HEADER DNA/ANTIBIOTIC 06-SEP-02 1MNV TITLE ACTINOMYCIN D BINDING TO ATGCTGCAT COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*AP*TP*GP*CP*TP*GP*CP*AP*T)-3'; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ACTINOMYCIN D; COMPND 7 CHAIN: C, D; COMPND 8 SYNONYM: DACTINOMYCIN; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN HUMANS; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: STREPTOMYCES ANTIBIOTICUS; SOURCE 6 ORGANISM_TAXID: 1890 KEYWDS ACTINOMYCIN D, ACTINOMYCIN, ANTIBIOTIC, ANTI CANCER, ANTITUMOR, KEYWDS 2 CHROMOPHORE, DEPSIPEPTIDE, DNA-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.-H.HOU,H.ROBINSON,Y.-G.GAO,A.H.-J.WANG REVDAT 5 15-NOV-23 1MNV 1 LINK ATOM REVDAT 4 27-JUL-11 1MNV 1 DBREF REMARK REVDAT 3 13-JUL-11 1MNV 1 VERSN REVDAT 2 24-FEB-09 1MNV 1 VERSN REVDAT 1 22-NOV-02 1MNV 0 JRNL AUTH M.-H.HOU,H.ROBINSON,Y.-G.GAO,A.H.-J.WANG JRNL TITL CRYSTAL STRUCTURE OF ACTINOMYCIN D BOUND TO THE CTG TRIPLET JRNL TITL 2 REPEAT SEQUENCES LINKED TO NEUROLOGICAL DISEASES JRNL REF NUCLEIC ACIDS RES. V. 30 4910 2002 JRNL REFN ISSN 0305-1048 JRNL PMID 12433994 JRNL DOI 10.1093/NAR/GKF619 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 5.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.0 REMARK 3 NUMBER OF REFLECTIONS : 2650 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 SET) : 0.233 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 120 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2650 REMARK 3 BIN R VALUE (WORKING SET) : 0.2330 REMARK 3 BIN FREE R VALUE : 0.2950 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 180 REMARK 3 NUCLEIC ACID ATOMS : 362 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 65 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 5.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1MNV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-SEP-02. REMARK 100 THE DEPOSITION ID IS D_1000017039. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9530 REMARK 200 MONOCHROMATOR : 3X3 MOSAIC CCD DETECTOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25064 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 80.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 29.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.13900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 14.40 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM-CACODYLATE BUFFER (PH 6.0), 10 REMARK 280 MM BACL2, 3 MM SPERMINE, 4 % MPD SOLUTION, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 323K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 1 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -Y,-X,-Z+2/3 REMARK 290 5555 -X+Y,Y,-Z+1/3 REMARK 290 6555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 23.15000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 46.30000 REMARK 290 SMTRY1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 46.30000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 23.15000 REMARK 290 SMTRY1 6 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 ACTINOMYCIN D IS A BICYCLIC PEPTIDE, A MEMBER OF THE REMARK 400 ACTINOMYCIN FAMILY. REMARK 400 HERE, ACTINOMYCIN D IS REPRESENTED BY THE SEQUENCE (SEQRES) REMARK 400 REMARK 400 THE ACTINOMYCIN D IS POLYPEPTIDE, A MEMBER OF ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: ACTINOMYCIN D REMARK 400 CHAIN: C, D REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: ACTINOMYCIN D CONSISTS OF TWO PENTAMER RINGS LINKED REMARK 400 BY THE CHROMOPHORE (PXZ) 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 DA A 1 C5' DA A 1 C4' 0.050 REMARK 500 DT A 2 N1 DT A 2 C2 -0.093 REMARK 500 DT A 2 C2 DT A 2 N3 -0.051 REMARK 500 DT A 2 C6 DT A 2 N1 -0.045 REMARK 500 DG A 3 C3' DG A 3 C2' -0.051 REMARK 500 DG A 3 O3' DG A 3 C3' -0.042 REMARK 500 DG A 3 C5 DG A 3 N7 0.047 REMARK 500 DC A 4 C4' DC A 4 C3' -0.070 REMARK 500 DT A 5 C3' DT A 5 C2' -0.050 REMARK 500 DT A 5 C5 DT A 5 C6 -0.070 REMARK 500 DT A 5 C6 DT A 5 N1 -0.056 REMARK 500 DG A 6 O3' DG A 6 C3' -0.038 REMARK 500 DC A 7 P DC A 7 O5' 0.069 REMARK 500 DA A 8 C5' DA A 8 C4' 0.049 REMARK 500 DA B 10 C5' DA B 10 C4' 0.044 REMARK 500 DT B 11 O4' DT B 11 C1' -0.097 REMARK 500 DT B 11 O4' DT B 11 C4' -0.111 REMARK 500 DT B 11 C5 DT B 11 C7 0.037 REMARK 500 DG B 12 C4' DG B 12 C3' -0.090 REMARK 500 DG B 12 O3' DG B 12 C3' -0.059 REMARK 500 DG B 12 C6 DG B 12 N1 -0.043 REMARK 500 DC B 13 P DC B 13 O5' 0.072 REMARK 500 DC B 13 N1 DC B 13 C6 -0.041 REMARK 500 DT B 14 O4' DT B 14 C4' -0.195 REMARK 500 DT B 14 C5 DT B 14 C6 -0.045 REMARK 500 DT B 14 C6 DT B 14 N1 -0.046 REMARK 500 DG B 15 N3 DG B 15 C4 -0.058 REMARK 500 DG B 15 N9 DG B 15 C4 -0.071 REMARK 500 DA B 17 C4' DA B 17 C3' -0.080 REMARK 500 DT B 18 C5 DT B 18 C7 0.061 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 DA A 1 O4' - C1' - N9 ANGL. DEV. = 7.1 DEGREES REMARK 500 DT A 2 O4' - C4' - C3' ANGL. DEV. = -4.4 DEGREES REMARK 500 DT A 2 O4' - C1' - N1 ANGL. DEV. = -7.2 DEGREES REMARK 500 DT A 2 C6 - C5 - C7 ANGL. DEV. = -4.0 DEGREES REMARK 500 DC A 4 C5' - C4' - O4' ANGL. DEV. = 10.8 DEGREES REMARK 500 DC A 4 N3 - C4 - C5 ANGL. DEV. = -3.5 DEGREES REMARK 500 DC A 4 C3' - O3' - P ANGL. DEV. = 8.1 DEGREES REMARK 500 DT A 5 C2 - N3 - C4 ANGL. DEV. = -5.0 DEGREES REMARK 500 DT A 5 C4 - C5 - C7 ANGL. DEV. = 7.0 DEGREES REMARK 500 DT A 5 C6 - C5 - C7 ANGL. DEV. = -9.9 DEGREES REMARK 500 DG A 6 O4' - C1' - N9 ANGL. DEV. = -5.3 DEGREES REMARK 500 DC A 7 C5' - C4' - C3' ANGL. DEV. = -11.5 DEGREES REMARK 500 DC A 7 C3' - O3' - P ANGL. DEV. = 11.1 DEGREES REMARK 500 DA A 8 O4' - C1' - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 DA A 8 C3' - O3' - P ANGL. DEV. = 10.0 DEGREES REMARK 500 DT A 9 O4' - C1' - C2' ANGL. DEV. = -4.8 DEGREES REMARK 500 DT A 9 C4 - C5 - C6 ANGL. DEV. = 3.8 DEGREES REMARK 500 DT A 9 C6 - C5 - C7 ANGL. DEV. = -4.0 DEGREES REMARK 500 DA B 10 C3' - O3' - P ANGL. DEV. = 13.3 DEGREES REMARK 500 DT B 11 C5' - C4' - O4' ANGL. DEV. = 15.0 DEGREES REMARK 500 DT B 11 C1' - O4' - C4' ANGL. DEV. = -6.5 DEGREES REMARK 500 DT B 11 C4' - C3' - C2' ANGL. DEV. = -5.4 DEGREES REMARK 500 DT B 11 O4' - C1' - N1 ANGL. DEV. = 11.6 DEGREES REMARK 500 DG B 12 C5' - C4' - O4' ANGL. DEV. = 6.7 DEGREES REMARK 500 DG B 12 O4' - C1' - C2' ANGL. DEV. = -6.1 DEGREES REMARK 500 DG B 12 O4' - C1' - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 