HEADER ANTIBIOTIC 14-JAN-11 2Y5M TITLE STRUCTURE OF LINEAR GRAMICIDIN D OBTAINED USING TYPE I CRYSTALS GROWN TITLE 2 IN A 7.7 MONOACYLGLYCEROL LIPID CUBIC PHASE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: VAL-GRAMICIDIN A; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 SYNONYM: GRAMICIDIN D SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BREVIBACILLUS BREVIS; SOURCE 3 ORGANISM_TAXID: 1393; SOURCE 4 ATCC: 8246 KEYWDS ANTIBIOTIC, ION CHANNEL, MESOPHASE, SPONGE PHASE EXPDTA X-RAY DIFFRACTION AUTHOR N.HOEFER,D.ARAGAO,M.CAFFREY REVDAT 7 16-OCT-24 2Y5M 1 REMARK REVDAT 6 07-FEB-24 2Y5M 1 REMARK REVDAT 5 15-NOV-23 2Y5M 1 LINK ATOM REVDAT 4 29-MAR-23 2Y5M 1 AUTHOR REMARK REVDAT 3 06-MAR-19 2Y5M 1 REMARK LINK REVDAT 2 30-JAN-13 2Y5M 1 JRNL REMARK VERSN REVDAT 1 11-MAY-11 2Y5M 0 JRNL AUTH N.HOEFER,D.ARAGAO,J.LYONS,M.CAFFREY JRNL TITL MEMBRANE PROTEIN CRYSTALLIZATION IN LIPIDIC MESOPHASES. JRNL TITL 2 HOSTING LIPID EFFECTS ON THE CRYSTALLIZATION AND STRUCTURE JRNL TITL 3 OF A TRANSMEMBRANE PEPTIDE JRNL REF CRYST.GROWTH DES. V. 11 1182 2011 JRNL REFN ISSN 1528-7483 JRNL PMID 22933857 JRNL DOI 10.1021/CG101384P REMARK 2 REMARK 2 RESOLUTION. 1.08 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0066 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 3 NUMBER OF REFLECTIONS : 44055 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.132 REMARK 3 R VALUE (WORKING SET) : 0.130 REMARK 3 FREE R VALUE : 0.155 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2380 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.08 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2239 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 65.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.2070 REMARK 3 BIN FREE R VALUE SET COUNT : 132 REMARK 3 BIN FREE R VALUE : 0.2050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 816 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 91 REMARK 3 SOLVENT ATOMS : 3 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 5.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.34000 REMARK 3 B22 (A**2) : -0.65000 REMARK 3 B33 (A**2) : 0.34000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.11000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.024 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.026 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.015 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.709 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.970 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1001 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1021 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1322 ; 1.704 ; 1.939 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2282 ; 0.813 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 84 ; 4.732 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 24 ;34.474 ;20.