O 77.4 123.0 159.5 REMARK 620 5 HOH B2006 O 123.2 90.6 107.7 91.7 REMARK 620 6 HOH B2009 O 93.4 94.8 141.9 30.3 104.3 REMARK 620 7 HOH B2010 O 95.3 93.1 141.6 31.6 103.5 1.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1000 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DVA A 8 O REMARK 620 2 DVA B 6 O 87.4 REMARK 620 3 HOH B2005 O 80.4 141.5 REMARK 620 4 HOH B2006 O 156.1 109.1 95.5 REMARK 620 5 HOH B2009 O 90.0 113.8 30.9 98.5 REMARK 620 6 HOH B2010 O 91.0 114.9 30.3 97.2 1.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA C1011 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DVA C 8 O REMARK 620 2 DLE C 10 O 142.3 REMARK 620 3 HOH C2005 O 67.6 115.5 REMARK 620 4 HOH C2007 O 151.3 62.4 121.6 REMARK 620 5 DVA D 6 O 84.3 68.5 136.6 99.1 REMARK 620 6 HOH D2008 O 123.7 90.6 114.3 28.4 108.7 REMARK 620 7 HOH D2009 O 80.5 113.4 18.0 104.2 154.4 96.9 REMARK 620 8 HOH D2011 O 96.9 90.3 29.5 97.2 142.8 101.4 23.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA D1010 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DLE C 10 O REMARK 620 2 DLE D 4 O 87.4 REMARK 620 3 HOH D2003 O 140.6 61.0 REMARK 620 4 HOH D2007 O 89.7 132.9 128.6 REMARK 620 5 HOH D2008 O 111.4 139.3 107.9 23.7 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 1020 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 1021 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 1025 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD B 1026 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA C 1011 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD C 1024 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA D 1010 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD D 1022 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD D 1023 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN A OF GRAMICIDIN D REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN B OF GRAMICIDIN D REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN C OF GRAMICIDIN D REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN D OF GRAMICIDIN D REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1TK2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN S COMPLEXED WITH ALKALINE REMARK 900 PROTEINASE SAVINASE REMARK 900 RELATED ID: 2XDC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN A FROM CRYSTALS GROWN IN A LIPID REMARK 900 CUBIC PHASE. REMARK 900 RELATED ID: 1AV2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLEXED WITH CESIUM CHLORIDE REMARK 900 RELATED ID: 1BDW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN A FROM BACILLUS BREVIS REMARK 900 RELATED ID: 1C4D RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLEXED WITH CESIUM CHLORIDE REMARK 900 RELATED ID: 1GMK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLRXED WITH POTASSIUM REMARK 900 THIOCYANATE REMARK 900 RELATED ID: 1GRM RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE GRAMICIDIN A REMARK 900 RELATED ID: 1JNO RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF GRAMICIDIN A IN SODIUM DODECYL SULFATE REMARK 900 MICELLES REMARK 900 RELATED ID: 1KQE RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF A LINKED SHORTENED GRAMICIDIN A IN BENZENE/ REMARK 900 ACETONE 10:1 REMARK 900 RELATED ID: 1MAG RELATED DB: PDB REMARK 900 SOLID STATE NMR STRUCTURE OF GRAMICIDIN A IN HYDRATED DMPC BILAYERS, REMARK 900 RELATED ID: 1MIC RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF GRAMICIDIN A IN METHANOL IN THE PRESENCE OF REMARK 900 CACL REMARK 900 RELATED ID: 1NG8 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF GRAMICIDIN A (W15G) IN SODIUM DODECYL SULFATE REMARK 900 MICELLES REMARK 900 RELATED ID: 1NRM RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE REMARK 900 MICELLES REMARK 900 RELATED ID: 1NRU RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE REMARK 900 MICELLES IN THE PRESENCE OF EXCESS NA+ REMARK 900 RELATED ID: 1NT5 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF GRAMICIDIN A (V1F) IN SODIUM DODECYL SULFATE REMARK 900 MICELLES REMARK 900 RELATED ID: 1JO3 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF GRAMICIDIN B IN SODIUM DODECYL SULFATE REMARK 900 MICELLES REMARK 900 RELATED ID: 1JO4 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF GRAMICIDIN C IN SODIUM DODECYL SULFATE REMARK 900 MICELLES REMARK 900 RELATED ID: 1NT6 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF F1-GRAMICIDIN C IN SODIUM DODECYL SULFATE REMARK 900 MICELLES REMARK 900 RELATED ID: 1TKQ RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF A LINKED UNSYMMETRIC GRAMICIDIN A IN A REMARK 900 MEMBRANE-ISOELECTRICAL SOLVENTS MIXTURE, IN THE PRESENCE OF CSCL REMARK 900 RELATED ID: 1W5U RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN D IN ETHANOL REMARK 900 RELATED ID: 2IZQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN D COMPLEX WITH KI IN METHANOL REMARK 900 RELATED ID: 1AL4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN D IN N-PROPANOL REMARK 900 RELATED ID: 1ALX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN D IN METHANOL REMARK 900 RELATED ID: 1ALZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GRAMICIDIN D IN ETHANOL DBREF 3L8L A 1 16 NOR NOR00243 NOR00243 1 16 DBREF 3L8L B 1 16 NOR NOR00243 NOR00243 1 16 DBREF 3L8L C 1 16 NOR NOR00243 NOR00243 1 16 DBREF 3L8L D 1 16 NOR NOR00243 NOR00243 1 16 SEQADV 3L8L PHE B 11 NOR NOR00243 TRP 11 MICROHETEROGENEITY SEQADV 3L8L PHE D 11 NOR NOR00243 TRP 11 MICROHETEROGENEITY SEQRES 1 A 16 FVA GLY ALA DLE ALA DVA VAL DVA TRP DLE TRP DLE TRP SEQRES 2 A 16 DLE TRP ETA SEQRES 1 B 16 FVA GLY ALA DLE ALA DVA VAL DVA TRP DLE PHE DLE TRP SEQRES 2 B 16 DLE TRP ETA SEQRES 1 C 16 FVA GLY ALA DLE ALA DVA VAL DVA TRP DLE TRP DLE TRP SEQRES 2 C 16 DLE TRP ETA SEQRES 1 D 16 FVA GLY ALA DLE ALA DVA VAL DVA TRP DLE PHE DLE TRP SEQRES 2 D 16 DLE TRP ETA HET FVA A 1 9 HET DLE A 4 8 HET DVA A 6 10 HET DVA A 8 10 HET DLE A 10 12 HET DLE A 12 8 HET DLE A 14 8 HET ETA A 16 4 HET FVA B 1 9 HET DLE