DC B 13 P - O5' - C5' ANGL. DEV. = 11.3 DEGREES REMARK 500 DC B 13 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC B 13 N1 - C2 - O2 ANGL. DEV. = 4.0 DEGREES REMARK 500 DC B 13 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 DC B 13 C3' - O3' - P ANGL. DEV. = 10.3 DEGREES REMARK 500 DT B 14 O4' - C4' - C3' ANGL. DEV. = -4.7 DEGREES REMARK 500 DT B 14 C5' - C4' - O4' ANGL. DEV. = 7.5 DEGREES REMARK 500 DT B 14 C3' - C2' - C1' ANGL. DEV. = -5.4 DEGREES REMARK 500 DT B 14 N1 - C1' - C2' ANGL. DEV. = 9.4 DEGREES REMARK 500 DT B 14 O4' - C1' - N1 ANGL. DEV. = 8.0 DEGREES REMARK 500 DT B 14 C4 - C5 - C6 ANGL. DEV. = 5.1 DEGREES REMARK 500 DT B 14 N3 - C2 - O2 ANGL. DEV. = 4.1 DEGREES REMARK 500 DT B 14 C4 - C5 - C7 ANGL. DEV. = 4.0 DEGREES REMARK 500 DT B 14 C6 - C5 - C7 ANGL. DEV. = -9.2 DEGREES REMARK 500 DG B 15 N9 - C1' - C2' ANGL. DEV. = 9.0 DEGREES REMARK 500 DG B 15 O4' - C1' - N9 ANGL. DEV. = -7.3 DEGREES REMARK 500 DG B 15 N9 - C4 - C5 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG B 15 N3 - C4 - N9 ANGL. DEV. = -5.3 DEGREES REMARK 500 DC B 16 O5' - P - OP2 ANGL. DEV. = -5.6 DEGREES REMARK 500 DC B 16 C1' - O4' - C4' ANGL. DEV. = -13.6 DEGREES REMARK 500 DC B 16 C6 - N1 - C2 ANGL. DEV. = 3.1 DEGREES REMARK 500 DC B 16 N1 - C2 - O2 ANGL. DEV. = 4.0 DEGREES REMARK 500 DA B 17 O4' - C4' - C3' ANGL. DEV. = -3.3 DEGREES REMARK 500 DA B 17 O4' - C1' - C2' ANGL. DEV. = -5.6 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 53 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 DVA C 8 PRO C 9 30.33 REMARK 500 DVA D 8 PRO D 9 45.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DA A 1 0.08 SIDE CHAIN REMARK 500 DG A 3 0.16 SIDE CHAIN REMARK 500 DC A 4 0.10 SIDE CHAIN REMARK 500 DG A 6 0.12 SIDE CHAIN REMARK 500 DC A 7 0.10 SIDE CHAIN REMARK 500 DA B 10 0.07 SIDE CHAIN REMARK 500 DT B 11 0.13 SIDE CHAIN REMARK 500 DG B 12 0.10 SIDE CHAIN REMARK 500 DT B 14 0.13 SIDE CHAIN REMARK 500 DG B 15 0.08 SIDE CHAIN REMARK 500 DC B 16 0.07 SIDE CHAIN REMARK 500 DA B 17 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1A7Z RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ACTINOMYCIN Z3 REMARK 900 RELATED ID: 209D RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF N8-ACTINOMYCIN D COMPLEXED WITH D(GAAGCTTC)2 REMARK 900 RELATED ID: 1UNM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 7-AMINOACTINOMYCIN D COMPLEXED WITH NON- REMARK 900 COMPLEMENTARY DNA REMARK 900 RELATED ID: 1I3W RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (CGATCGATCG)2 REMARK 900 RELATED ID: 1A7Y RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ACTINOMYCIN D REMARK 900 RELATED ID: 1FJA RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (AAGCGCTT)2 REMARK 900 RELATED ID: 173D RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2 REMARK 900 RELATED ID: 2D55 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2 REMARK 900 RELATED ID: 1DSC RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2 REMARK 900 RELATED ID: 1L1V RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF ACTNIOMYCIN D COMPLEXED WITH MISMATCHED DNA REMARK 900 (GTCACCGAC) REMARK 900 RELATED ID: 316D RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF F8-ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2 REMARK 900 RELATED ID: 1DSD RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GATGCTTC)2 REMARK 900 RELATED ID: 1UNJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 7-AMINO-ACTINOMYCIN D COMPLEXED WITH A NON- REMARK 900 COMPLEMENTARY DNA (TTAGT)2 REMARK 900 RELATED ID: 1OVF RELATED DB: PDB REMARK 900 SOLUTIOM STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (CCGTTTTGTGG) REMARK 900 2 REMARK 900 RELATED ID: 1QFI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ACTINOMYCIN X2 DBREF 1MNV A 1 9 PDB 1MNV 1MNV 1 9 DBREF 1MNV B 10 18 PDB 1MNV 1MNV 10 18 DBREF 1MNV C 1 11 NOR NOR00228 NOR00228 1 11 DBREF 1MNV D 1 11 NOR NOR00228 NOR00228 1 11 SEQRES 1 A 9 DA DT DG DC DT DG DC DA DT SEQRES 1 B 9 DA DT DG DC DT DG DC DA DT SEQRES 1 C 11 THR DVA PRO SAR MVA PXZ THR DVA PRO SAR MVA SEQRES 1 D 11 THR DVA PRO SAR MVA PXZ THR DVA PRO SAR MVA HET DVA C 2 7 HET SAR C 4 5 HET MVA C 5 8 HET PXZ C 6 22 HET DVA C 8 7 HET SAR C 10 5 HET MVA C 11 8 HET DVA D 2 7 HET SAR D 4 5 HET MVA D 5 8 HET PXZ D 6 22 HET DVA D 8 7 HET SAR D 10 5 HET MVA D 11 8 HETNAM DVA D-VALINE HETNAM SAR SARCOSINE HETNAM MVA N-METHYLVALINE HETNAM PXZ 2-AMINO-1,9-DICARBONYL-4,6-DIMETHYL-10-DEHYDRO- HETNAM 2 PXZ PHENOXAZIN-3-ONE HETSYN PXZ PHENOXAZINE FORMUL 3 DVA 4(C5 H11 N O2) FORMUL 3 SAR 4(C3 H7 N O2) FORMUL 3 MVA 4(C6 H13 N O2) FORMUL 3 PXZ 2(C16 H12 N2 O4) FORMUL 5 HOH *65(H2 O) LINK C THR C 1 N DVA C 2 1555 1555 1.31 LINK OG1 THR C 1 C MVA C 5 1555 1555 1.34 LINK N THR C 1 C0 PXZ C 6 1555 1555 1.31 LINK C DVA C 2 N PRO C 3 1555 1555 1.33 LINK C PRO C 3 N SAR C 4 1555 1555 1.31 LINK C SAR C 4 N MVA C 5 1555 1555 1.32 LINK C0' PXZ C 6 N THR C 7 1555 1555 1.34 LINK C THR C 7 N DVA C 8 1555 1555 1.29 LINK OG1 THR C 7 C MVA C 11 1555 1555 1.43 LINK C DVA C 8 N PRO C 9 1555 1555 1.32 LINK C PRO C 9 N SAR C 10 1555 1555 1.31 LINK C SAR C 10 N MVA C 11 1555 1555 1.31 LINK C THR D 1 N DVA D 2 1555 1555 1.31 LINK OG1 THR D 1 C MVA D 5 1555 1555 1.36 LINK N THR D 1 C0 PXZ D 6 1555 1555 1.32 LINK C DVA D 2 N PRO D 3 1555 1555 1.32 LINK C PRO D 3 N SAR D 4 1555 1555 1.32 LINK C SAR D 4 N MVA D 5 1555 1555 1.31 LINK C0' PXZ D 6 N THR D 7 1555 1555 1.32 LINK C THR D 7 N DVA D 8 1555 1555 1.31 LINK OG1 THR D 7 C MVA D 11 1555 1555 1.34 LINK C DVA D 8 N PRO D 9 1555 1555 1.33 LINK C PRO D 9 N SAR D 10 1555 1555 1.31 LINK C SAR D 10 N MVA D 11 1555 1555 1.31 CISPEP 1 DVA C 2 PRO C 3 0 26.26 CISPEP 2 PRO C 3 SAR C 4 0 0.01 CISPEP 3 PRO C 9 SAR C 10 0 -0.78 CISPEP 4 DVA D 2 PRO D 3 0 24.39 CISPEP 5 PRO D 3 SAR D 4 0 -0.03 CISPEP 6 PRO D 9 SAR D 10 0 -0.38 SITE 1 AC1 10 DT A 2 DG A 3 DC A 4 DT B 14 SITE 2 AC1 10 DG B 15 DC B 16 DA B 17 HOH B2015 SITE 3 AC1 10 SAR D 10 MVA D 11 SITE 1 AC2 12 DG A 6 DC A 7 DA A 8 HOH A2001 SITE 2 AC2 12 DT B 11 DG B 12 DC B 13 DT B 14 SITE 3 AC2 12 DVA C 8 PRO C 9 SAR C 10 HOH D2003 CRYST1 47.240 47.240 69.450 90.00 90.00 120.00 P 31 1 2 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 0.021169 0.012222 0.000000 0.00000 SCALE2 0.000000 0.024443 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014399 0.00000