HEADER DNA/ANTIBIOTIC 18-MAR-09 3GO3 TITLE INTERACTIONS OF AN ECHINOMYCIN-DNA COMPLEX WITH MANGANESE(II) IONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*AP*CP*GP*TP*AP*CP*GP*T)-3'; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ECHINOMYCIN; COMPND 7 CHAIN: C, D; COMPND 8 SYNONYM: QUINOMYCIN A SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: STREPTOMYCES ECHINATUS; SOURCE 5 ORGANISM_TAXID: 67293 KEYWDS BISINTERCALATOR, HOOGSTEEN BASEPAIR, DEPSIPEPTIDE, QUINOXALINE, KEYWDS 2 THIOACETAL, ANTIBIOTIC, ANTITUMOR, DNA-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.PFOH,J.A.CUESTA-SEIJO,G.M.SHELDRICK REVDAT 6 27-JUL-11 3GO3 1 REMARK REVDAT 5 13-JUL-11 3GO3 1 VERSN REVDAT 4 28-JUL-09 3GO3 1 COMPND REVDAT 3 21-JUL-09 3GO3 1 JRNL REVDAT 2 28-APR-09 3GO3 1 REMARK REVDAT 1 31-MAR-09 3GO3 0 JRNL AUTH R.PFOH,J.A.CUESTA-SEIJO,G.M.SHELDRICK JRNL TITL INTERACTION OF AN ECHINOMYCIN-DNA COMPLEX WITH MANGANESE ION JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 65 660 2009 JRNL REFN ESSN 1744-3091 JRNL PMID 19574634 JRNL DOI 10.1107/S1744309109019654 REMARK 2 REMARK 2 RESOLUTION. 1.10 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) : 1.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 4.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.3 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) : 0.163 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.162 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.250 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 1177 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 22400 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.157 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.156 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 5.280 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 1040 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 19703 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 134 REMARK 3 NUCLEIC ACID ATOMS : 322 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 45 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 : 4945 REMARK 3 NUMBER OF RESTRAINTS : 6976 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 ANGLE DISTANCES (A) : 0.033 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.229 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.083 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.055 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.041 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.050 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.065 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.077 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: BABINET REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE SKELETON OF ECHINOMYCIN IS NEARLY REMARK 3 SYMMETRIC (NOT MODELLED TO DO SO), THE BRIDGE IS NOT. BOTH REMARK 3 POSSIBLE ORIENTATIONS OF BINDING WERE OBSERVED, BUT SKELETON REMARK 3 POSITIONS NEARLY OVERLAP, SO ONLY THE BRIDGE WAS MODELLED AS REMARK 3 DISORDERED/MICROHETE REMARK 4 REMARK 4 3GO3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-MAR-09. REMARK 100 THE RCSB ID CODE IS RCSB052102. