HEADER DNA 12-MAY-96 258D TITLE FACTORS AFFECTING SEQUENCE SELECTIVITY ON NOGALAMYCIN INTERCALATION: TITLE 2 THE CRYSTAL STRUCTURE OF D(TGTACA)-NOGALAMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*TP*GP*TP*AP*CP*A)-3'); COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS B-DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, DNA EXPDTA X-RAY DIFFRACTION AUTHOR C.K.SMITH,J.A.BRANNIGAN,M.H.MOORE REVDAT 4 02-AUG-23 258D 1 REMARK REVDAT 3 24-FEB-09 258D 1 VERSN REVDAT 2 01-APR-03 258D 1 JRNL REVDAT 1 20-JUN-96 258D 0 JRNL AUTH C.K.SMITH,J.A.BRANNIGAN,M.H.MOORE JRNL TITL FACTORS AFFECTING DNA SEQUENCE SELECTIVITY OF NOGALAMYCIN JRNL TITL 2 INTERCALATION: THE CRYSTAL STRUCTURE OF JRNL TITL 3 D(TGTACA)2-NOGALAMYCIN2. JRNL REF J.MOL.BIOL. V. 263 237 1996 JRNL REFN ISSN 0022-2836 JRNL PMID 8913304 JRNL DOI 10.1006/JMBI.1996.0572 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.K.SMITH,G.J.DAVIES,E.J.DODSON,M.H.MOORE REMARK 1 TITL DNA-NOGALAMYCIN INTERACTIONS: THE CRYSTAL STRUCTURE OF REMARK 1 TITL 2 D(TGATCA) COMPLEXED WITH NOGALAMYCIN REMARK 1 REF BIOCHEMISTRY V. 34 415 1995 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.S.SCHUERMAN,C.K.SMITH,J.P.TURKENBURG,A.N.DETTMAR, REMARK 1 AUTH 2 L.VAN MEERVELT,M.H.MOORE REMARK 1 TITL DNA-DRUG REFINEMENT: A COMPARISON OF THE PROGRAMS NUCLSQ, REMARK 1 TITL 2 PROLSQ, SHELXL93 AND X-PLOR, USING THE LOW TEMPERATURE REMARK 1 TITL 3 D(TGATCA)-NOGALAMYCIN STRUCTURE REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 52 299 1996 REMARK 1 REFN ISSN 0907-4449 REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-93 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.192 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.188 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 1235 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 12358 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.180 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.176 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 1235 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 12358 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 480 REMARK 3 HETEROGEN ATOMS : 247 REMARK 3 SOLVENT ATOMS : 97 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 3310 REMARK 3 NUMBER OF RESTRAINTS : 12049 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 ANGLE DISTANCES (A) : NULL REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.023 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.089 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.091 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.004 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.022 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.057 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: BABINET'S PRINCIPLE REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : TAYLOR AND KENNARD REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ESTIMATED COORDINATE ERROR (A) : 0.12A REMARK 4 REMARK 4 258D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY NDB. REMARK 100 THE DEPOSITION ID IS D_1000177668. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-94 REMARK 200 TEMPERATURE (KELVIN) : 277.00 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X31 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : HENDRIX-LENTFER REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : CCP4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13148 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 10.690 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 69.