B 4 8 HET DVA B 6 10 HET DVA B 8 7 HET DLE B 10 8 HET DLE B 12 12 HET DLE B 14 12 HET ETA B 16 8 HET FVA C 1 9 HET DLE C 4 12 HET DVA C 6 10 HET DVA C 8 10 HET DLE C 10 8 HET DLE C 12 10 HET DLE C 14 8 HET ETA C 16 8 HET FVA D 1 9 HET DLE D 4 8 HET DVA D 6 10 HET DVA D 8 10 HET DLE D 10 11 HET DLE D 12 8 HET DLE D 14 8 HET ETA D 16 4 HET NA A1001 1 HET IOD A1020 1 HET IOD A1021 1 HET IOD A1025 1 HET MOH A3001 2 HET NA B1000 1 HET IOD B1026 1 HET MOH B2000 2 HET MOH B3002 2 HET NA C1011 1 HET IOD C1024 1 HET NA D1010 1 HET IOD D1022 1 HET IOD D1023 1 HETNAM FVA N-FORMYL-L-VALINE HETNAM DLE D-LEUCINE HETNAM DVA D-VALINE HETNAM ETA ETHANOLAMINE HETNAM NA SODIUM ION HETNAM IOD IODIDE ION HETNAM MOH METHANOL FORMUL 1 FVA 4(C6 H11 N O3) FORMUL 1 DLE 16(C6 H13 N O2) FORMUL 1 DVA 8(C5 H11 N O2) FORMUL 1 ETA 4(C2 H7 N O) FORMUL 5 NA 4(NA 1+) FORMUL 6 IOD 7(I 1-) FORMUL 9 MOH 3(C H4 O) FORMUL 19 HOH *42(H2 O) SHEET 1 AA 2 GLY A 2 TRP A 15 0 SHEET 2 AA 2 GLY B 2 TRP B 15 -1 O GLY B 2 N DLE A 14 SHEET 1 CA 2 GLY C 2 TRP C 15 0 SHEET 2 CA 2 GLY D 2 TRP D 15 -1 O GLY D 2 N DLE C 14 LINK C FVA A 1 N GLY A 2 1555 1555 1.33 LINK C ALA A 3 N DLE A 4 1555 1555 1.31 LINK C DLE A 4 N ALA A 5 1555 1555 1.31 LINK C ALA A 5 N DVA A 6 1555 1555 1.33 LINK C DVA A 6 N VAL A 7 1555 1555 1.31 LINK C VAL A 7 N DVA A 8 1555 1555 1.34 LINK C DVA A 8 N TRP A 9 1555 1555 1.28 LINK C TRP A 9 N DLE A 10 1555 1555 1.34 LINK C DLE A 10 N TRP A 11 1555 1555 1.31 LINK C TRP A 11 N DLE A 12 1555 1555 1.32 LINK C DLE A 12 N TRP A 13 1555 1555 1.34 LINK C TRP A 13 N DLE A 14 1555 1555 1.32 LINK C DLE A 14 N TRP A 15 1555 1555 1.29 LINK C TRP A 15 N ETA A 16 1555 1555 1.31 LINK C FVA B 1 N GLY B 2 1555 1555 1.29 LINK C ALA B 3 N DLE B 4 1555 1555 1.33 LINK C DLE B 4 N ALA B 5 1555 1555 1.32 LINK C ALA B 5 N DVA B 6 1555 1555 1.33 LINK C DVA B 6 N VAL B 7 1555 1555 1.31 LINK C VAL B 7 N DVA B 8 1555 1555 1.29 LINK C DVA B 8 N TRP B 9 1555 1555 1.34 LINK C TRP B 9 N DLE B 10 1555 1555 1.34 LINK C DLE B 10 N ATRP B 11 1555 1555 1.32 LINK C DLE B 10 N BPHE B 11 1555 1555 1.28 LINK C ATRP B 11 N DLE B 12 1555 1555 1.32 LINK C BPHE B 11 N DLE B 12 1555 1555 1.40 LINK C DLE B 12 N TRP B 13 1555 1555 1.33 LINK C TRP B 13 N DLE B 14 1555 1555 1.34 LINK C DLE B 14 N TRP B 15 1555 1555 1.33 LINK C TRP B 15 N BETA B 16 1555 1555 1.34 LINK C TRP B 15 N AETA B 16 1555 1555 1.34 LINK C FVA C 1 N GLY C 2 1555 1555 1.32 LINK C ALA C 3 N DLE C 4 1555 1555 1.33 LINK C DLE C 4 N ALA C 5 1555 1555 1.29 LINK C ALA C 5 N DVA C 6 1555 1555 1.31 LINK C DVA C 6 N VAL C 7 1555 1555 1.32 LINK C VAL C 7 N DVA C 8 1555 1555 1.32 LINK C DVA C 8 N TRP C 9 1555 1555 1.31 LINK C TRP C 9 N DLE C 10 1555 1555 1.32 LINK C DLE C 10 N TRP C 11 1555 1555 1.35 LINK C TRP C 11 N DLE C 12 1555 1555 1.33 LINK C DLE C 12 N TRP C 13 1555 1555 1.32 LINK C TRP C 13 N DLE C 14 1555 1555 1.31 LINK C DLE C 14 N TRP C 15 1555 1555 1.33 LINK C TRP C 15 N BETA C 16 1555 1555 1.33 LINK C TRP C 15 N AETA C 16 1555 1555 1.33 