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-MAY-08; 23-DEC-04; 21-DEC-05 REMARK 200 TEMPERATURE (KELVIN) : 100; 100; 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; N; N REMARK 200 RADIATION SOURCE : SLS; ROTATING ANODE; ROTATING REMARK 200 ANODE REMARK 200 BEAMLINE : X10SA; NULL; NULL REMARK 200 X-RAY GENERATOR MODEL : NULL; MACSCIENCE; MACSCIENCE REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M; M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000; 1.54178; 1.54178 REMARK 200 MONOCHROMATOR : SI 111 DOUBLE CRYSTAL; MULTI- REMARK 200 LAYER; MULTI-LAYER REMARK 200 OPTICS : NULL; NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; IMAGE PLATE; CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD; MAR REMARK 200 SCANNER 345 MM PLATE; BRUKER REMARK 200 SMART 6000 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS; XDS; SAINT REMARK 200 DATA SCALING SOFTWARE : SADABS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23140 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.2 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.03280 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.0600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.17 REMARK 200 R MERGE FOR SHELL (I) : 0.20190 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.440 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH; SAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% V/V PEG 200, 6% W/V PEG 3350, 16MM REMARK 280 MANGANESE(II) CHLORIDE, 20MM SPERMINE TETRACHLORIDE, 0.1M MES REMARK 280 BUFFER (PH 6.0), VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 81.06450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 13.27200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 13.27200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 40.53225 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 13.27200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 13.27200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 121.59675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 13.27200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 13.27200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 40.53225 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 13.27200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 13.27200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 121.59675 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 81.06450 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: 1170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.2 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2004 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 THE ECHINOMYCIN IS A BICYCLIC OCTADEPSIPEPTIDE, A MEMBER REMARK 400 OF THE QUINOXALINE CLASS OF ANTIBIOTICS. REMARK 400 REMARK 400 HERE, ECHINOMYCIN IS REPRESENTED BY GROUPING TOGETHER THE REMARK 400 SEQUENCE (SEQRES) AND THE TWO LIGANDS (HET) QUI. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: ECHINOMYCIN REMARK 400 CHAIN: C, D REMARK 400 COMPONENT_1: PEPTIDE LIKE SEQUENCE RESIDUES 1 TO 8 REMARK 400 COMPONENT_2: QUINOXALINE CHROMOPHORE RESIDUES 0, 9 REMARK 400 DESCRIPTION: ECHINOMYCIN IS A BICYCLIC OCTADEPSIPEPTIDE. REMARK 400 BICYCLIZATION IS ACHIEVED BY LINKING THE N- AND REMARK 400 THE C- TERMINI, AND A THIOACETAL BOND BETWEEN REMARK 400 RESIDUES 3 AND 7. REMARK 400 THE TWO QUINOXALINE CHROMOPHORES ARE LINKED REMARK 400 TO THE D-SERINE RESIDUES, RESIDUES 1 AND 5. 