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.19600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NDB ENTRY DDF049 (PDB: 182D) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.50, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277.00K 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 13.15000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 33.54000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.99000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 33.54000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 13.15000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 25.99000 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 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 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 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 DT A 1 C5' DT A 1 C4' 0.045 REMARK 500 DT A 1 C4' DT A 1 C3' -0.064 REMARK 500 DG A 2 C5' DG A 2 C4' 0.054 REMARK 500 DG A 2 C2' DG A 2 C1' 0.061 REMARK 500 DT A 3 P DT A 3 O5' 0.086 REMARK 500 DT A 3 C5 DT A 3 C7 0.038 REMARK 500 DA A 4 P DA A 4 O5' 0.069 REMARK 500 DA A 4 C5' DA A 4 C4' 0.056 REMARK 500 DA A 4 O3' DC A 5 P 0.083 REMARK 500 DC A 5 P DC A 5 O5' 0.066 REMARK 500 DC A 5 C5' DC A 5 C4' 0.050 REMARK 500 DC A 5 C4' DC A 5 C3' -0.065 REMARK 500 DC A 5 C2' DC A 5 C1' 0.078 REMARK 500 DC A 5 O3' DA A 6 P 0.079 REMARK 500 DA A 6 C6 DA A 6 N1 -0.050 REMARK 500 DG B 8 P DG B 8 O5' 0.066 REMARK 500 DG B 8 C5' DG B 8 C4' 0.055 REMARK 500 DA B 10 O3' DC B 11 P 0.081 REMARK 500 DC B 11 P DC B 11 O5' 0.070 REMARK 500 DC B 11 C5' DC B 11 C4' 0.057 REMARK 500 DC B 11 C4' DC B 11 C3' -0.062 REMARK 500 DC B 11 C2' DC B 11 C1' 0.081 REMARK 500 DT C 13 C5' DT C 13 C4' 0.046 REMARK 500 DT C 13 C4' DT C 13 C3' -0.068 REMARK 500 DG C 14 C5' DG C 14 C4' 0.048 REMARK 500 DG C 14 O3' DT C 15 P 0.073 REMARK 500 DT C 15 C4' DT C 15 C3' -0.065 REMARK 500 DA C 16 C5' DA C 16 C4' 0.050 REMARK 500 DA C 16 O3' DC C 17 P 0.087 REMARK 500 DC C 17 P DC C 17 O5' 0.081 REMARK 500 DC C 17 C5' DC C 17 C4' 0.053 REMARK 500 DC C 17 C4' DC C 17 C3' -0.073 REMARK 500 DC C 17 C2' DC C 17 C1' 0.079 REMARK 500 DC C 17 O4' DC C 17 C4' 0.055 REMARK 500 DA C 18 C5' DA C 18 C4' 0.054 REMARK 500 DA C 18 C4' DA C 18 C3' -0.065 REMARK 500 DT D 19 C5' DT D 19 C4' 0.047 REMARK 500 DT D 19 C4' DT D 19 C3' -0.063 REMARK 500 DT D 19 O3' DG D 20 P 0.077 REMARK 500 DG D 20 P DG D 20 O5' 0.066 REMARK 500 DG D 20 C5' DG D 20 C4' 0.058 REMARK 500 DG D 20 C2' DG D 20 C1' 0.067 REMARK 500 DA D 22 P DA D 22 O5' 0.072 REMARK 500 DA D 22 C4' DA D 22 C3' -0.063 REMARK 500 DC D 23 P DC D 23 O5' 0.066 REMARK 500 DC D 23 C5' DC D 23 C4' 0.050 REMARK 500 DC D 23 C2' DC D 23 C1' 0.085 REMARK 500 DC D 23 O3' DA D 24 P 0.088 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 DT A 1 O5' - C5' - C4' ANGL. DEV. = -5.7 DEGREES REMARK 500 DT A 1 C4' - C3' - C2' ANGL. DEV. = 8.7 DEGREES REMARK 500 DT A 1 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DT A 1 N3 - C4 - O4 ANGL. DEV. = 7.2 DEGREES REMARK 500 DT A 1 C5 - C4 - O4 ANGL. DEV. = -6.1 DEGREES REMARK 500 DG A 2 O5' - C5' - C4' ANGL. DEV. = -8.1 DEGREES REMARK 500 DG A 2 C4' - C3' - C2' ANGL. DEV. = 6.9 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG A 2 C5 - C6 - O6 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG A 2 C3' - O3' - P ANGL. DEV. = 13.9 DEGREES REMARK 500 DT A 3 OP1 - P - OP2 ANGL. DEV. = 16.0 DEGREES REMARK 500 DT A 3 O5' - C5' - C4' ANGL. DEV. = -6.6 DEGREES REMARK 500 DT A 3 P - O5' - C5' ANGL. DEV. = -13.5 DEGREES REMARK 500 DT A 3 C4' - C3' - C2' ANGL. DEV. = 8.2 DEGREES REMARK 500 DT A 3 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT A 3 C3' - O3' - P ANGL. DEV. = 10.6 DEGREES REMARK 500 DA A 4 OP1 - P - OP2 ANGL. DEV. = 16.3 DEGREES REMARK 500 DA A 4 O5' - C5' - C4' ANGL. DEV. = -8.3 DEGREES REMARK 500 DA A 4 C4' - C3' - C2' ANGL. DEV. = 7.0 DEGREES REMARK 500 DA A 4 C3' - O3' - P ANGL. DEV. = 11.1 DEGREES REMARK 500 DC A 5 OP1 - P - OP2 ANGL. DEV. = 20.4 DEGREES REMARK 500 DC A 5 O5' - C5' - C4' ANGL. DEV. = -7.7 DEGREES REMARK 500 DC A 5 C4' - C3' - C2' ANGL. DEV. = 5.8 DEGREES REMARK 500 DC A 5 O4' - C1' - N1 ANGL. DEV. = 7.0 DEGREES