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 41 ; 9.794 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 150 ; 0.151 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 821 ; 0.014 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 203 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 511 ; 2.828 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 212 ; 1.368 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 771 ; 4.018 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 490 ; 5.307 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 550 ; 7.117 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 2022 ; 2.878 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 3 ;16.436 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 1984 ; 7.531 ; 3.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. RESIDUE 15P A1001 IN THIS ENTRY WAS NAMED PEG-A IN REMARK 3 THE PRIMARY CITATION. RESIDUES 15P A1002 AND 15P A1003 IN THIS REMARK 3 ENTRY WERE NAMED PEG-B AND PEG-B' RESPECTIVELY IN THE PRIMARY REMARK 3 CITATION. REMARK 4 REMARK 4 2Y5M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1290044797. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8266 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL CRYO-COOLED REMARK 200 OPTICS : SI(111) DOUBLE CRYSTAL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46435 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.080 REMARK 200 RESOLUTION RANGE LOW (A) : 30.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.08 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 65.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1AL4 REMARK 200 REMARK 200 REMARK: DATA WERE COLLECTED USING A COLLIMATED MINIBEAM WITH A 10 REMARK 200 MICRON BEAMSIZE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25 %(W/V) PEG 3350, 0.2 M LISO4, 0.1 M REMARK 280 BIS TRIS AT PH 5.5, LIPIDIC CUBIC PHASE OF 7.7 MAG (SN-1-O-(CIS- REMARK 280 7)TETRADECENYLGLYCEROL) WAS USED IN A RATIO OF 1:20 (MOL/MOL) REMARK 280 GRAMICIDIN D TO LIPID. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 31.39700 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 3220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.1 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: 2620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 2990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.6 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 350 REMARK 350 BIOMOLECULE: 3 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: 2620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 2990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F 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 COLLECTIVELY CALLED GRAMICIDIN D REMARK 400 HERE, GRAMICIDIN A IS REPRESENTED BY THE SEQUENCE (SEQRES) REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: GRAMICIDIN A REMARK 400 CHAIN: A, B, C, D, E. F REMARK 400 COMPONENT_1: PEPTIDE LIKE SEQUENCE RESIDUES 1 TO 16 REMARK 400 DESCRIPTION: GRAMICIDIN A IS A HEXADECAMERIC HELICAL PEPTIDE REMARK 400 WITH ALTERNATING D,L CHARACTERISTICS. REMARK 400 THE N-TERM IS FORMYLATED (RESIDUE 1) WITH REMARK 400 ETHANOLAMINE AT THE C-TERM (RESIDUE 16) REMARK 400 REMARK 400 THE GRAMICIDIN A IS POLYPEPTIDE, A MEMBER OF ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: GRAMICIDIN A REMARK 400 CHAIN: A, B, C, D, E, F REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: GRAMICIDIN A IS A HEXADECAMERIC HELICAL PEPTIDE WITH REMARK 400 ALTERNATING D,L CHARACTERISTICS. THE N-TERM IS REMARK 400 FORMYLATED (RESIDUE 0). THE C-TERM IS CAPPED WITH REMARK 400 ETHANOLAMINE (RESIDUE 16). REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DVA F 8 CB DVA F 8 CG2 -0.158 REMARK 500 REMARK 500 REMARK: NULL 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 ETA C 16 C - N - CA ANGL. DEV. = 16.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TRP A 9 109.59 -160.06 REMARK 500 TRP A 15 77.04 -163.89 REMARK 500 TRP A 15 103.98 -163.89 REMARK 500 TRP B 9 110.51 -160.48 REMARK 500 TRP B 15 80.99 -163.00 REMARK 500 TRP B 15 102.03 -163.00 REMARK 500 TRP C 11 96.95 -160.57 REMARK 500 TRP C 15 77.53 -163.10 REMARK 500 TRP C 15 86.80 -163.10 REMARK 500 TRP D 13 86.01 -152.23 REMARK 500 ALA E 5 94.47 -160.18 REMARK 500 TRP E 11 95.95 -160.53 REMARK 500 TRP E 15 80.25 -163.01 REMARK 500 TRP F 13 84.77 -150.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 15P A 1001 REMARK 610 15P A 1002 REMARK 610 15P A 1003 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 15P A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 15P A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 15P A 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NT6 RELATED DB: PDB REMARK 900 F1-GRAMICIDIN C IN SODIUM DODECYL SULFATE MICELLES (NMR) REMARK 900 RELATED ID: 1JO3 RELATED DB: PDB REMARK 900 GRAMICIDIN B IN SODIUM DODECYL SULFATE MICELLES (NMR) REMARK 900 RELATED ID: 1ALZ RELATED DB: PDB REMARK 900 GRAMICIDIN D FROM BACILLUS BREVIS (ETHANOL SOLVATE) REMARK 900 RELATED ID: 1GRM RELATED DB: PDB REMARK 900 GRAMICIDIN A (NMR, 5 STRUCTURES) REMARK 900 RELATED ID: 1JO4 RELATED DB: PDB REMARK 900 GRAMICIDIN C IN SODIUM DODECYL SULFATE MICELLES (NMR) REMARK 900 RELATED ID: 1BDW RELATED DB: PDB REMARK 900 GRAMICIDIN D FROM BACILLUS BREVIS (ACTIVE FORM) REMARK 900 RELATED ID: 1NRU RELATED DB: PDB REMARK 900 GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE MICELLES IN THEPRESENCE OF REMARK 900 EXCESS NA+ (NMR) REMARK 900 RELATED ID: 1W5U RELATED DB: PDB REMARK 900 GRAMICIDIN D FROM BACILLUS BREVIS (ETHANOL SOLVATE) REMARK 900 RELATED ID: 1TKQ RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF A LINKED UNSYMMETRIC GRAMICIDIN IN AMEMBRANE- REMARK 900 ISOELECTRICAL SOLVENTS MIXTURE IN THE PRESENCE OFCSCL REMARK 900 RELATED ID: 1MAG RELATED DB: PDB REMARK 900 GRAMICIDIN A IN HYDRATED DMPC BILAYERS, SOLID STATE NMR REMARK 900 RELATED ID: 2IZQ RELATED DB: PDB REMARK 900 GRAMICIDIN D COMPLEX WITH KI REMARK 900 RELATED ID: 1C4D RELATED DB: PDB REMARK 900 GRAMICIDIN CSCL COMPLEX REMARK 900 RELATED ID: 1AV2 RELATED DB: PDB REMARK 900 GRAMICIDIN A/CSCL COMPLEX, ACTIVE AS A DIMER REMARK 900 RELATED ID: 1KQE RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF A LINKED SHORTENED GRAMICIDIN A INBENZENE/ REMARK 900 ACETONE 10:1 REMARK 900 RELATED ID: 1MIC RELATED DB: PDB REMARK 900 GRAMICIDIN A: LEFT-HANDED PARALLEL DOUBLE HELICAL