LINK C FVA D 1 N GLY D 2 1555 1555 1.32 LINK C ALA D 3 N DLE D 4 1555 1555 1.32 LINK C DLE D 4 N ALA D 5 1555 1555 1.32 LINK C ALA D 5 N DVA D 6 1555 1555 1.34 LINK C DVA D 6 N VAL D 7 1555 1555 1.32 LINK C VAL D 7 N DVA D 8 1555 1555 1.34 LINK C DVA D 8 N TRP D 9 1555 1555 1.30 LINK C TRP D 9 N DLE D 10 1555 1555 1.33 LINK C DLE D 10 N ATRP D 11 1555 1555 1.34 LINK C DLE D 10 N BPHE D 11 1555 1555 1.37 LINK C ATRP D 11 N DLE D 12 1555 1555 1.32 LINK C BPHE D 11 N DLE D 12 1555 1555 1.28 LINK C DLE D 12 N TRP D 13 1555 1555 1.33 LINK C TRP D 13 N DLE D 14 1555 1555 1.31 LINK C DLE D 14 N TRP D 15 1555 1555 1.34 LINK C TRP D 15 N ETA D 16 1555 1555 1.31 LINK O DVA A 8 NA NA A1001 1555 1555 2.59 LINK O DVA A 8 NA NA B1000 1555 1555 2.34 LINK O DLE A 10 NA NA A1001 1555 1555 3.17 LINK NA NA A1001 O DVA B 6 1555 1555 2.53 LINK NA NA A1001 O HOH B2005 1555 1555 2.83 LINK NA NA A1001 O HOH B2006 1555 1555 2.28 LINK NA NA A1001 O HOH B2009 1555 1555 2.05 LINK NA NA A1001 O HOH B2010 1555 1555 2.38 LINK O DVA B 6 NA NA B1000 1555 1555 2.70 LINK NA NA B1000 O HOH B2005 1555 1555 2.88 LINK NA NA B1000 O HOH B2006 1555 1555 2.04 LINK NA NA B1000 O HOH B2009 1555 1555 2.46 LINK NA NA B1000 O HOH B2010 1555 1555 2.79 LINK O DVA C 8 NA NA C1011 1555 1555 2.66 LINK O DLE C 10 NA NA C1011 1555 1555 3.00 LINK O DLE C 10 NA NA D1010 1555 1555 2.29 LINK NA NA C1011 O HOH C2005 1555 1555 2.24 LINK NA NA C1011 O HOH C2007 1555 1555 2.25 LINK NA NA C1011 O DVA D 6 1555 1555 2.42 LINK NA NA C1011 O HOH D2008 1555 1555 2.24 LINK NA NA C1011 O HOH D2009 1555 1555 2.90 LINK NA NA C1011 O HOH D2011 1555 1555 2.39 LINK O DLE D 4 NA NA D1010 1555 1555 2.70 LINK NA NA D1010 O HOH D2003 1555 1555 2.84 LINK NA NA D1010 O HOH D2007 1555 1555 2.27 LINK NA NA D1010 O HOH D2008 1555 1555 2.27 SITE 1 AC1 10 DVA A 8 TRP A 9 DLE A 10 DVA B 6 SITE 2 AC1 10 VAL B 7 DVA B 8 HOH B2005 HOH B2006 SITE 3 AC1 10 HOH B2009 HOH B2010 SITE 1 AC2 3 DLE B 4 TRP C 11 HOH C2008 SITE 1 AC3 3 TRP A 15 IOD A1025 HOH C2009 SITE 1 AC4 7 TRP A 13 TRP A 15 IOD A1021 HOH A2005 SITE 2 AC4 7 TRP C 15 HOH C2009 TRP D 9 SITE 1 AC5 9 DVA A 8 DLE A 10 DVA B 6 VAL B 7 SITE 2 AC5 9 DVA B 8 HOH B2005 HOH B2006 HOH B2009 SITE 3 AC5 9 HOH B2010 SITE 1 AC6 3 HOH A2004 TRP B 13 TRP B 15 SITE 1 AC7 12 DVA C 8 TRP C 9 DLE C 10 HOH C2005 SITE 2 AC7 12 HOH C2007 DVA D 6 DVA D 8 NA D1010 SITE 3 AC7 12 HOH D2007 HOH D2008 HOH D2009 HOH D2011 SITE 1 AC8 1 HOH D2005 SITE 1 AC9 11 DLE C 10 DLE C 12 NA C1011 HOH C2007 SITE 2 AC9 11 DLE D 4 ALA D 5 DVA D 6 HOH D2003 SITE 3 AC9 11 HOH D2004 HOH D2007 HOH D2008 SITE 1 BC1 4 ETA B 16 TRP D 13 TRP D 15 IOD D1023 SITE 1 BC2 3 ETA B 16 HOH B2014 IOD D1022 SITE 1 BC3 38 NA A1001 IOD A1021 IOD A1025 HOH A2001 SITE 2 BC3 38 HOH A2003 HOH A2004 GLY B 2 ALA B 3 SITE 3 BC3 38 DLE B 4 ALA B 5 DVA B 6 VAL B 7 SITE 4 BC3 38 DVA B 8 TRP B 9 DLE B 10 PHE B 11 SITE 5 BC3 38 DLE B 12 TRP B 13 DLE B 14 TRP B 15 SITE 6 BC3 38 ETA B 16 NA B1000 HOH B2012 ALA C 3 SITE 7 BC3 38 DLE C 