REMARK 500 DC A 5 C6 - N1 - C2 ANGL. DEV. = 2.4 DEGREES REMARK 500 DC A 5 C2 - N3 - C4 ANGL. DEV. = -5.3 DEGREES REMARK 500 DC A 5 N3 - C4 - C5 ANGL. DEV. = 4.7 DEGREES REMARK 500 DA A 6 O5' - C5' - C4' ANGL. DEV. = -6.9 DEGREES REMARK 500 DA A 6 C4' - C3' - C2' ANGL. DEV. = 7.3 DEGREES REMARK 500 DA A 6 N1 - C2 - N3 ANGL. DEV. = -4.1 DEGREES REMARK 500 DA A 6 C2 - N3 - C4 ANGL. DEV. = 5.2 DEGREES REMARK 500 DA A 6 N9 - C4 - C5 ANGL. DEV. = -3.0 DEGREES REMARK 500 DA A 6 N3 - C4 - N9 ANGL. DEV. = 5.4 DEGREES REMARK 500 DA A 6 C5 - C6 - N6 ANGL. DEV. = -5.8 DEGREES REMARK 500 DT B 7 O5' - C5' - C4' ANGL. DEV. = -6.7 DEGREES REMARK 500 DT B 7 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DT B 7 C4' - C3' - C2' ANGL. DEV. = 5.5 DEGREES REMARK 500 DT B 7 C2 - N3 - C4 ANGL. DEV. = -5.0 DEGREES REMARK 500 DT B 7 C5 - C6 - N1 ANGL. DEV. = -4.7 DEGREES REMARK 500 DT B 7 C3' - O3' - P ANGL. DEV. = 14.6 DEGREES REMARK 500 DG B 8 OP1 - P - OP2 ANGL. DEV. = 10.8 DEGREES REMARK 500 DG B 8 O5' - C5' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 DG B 8 C4' - C3' - C2' ANGL. DEV. = 7.3 DEGREES REMARK 500 DG B 8 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 DG B 8 C6 - N1 - C2 ANGL. DEV. = -6.1 DEGREES REMARK 500 DG B 8 C5 - C6 - N1 ANGL. DEV. = 4.1 DEGREES REMARK 500 DG B 8 N1 - C2 - N2 ANGL. DEV. = -6.5 DEGREES REMARK 500 DG B 8 N1 - C6 - O6 ANGL. DEV. = -5.9 DEGREES REMARK 500 DG B 8 C3' - O3' - P ANGL. DEV. = 14.7 DEGREES REMARK 500 DT B 9 OP1 - P - OP2 ANGL. DEV. = 11.6 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 122 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NGM B 25 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NGM A 26 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NGM D 27 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NGM C 28 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPM A 29 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 30 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 31 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 32 DBREF 258D A 1 6 PDB 258D 258D 1 6 DBREF 258D B 7 12 PDB 258D 258D 7 12 DBREF 258D C 13 18 PDB 258D 258D 13 18 DBREF 258D D 19 24 PDB 258D 258D 19 24 SEQRES 1 A 6 DT DG DT DA DC DA SEQRES 1 B 6 DT DG DT DA DC DA SEQRES 1 C 6 DT DG DT DA DC DA SEQRES 1 D 6 DT DG DT DA DC DA HET NGM A 26 56 HET SPM A 29 14 HET NGM B 25 56 HET NA B 30 1 HET ACT B 31 4 HET ACT B 32 4 HET NGM C 28 56 HET NGM D 27 56 HETNAM NGM NOGALAMYCIN HETNAM SPM SPERMINE HETNAM NA SODIUM ION HETNAM ACT ACETATE ION FORMUL 5 NGM 4(C39 H49 N O16) FORMUL 6 SPM C10 H26 N4 FORMUL 8 NA NA 1+ FORMUL 9 ACT 2(C2 H3 O2 1-) FORMUL 13 HOH *97(H2 O) LINK N7 DA B 12 NA NA B 30 1555 1555 2.68 SITE 1 AC1 16 DT A 1 DC A 5 DA A 6 NGM A 26 SITE 2 AC1 16 DT B 7 DG B 8 DT B 9 DA B 10 SITE 3 AC1 16 HOH B 46 HOH B 81 HOH B 82 HOH B 84 SITE 4 AC1 16 HOH B 95 HOH B 96 DA C 18 DA D 24 SITE 1 AC2 14 DT A 1 DG A 2 DT A 3 DA A 4 SITE 2 AC2 14 SPM A 29 HOH A 44 HOH A 64 HOH A 65 SITE 3 AC2 14 HOH A 77 HOH A 94 DC B 11 DA B 12 SITE 4 AC2 14 NGM B 25 ACT B 32 SITE 1 AC3 10 SPM A 29 DC C 17 DA C 18 DT D 19 SITE 2 AC3 10 DG D 20 DT D 21 DA D 22 HOH D 73 SITE 3 AC3 10 HOH D 108 HOH D 125 SITE 1 AC4 15 DT A 1 DG A 2 DA B 12 DT C 13 SITE 2 AC4 15 DG C 14 DT C 15 DA C 16 HOH C 66 SITE 3 AC4 15 HOH C 71 HOH C 83 HOH C 86 HOH C 113 SITE 4 AC4 15 HOH C 126 DC D 23 DA D 24 SITE 1 AC5 8 DT A 1 DA A 6 NGM A 26 HOH A 48 SITE 2 AC5 8 HOH A 72 DG D 20 DT D 21 NGM D 27 SITE 1 AC6 3 DA B 12 ACT B 31 ACT B 32 SITE 1 AC7 5 DC B 11 DA B 12 NA B 30 ACT B 32 SITE 2 AC7 5 HOH B 106 SITE 1 AC8 4 NGM A 26 HOH A 34 NA B 30 ACT B 31 CRYST1 26.300 51.980 67.080 90.00 90.00 90.00 P 21 21 21 16 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 0.038023 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019238 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014908 0.00000