FORM IN METHANOL REMARK 900 IN THE PRESENCE OF CACL2, NMR, 20 STRUCTURES REMARK 900 RELATED ID: 1NT5 RELATED DB: PDB REMARK 900 F1-GRAMICIDIN A IN SODIUM DODECYL SULFATE MICELLES (NMR) REMARK 900 RELATED ID: 1AL4 RELATED DB: PDB REMARK 900 GRAMICIDIN D FROM BACILLUS BREVIS (N- PROPANOL SOLVATE) REMARK 900 RELATED ID: 1GMK RELATED DB: PDB REMARK 900 GRAMICIDIN/KSCN COMPLEX REMARK 900 RELATED ID: 1NG8 RELATED DB: PDB REMARK 900 G15-GRAMICIDIN A IN SODIUM DODECYL SULFATE MICELLES (NMR) REMARK 900 RELATED ID: 1NRM RELATED DB: PDB REMARK 900 GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE MICELLES (NMR) REMARK 900 RELATED ID: 1JNO RELATED DB: PDB REMARK 900 GRAMICIDIN A IN SODIUM DODECYL SULFATE MICELLES (NMR) REMARK 900 RELATED ID: 1ALX RELATED DB: PDB REMARK 900 GRAMICIDIN D FROM BACILLUS BREVIS (METHANOL SOLVATE) REMARK 900 RELATED ID: 2XDC RELATED DB: PDB REMARK 900 STRUCTURE OF LINEAR GRAMICIDIN D OBTAINED USING TYPE I CRYSTALS REMARK 900 GROWN IN A LIPID CUBIC PHASE. REMARK 900 RELATED ID: 2Y6N RELATED DB: PDB REMARK 900 STRUCTURE OF LINEAR GRAMICIDIN D OBTAINED USING TYPE I CRYSTALS REMARK 900 GROWN IN A 8.8 MONOACYLGLYCEROL LIPID CUBIC PHASE. DBREF 2Y5M A 1 16 NOR NOR00243 NOR00243 1 16 DBREF 2Y5M B 1 16 NOR NOR00243 NOR00243 1 16 DBREF 2Y5M C 1 16 NOR NOR00243 NOR00243 1 16 DBREF 2Y5M D 1 16 NOR NOR00243 NOR00243 1 16 DBREF 2Y5M E 1 16 NOR NOR00243 NOR00243 1 16 DBREF 2Y5M F 1 16 NOR NOR00243 NOR00243 1 16 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 TRP 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 TRP DLE TRP SEQRES 2 D 16 DLE TRP ETA SEQRES 1 E 16 FVA GLY ALA DLE ALA DVA VAL DVA TRP DLE TRP DLE TRP SEQRES 2 E 16 DLE TRP ETA SEQRES 1 F 16 FVA GLY ALA DLE ALA DVA VAL DVA TRP DLE TRP DLE TRP SEQRES 2 F 16 DLE TRP ETA MODRES 2Y5M FVA A 1 VAL N-FORMYL-L-VALINE MODRES 2Y5M FVA B 1 VAL N-FORMYL-L-VALINE MODRES 2Y5M FVA C 1 VAL N-FORMYL-L-VALINE MODRES 2Y5M FVA D 1 VAL N-FORMYL-L-VALINE MODRES 2Y5M FVA E 1 VAL N-FORMYL-L-VALINE MODRES 2Y5M FVA F 1 VAL N-FORMYL-L-VALINE HET FVA A 1 14 HET DLE A 4 8 HET DVA A 6 7 HET DVA A 8 7 HET DLE A 10 8 HET DLE A 12 8 HET DLE A 14 8 HET ETA A 16 8 HET FVA B 1 14 HET DLE B 4 8 HET DVA B 6 7 HET DVA B 8 7 HET DLE B 10 8 HET DLE B 12 8 HET DLE B 14 8 HET ETA B 16 8 HET FVA C 1 9 HET DLE C 4 8 HET DVA C 6 7 HET DVA C 8 10 HET DLE C 10 8 HET DLE C 12 8 HET DLE C 14 8 HET ETA C 16 8 HET FVA D 1 11 HET DLE D 4 8 HET DVA D 6 7 HET DVA D 8 10 HET DLE D 10 8 HET DLE D 12 8 HET DLE D 14 8 HET ETA D 16 8 HET FVA E 1 9 HET DLE E 4 8 HET DVA E 6 7 HET DVA E 8 10 HET DLE E 10 8 HET DLE E 12 8 HET DLE E 14 8 HET ETA E 16 4 HET FVA F 1 11 HET DLE F 4 8 HET DVA F 6 10 HET DVA F 8 7 HET DLE F 10 8 HET DLE F 12 8 HET DLE F 14 8 HET ETA F 16 8 HET 15P A1001 48 HET 15P A1002 21 HET 15P A1003 22 HETNAM FVA N-FORMYL-L-VALINE HETNAM DLE D-LEUCINE HETNAM DVA D-VALINE HETNAM ETA ETHANOLAMINE HETNAM 15P POLYETHYLENE GLYCOL (N=34) HETSYN 15P PEG 1500 FORMUL 1 FVA 6(C6 H11 N O3) FORMUL 1 DLE 24(C6 H13 N O2) FORMUL 1 DVA 12(C5 H11 N O2) FORMUL 1 ETA 6(C2 H7 N O) FORMUL 7 15P 3(C69 H140 O35) FORMUL 