4 TRP C 9 TRP C 11 DLE C 12 SITE 8 BC3 38 TRP C 13 DLE C 14 TRP C 15 ETA C 16 SITE 9 BC3 38 VAL D 7 TRP D 9 DLE D 10 PHE D 11 SITE 10 BC3 38 TRP D 13 TRP D 15 SITE 1 BC4 48 GLY A 2 ALA A 3 DLE A 4 ALA A 5 SITE 2 BC4 48 DVA A 6 VAL A 7 DVA A 8 TRP A 9 SITE 3 BC4 48 DLE A 10 TRP A 11 DLE A 12 TRP A 13 SITE 4 BC4 48 DLE A 14 TRP A 15 ETA A 16 NA A1001 SITE 5 BC4 48 IOD A1020 HOH A2002 NA B1000 IOD B1026 SITE 6 BC4 48 HOH B2001 HOH B2003 HOH B2004 HOH B2005 SITE 7 BC4 48 HOH B2006 HOH B2007 HOH B2008 HOH B2009 SITE 8 BC4 48 HOH B2010 HOH B2012 HOH B2013 HOH B2014 SITE 9 BC4 48 DLE C 4 ALA C 5 DVA C 6 TRP C 11 SITE 10 BC4 48 TRP C 13 ETA C 16 DVA D 6 TRP D 9 SITE 11 BC4 48 DLE D 10 PHE D 11 DLE D 12 TRP D 13 SITE 12 BC4 48 DLE D 14 TRP D 15 IOD D1022 IOD D1023 SITE 1 BC5 42 DLE A 4 TRP A 9 TRP A 11 DLE A 12 SITE 2 BC5 42 TRP A 13 DLE A 14 TRP A 15 ETA A 16 SITE 3 BC5 42 IOD A1020 IOD A1025 DLE B 4 DVA B 6 SITE 4 BC5 42 TRP B 9 DLE B 10 PHE B 11 DLE B 12 SITE 5 BC5 42 TRP B 13 DLE B 14 NA C1011 HOH C2001 SITE 6 BC5 42 HOH C2002 HOH C2003 HOH C2005 HOH C2006 SITE 7 BC5 42 HOH C2007 HOH C2009 GLY D 2 ALA D 3 SITE 8 BC5 42 DLE D 4 ALA D 5 DVA D 6 VAL D 7 SITE 9 BC5 42 DVA D 8 TRP D 9 DLE D 10 PHE D 11 SITE 10 BC5 42 DLE D 12 TRP D 13 DLE D 14 TRP D 15 SITE 11 BC5 42 ETA D 16 NA D1010 SITE 1 BC6 43 DVA A 6 VAL A 7 TRP A 11 TRP A 13 SITE 2 BC6 43 DLE A 14 IOD A1025 DVA B 6 VAL B 7 SITE 3 BC6 43 PHE B 11 DLE B 12 TRP B 13 DLE B 14 SITE 4 BC6 43 TRP B 15 ETA B 16 GLY C 2 ALA C 3 SITE 5 BC6 43 DLE C 4 ALA C 5 DVA C 6 VAL C 7 SITE 6 BC6 43 DVA C 8 TRP C 9 DLE C 10 TRP C 11 SITE 7 BC6 43 DLE C 12 TRP C 13 DLE C 14 TRP C 15 SITE 8 BC6 43 ETA C 16 NA C1011 HOH C2001 HOH C2003 SITE 9 BC6 43 HOH C2009 NA D1010 IOD D1022 HOH D2001 SITE 10 BC6 43 HOH D2003 HOH D2004 HOH D2006 HOH D2007 SITE 11 BC6 43 HOH D2008 HOH D2011 HOH D2014 CRYST1 29.816 31.255 51.667 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.033539 0.000000 0.000000 0.00000 SCALE2 0.000000 0.031995 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019355 0.00000 HETATM 1 C FVA A 1 25.689 17.302 45.158 1.00 18.34 C ANISOU 1 C FVA A 1 2726 2766 1478 141 187 6 C HETATM 2 N FVA A 1 24.117 18.875 45.944 1.00 20.98 N ANISOU 2 N FVA A 1 3556 2784 1633 550 31 -330 N HETATM 3 O FVA A 1 26.063 16.909 46.256 1.00 18.17 O ANISOU 3 O FVA A 1 2843 2399 1661 -483 -37 2 O HETATM 4 CA FVA A 1 25.193 18.698 44.995 1.00 19.88 C ANISOU 4 CA FVA A 1 3224 2701 1628 174 -37 -146 C HETATM 5 CB FVA A 1 26.233 19.785 45.127 1.00 26.50 C ANISOU 5 CB FVA A 1 3970 2966 3134 -316 -332 40 C HETATM 6 CG1 FVA A 1 26.935 19.798 46.462 1.00 31.26 C ANISOU 6 CG1 FVA A 1 5377 3095 3406 -894 -1034 -612 C HETATM 7 CG2 FVA A 1 27.297 19.657 44.061 1.00 30.58 C ANISOU 7 CG2 FVA A 1 4193 3670 3755 -1244 267 -38 C HETATM 8 O1 FVA A 1 22.641 19.888 44.508 1.00 27.90 O ANISOU 8 O1 FVA A 1 3717 4589 2292 1059 -209 -223 O HETATM 9 CN FVA A 1 22.988 19.443 45.585 1.00 24.82 C ANISOU 9 CN FVA A 1 3697 3395 2339 948 223 -3 C