10 HOH *3(H2 O) SHEET 1 AA 2 GLY A 2 DLE A 14 0 SHEET 2 AA 2 GLY B 2 DLE B 14 -1 O ALA B 3 N TRP A 13 SHEET 1 CA 2 ALA C 3 DLE C 14 0 SHEET 2 CA 2 GLY D 2 DLE D 14 -1 O ALA D 3 N TRP C 13 SHEET 1 EA 2 ALA E 3 DLE E 14 0 SHEET 2 EA 2 GLY F 2 DLE F 14 -1 O ALA F 3 N TRP E 13 LINK C FVA A 1 N GLY A 2 1555 1555 1.31 LINK C ALA A 3 N DLE A 4 1555 1555 1.30 LINK C DLE A 4 N ALA A 5 1555 1555 1.32 LINK C ALA A 5 N DVA A 6 1555 1555 1.33 LINK C DVA A 6 N VAL A 7 1555 1555 1.34 LINK C VAL A 7 N DVA A 8 1555 1555 1.31 LINK C DVA A 8 N TRP A 9 1555 1555 1.32 LINK C TRP A 9 N DLE A 10 1555 1555 1.31 LINK C DLE A 10 N TRP A 11 1555 1555 1.35 LINK C TRP A 11 N DLE A 12 1555 1555 1.31 LINK C DLE A 12 N TRP A 13 1555 1555 1.35 LINK C TRP A 13 N DLE A 14 1555 1555 1.34 LINK C DLE A 14 N TRP A 15 1555 1555 1.35 LINK C TRP A 15 N BETA A 16 1555 1555 1.36 LINK C TRP A 15 N AETA A 16 1555 1555 1.36 LINK C FVA B 1 N GLY B 2 1555 1555 1.31 LINK C ALA B 3 N DLE B 4 1555 1555 1.30 LINK C DLE B 4 N ALA B 5 1555 1555 1.33 LINK C ALA B 5 N DVA B 6 1555 1555 1.33 LINK C DVA B 6 N VAL B 7 1555 1555 1.33 LINK C VAL B 7 N DVA B 8 1555 1555 1.30 LINK C DVA B 8 N TRP B 9 1555 1555 1.33 LINK C TRP B 9 N DLE B 10 1555 1555 1.31 LINK C DLE B 10 N TRP B 11 1555 1555 1.34 LINK C TRP B 11 N DLE B 12 1555 1555 1.31 LINK C DLE B 12 N TRP B 13 1555 1555 1.33 LINK C TRP B 13 N DLE B 14 1555 1555 1.31 LINK C DLE B 14 N TRP B 15 1555 1555 1.33 LINK C TRP B 15 N BETA B 16 1555 1555 1.36 LINK C TRP B 15 N AETA B 16 1555 1555 1.35 LINK C FVA C 1 N GLY C 2 1555 1555 1.32 LINK C ALA C 3 N DLE C 4 1555 1555 1.30 LINK C DLE C 4 N ALA C 5 1555 1555 1.33 LINK C ALA C 5 N DVA C 6 1555 1555 1.32 LINK C DVA C 6 N VAL C 7 1555 1555 1.34 LINK C VAL C 7 N DVA C 8 1555 1555 1.32 LINK C DVA C 8 N TRP C 9 1555 1555 1.33 LINK C TRP C 9 N DLE C 10 1555 1555 1.31 LINK C DLE C 10 N TRP C 11 1555 1555 1.33 LINK C TRP C 11 N DLE C 12 1555 1555 1.31 LINK C DLE C 12 N TRP C 13 1555 1555 1.34 LINK C TRP C 13 N DLE C 14 1555 1555 1.32 LINK C DLE C 14 N TRP C 15 1555 1555 1.33 LINK C TRP C 15 N BETA C 16 1555 1555 1.34 LINK C TRP C 15 N AETA C 16 1555 1555 1.37 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 1.33 LINK C ALA D 5 N DVA D 6 1555 1555 1.30 LINK C DVA D 6 N VAL D 7 1555 1555 1.33 LINK C VAL D 7 N DVA D 8 1555 1555 1.33 LINK C DVA D 8 N TRP D 9 1555 1555 1.32 LINK C TRP D 9 N DLE D 10 1555 1555 1.31 LINK C DLE D 10 N TRP D 11 1555 1555 1.33 LINK C TRP D 11 N DLE D 12 1555 1555 1.32 LINK C DLE D 12 N TRP D 13 1555 1555 1.32 LINK C TRP D 13 N DLE D 14 1555 1555 1.32 LINK C DLE D 14 N TRP D 15 1555 1555 1.33 LINK C TRP D 15 N BETA D 16 1555 1555 1.34 LINK C TRP D 15 N AETA D 16 1555 1555 1.39 LINK C FVA E 1 N GLY E 2 1555 1555 1.32 LINK C ALA E 3 N DLE E 4 1555 1555 1.31 LINK C DLE E 4 N ALA E 5 1555 1555 1.33 LINK C ALA E 5 N DVA E 6 1555 1555 1.32 LINK C DVA E 6 N VAL E 7 1555 1555 1.34 LINK C VAL E 7 N DVA E 8 1555 1555 1.32 LINK C DVA E 8 N TRP E 9 1555 1555 1.32 LINK C TRP E 9 N DLE E 10 1555 1555 1.31 LINK C DLE E 10 N TRP E 11 1555 1555 1.33 LINK C TRP E 11 N DLE E 12 1555 1555 1.31 LINK C DLE E 12 N TRP E 13 1555 1555 1.35 LINK C TRP E 13 N DLE E 14 1555 1555 1.33 LINK C DLE E 14 N TRP E 15 1555 1555 1.32 LINK C TRP E 15 N ETA E 16 1555 1555 1.35 LINK C FVA F 1 N GLY F 2 1555 1555 1.33 LINK C ALA F 3 N DLE F 4 1555 1555 1.31 LINK C DLE F 4 N ALA F 5 1555 1555 1.33 LINK C ALA F 5 N DVA F 6 1555 1555 1.30 LINK C DVA F 6 N VAL F 7 1555 1555 1.33 LINK C VAL F 7 N DVA F 8 1555 1555 1.33 LINK C DVA F 8 N TRP F 9 1555 1555 1.32 LINK C TRP F 9 N DLE F 10 1555 1555 1.32 LINK C DLE F 10 N TRP F 11 1555 1555 1.33 LINK C TRP F 11 N DLE F 12 1555 1555 1.33 LINK C DLE F 12 N TRP F 13 1555 1555 1.32 LINK C TRP F 13 N DLE F 14 1555 1555 1.33 LINK C DLE F 14 N TRP F 15 1555 1555 1.31 LINK C TRP F 15 N BETA F 16 1555 1555 1.38 LINK C TRP F 15 N AETA F 16 1555 1555 1.34 SITE 1 AC1 14 TRP A 9 DLE A 10 TRP A 11 TRP B 9 SITE 2 AC1 14 DLE B 10 TRP B 11 TRP C 9 TRP C 13 SITE 3 AC1 14 DLE D 10 TRP D 15 TRP E 9 TRP E 13 SITE 4 AC1 14 DLE F 10 TRP F 15 SITE 1 AC2 7 TRP A 15 ETA A 16 DLE B 4 DLE C 4 SITE 2 AC2 7 TRP D 15 ETA D 16 TRP E 15 SITE 1 AC3 3 FVA B 1 TRP D 15 ETA D 16 CRYST1 30.639 62.794 30.664 90.00 100.02 90.00 P 1 21 1 12 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 0.032638 0.000000 0.005767 0.00000 SCALE2 0.000000 0.015925 0.000000 0.00000 SCALE3 0.000000 0.000000 0.033117 0.00000 MTRIX1 1 0.134000 -0.044000 -0.990000 -5.08583 1 MTRIX2 1 -0.096000 -0.995000 0.031000 -4.63332 1 MTRIX3 1 -0.986000 0.090000 -0.138000 -26.18152 1 MTRIX1 2 -0.995000 0.096000 0.039000 -19.51232 1 MTRIX2 2 0.094000 0.995000 -0.033000 1.05452 1 MTRIX3 2 -0.042000 -0.029000 -0.999000 -39.77778 1 HETATM 1 C FVA A 1 -5.545 12.834 -11.974 1.00 9.61 C ANISOU 1 C FVA A 1 1141 486 2022 -208 148 -113 C HETATM 2 N FVA A 1 -7.080 14.614 -12.608 1.00 10.71 N ANISOU 2 N FVA A 1 1229 488 2351 -96 99 1 N HETATM 3 O FVA A 1 -6.351 11.957 -12.289 1.00 11.40 O ANISOU 3 O FVA A 1 1154 473 2702 -237 48 -53 O HETATM 4 CA FVA A 1 -6.031 14.254 -11.707 1.00 10.62 C ANISOU 4 CA FVA A 1 1267 531 2236 -59 165 -144 C HETATM 5 CB AFVA A 1 -6.397 14.402 -10.199 0.50 13.20 C ANISOU 5 CB AFVA A 1 1663 848 2502 4 96 -299 C HETATM 6 CB BFVA A 1 -6.591 14.365 -10.264 0.50 13.37 C ANISOU 6 CB BFVA A 1 1852 803 2426 -237 187 -187 C HETATM 7 CG1AFVA A 1 -6.756 15.857 -9.846 0.50 14.52 C ANISOU 7 CG1AFVA A 1 1828 1101 2586 -105 323 -505 C HETATM 8 CG1BFVA A 1 -7.794 13.422 -10.070 0.50 15.68 C ANISOU 8 CG1BFVA A 1 1936 1265 2756 260 326 -94 C HETATM 9 CG2AFVA A 1 -7.518 13.449 -9.789 0.50 16.17 C ANISOU 9 CG2AFVA A 1 1916 1682 2544 -109 -8 -487 C HETATM 10 CG2BFVA A 1 -5.504 14.156 -9.194 0.50 13.37 C ANISOU 10 CG2BFVA A 1 1994 1141 1943 3 365 -213 C HETATM 11 O1 AFVA A 1 -6.361 16.733 -12.639 0.50 8.33 O ANISOU 11 O1 AFVA A 1 1367 392 1404 -165 54 -33 O HETATM 12 O1 BFVA A 1 -6.384 16.710 -13.399 0.50 9.52 O ANISOU 12 O1 BFVA A 1 1466 558 1592 -241 -170 -3 O HETATM 13 CN AFVA A 1 -7.223 15.893 -12.895 0.50 8.41 C ANISOU 13 CN AFVA A 1 1304 285 1605 -94 345 -186 C HETATM 14 CN BFVA A 1 -7.126 15.717 -13.443 0.50 9.27 C ANISOU 14 CN BFVA A 1 1366 329 1827 0 428 -326 C