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 4 O4' DT A 4 C1' 0.070 REMARK 500 DA A 5 O4' DA A 5 C1' 0.078 REMARK 500 DG A 7 O3' DG A 7 C3' -0.038 REMARK 500 DA B 101 C2' DA B 101 C1' 0.094 REMARK 500 DT B 104 O4' DT B 104 C1' 0.105 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 4 O4' - C1' - N1 ANGL. DEV. = -7.4 DEGREES REMARK 500 DT A 4 C6 - N1 - C2 ANGL. DEV. = -3.7 DEGREES REMARK 500 DA A 5 C1' - O4' - C4' ANGL. DEV. = -7.3 DEGREES REMARK 500 DA A 5 O4' - C1' - N9 ANGL. DEV. = -6.0 DEGREES REMARK 500 DA A 5 N1 - C2 - N3 ANGL. DEV. = -3.3 DEGREES REMARK 500 DC A 6 O4' - C1' - N1 ANGL. DEV. = -5.2 DEGREES REMARK 500 DG A 7 O4' - C4' - C3' ANGL. DEV. = -2.6 DEGREES REMARK 500 DG A 7 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT A 8 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DA B 101 O4' - C1' - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 DA B 101 C6 - N1 - C2 ANGL. DEV. = 5.1 DEGREES REMARK 500 DA B 101 N1 - C2 - N3 ANGL. DEV. = -3.3 DEGREES REMARK 500 DA B 101 C2 - N3 - C4 ANGL. DEV. = -3.4 DEGREES REMARK 500 DA B 101 N3 - C4 - C5 ANGL. DEV. = 6.3 DEGREES REMARK 500 DA B 101 C8 - N9 - C4 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA B 101 N1 - C6 - N6 ANGL. DEV. = 10.1 DEGREES REMARK 500 DA B 101 C5 - C6 - N6 ANGL. DEV. = -8.0 DEGREES REMARK 500 DC B 102 O5' - C5' - C4' ANGL. DEV. = -5.4 DEGREES REMARK 500 DA B 101 C3' - O3' - P ANGL. DEV. = 13.8 DEGREES REMARK 500 DG B 103 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 DT B 104 N1 - C1' - C2' ANGL. DEV. = 12.2 DEGREES REMARK 500 DT B 104 O4' - C1' - N1 ANGL. DEV. = -10.6 DEGREES REMARK 500 DA B 105 N1 - C6 - N6 ANGL. DEV. = 4.9 DEGREES REMARK 500 DC B 106 O4' - C4' - C3' ANGL. DEV. = -3.3 DEGREES REMARK 500 DC B 106 O4' - C1' - N1 ANGL. DEV. = -8.9 DEGREES REMARK 500 DG B 107 N1 - C2 - N2 ANGL. DEV. = 6.0 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 MN A 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 3 N7 REMARK 620 2 HOH A2029 O 104.9 REMARK 620 3 HOH A2030 O 97.5 86.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2012 O REMARK 620 2 HOH B2014 O 173.3 REMARK 620 3 DC A 6 OP2 92.3 90.7 REMARK 620 4 DG B 107 N7 85.9 91.2 177.9 REMARK 620 5 HOH B2011 O 84.5 89.3 93.2 87.5 REMARK 620 6 HOH B2013 O 95.5 90.4 93.7 85.6 173.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR LINKED RESIDUES C 0 to 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR LINKED RESIDUES D 0 to 9 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 185D RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF D(GACGTC) COMPLEXED WITH TRIOSTIN A REMARK 900 RELATED ID: 193D RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF D(ACACGTGT) COMPLEXED WITH QUINOMYCIN REMARK 900 UK-6305 REMARK 900 RELATED ID: 1PFE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(GCGTACG) COMPLEXED WITH ECHINOMYCIN REMARK 900 - SPACE GROUP P6322 REMARK 900 RELATED ID: 1VS2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(GCGTACGC) COMPLEXED WITH TRIOSIN A REMARK 900 RELATED ID: 1XVK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(GCGTACGC) COMPLEXED WITH ECHINOMYCIN REMARK 900 - SPACE GROUP P632 REMARK 900 RELATED ID: 1XVN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN REMARK 900 - SPACE GROUP P632 REMARK 900 RELATED ID: 1XVR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(CGTACG) COMPLEXED WITH ECHINOMYCIN - REMARK 900 SPACE GROUP C21 REMARK 900 RELATED ID: 2ADW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN REMARK 900 - SPACE GROUP P42212 REMARK 900 RELATED ID: 2DA8 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF D(GATATC) COMPLEXED WITH A MODIFIED REMARK 900 TRIOSTIN A AT POSITIONS 4 AND 8 DBREF 3GO3 A 1 8 PDB 3GO3 3GO3 1 8 DBREF 3GO3 B 101 108 PDB 3GO3 3GO3 101 108 DBREF 3GO3 C 1 8 NOR NOR01126 NOR01126 1 8 DBREF 3GO3 D 1 8 NOR NOR01126 NOR01126 1 8 SEQADV 3GO3 N2C C 3 NOR NOR01126 NCY 3 MICROHETEROGENEITY SEQADV 3GO3 NCY C 7 NOR NOR01126 N2C 7 MICROHETEROGENEITY SEQADV 3GO3 N2C D 3 NOR NOR01126 NCY 3 MICROHETEROGENEITY SEQADV 3GO3 NCY D 7 NOR NOR01126 N2C 7 MICROHETEROGENEITY SEQRES 1 A 8 DA DC DG DT DA DC DG DT SEQRES 1 B 8 DA DC DG DT DA DC DG DT SEQRES 1 C 8 DSN ALA N2C MVA DSN ALA NCY MVA SEQRES 1 D 8 DSN ALA N2C MVA DSN ALA NCY MVA HET DSN C 1 6 HET N2C C 3 7 HET NCY C 3 7 HET MVA C 4 8 HET DSN C 5 6 HET NCY C 7 7 HET N2C C 7 7 HET MVA C 8 8 HET DSN D 1 6 HET N2C D 3 8 HET NCY D 3 7 HET MVA D 4 8 HET DSN D 5 6 HET NCY D 7 7 HET N2C D 7 8 HET MVA D 8 8 HET QUI C 0 12 HET QUI C 9 12 HET QUI D 0 12 HET QUI D 9 12 HET MN A 401 1 HET PEG B 301 7 HET MN B 401 1 HETNAM DSN D-SERINE HETNAM N2C N,S-DIMETHYLCYSTEINE HETNAM NCY N-METHYLCYSTEINE HETNAM MVA N-METHYLVALINE HETNAM QUI 2-CARBOXYQUINOXALINE HETNAM MN MANGANESE (II) ION HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 3 DSN 4(C3 H7 N O3) FORMUL 3 N2C 4(C5 H11 N O2 S) FORMUL 3 NCY 4(C4 H9 N O2 S) FORMUL 3 MVA 4(C6 H13 N O2) FORMUL 5 QUI 4(C9 H6 N2 O2) FORMUL 9 MN 2(MN 2+) FORMUL 10 PEG C4 H10 O3 FORMUL 12 HOH *45(H2 O) LINK MN MN A 401 N7 DG A 3 1555 1555 2.36 LINK MN MN A 401 O HOH A2029 1555 1555 2.44 LINK MN MN A 401 O HOH A2030 1555 1555 2.38 LINK MN MN B 401 O HOH B2012 1555 1555 2.16 LINK MN MN B 401 O HOH B2014 1555 1555 2.19 LINK MN MN B 401 OP2 DC A 6 1555 7655 2.09 LINK MN MN B 401 N7 DG B 107 1555 1555 2.30 LINK MN MN B 401 O HOH B2011 1555 1555 2.17 LINK MN MN B 401 O HOH B2013 1555 1555 2.19 LINK C QUI C 0 N DSN C 1 1555 1555 1.35 LINK OG DSN C 1 C MVA C 8 1555 1555 1.31 LINK C DSN C 1 N ALA C 2 1555 1555 1.34 LINK C ALA C 2 N AN2C C 3 1555 1555 1.33 LINK C ALA C 2 N BNCY C 3 1555 1555 1.33 LINK C AN2C C 3 N MVA C 4 1555 1555 1.32 LINK SG BNCY C 3 CB BN2C C 7 1555 1555 1.82 LINK C BNCY C 3 N MVA C 4 1555 1555 1.32 LINK CB AN2C C 3 SG ANCY C 7 1555 1555 1.81 LINK C MVA C 4 OG DSN C 5 1555 1555 1.31 LINK C DSN C 5 N ALA C 6 1555 1555 1.30 LINK N DSN C 5 C QUI C 9 1555 1555 1.35 LINK C ALA C 6 N ANCY C 7 1555 1555 1.34 LINK C ALA C 6 N BN2C C 7 1555 1555 1.34 LINK C BN2C C 7 N MVA C 8 1555 1555 1.34 LINK C ANCY C 7 N MVA C 8 1555 1555 1.34 LINK C QUI D 0 N DSN D 1 1555 1555 1.36 LINK OG DSN D 1 C MVA D 8 1555 1555 1.32 LINK C DSN D 1 N ALA D 2 1555 1555 1.35 LINK C ALA D 2 N BNCY D 3 1555 1555 1.34 LINK C ALA D 2 N AN2C D 3 1555 1555 1.34 LINK C BNCY D 3 N MVA D 4 1555 1555 1.35 LINK SG BNCY D 3 CB BN2C D 7 1555 1555 1.81 LINK C AN2C D 3 N MVA D 4 1555 1555 1.35 LINK CB AN2C D 3 SG ANCY D 7 1555 1555 1.81 LINK C MVA D 4 OG DSN D 5 1555 1555 1.32 LINK N DSN D 5 C QUI D 9 1555 1555 1.36 LINK C DSN D 5 N ALA D 6 1555 1555 1.31 LINK C ALA D 6 N ANCY D 7 1555 1555 1.33 LINK C ALA D 6 N BN2C D 7 1555 1555 1.33 LINK C ANCY D 7 N MVA D 8 1555 1555 1.33 LINK C BN2C D 7 N MVA D 8 1555 1555 1.33 SITE 1 AC1 3 DA A 1 DG B 103 DT B 104 SITE 1 AC2 3 DG A 3 HOH A2029 HOH A2030 SITE 1 AC3 6 DC A 6 DG B 107 HOH B2011 HOH B2012 SITE 2 AC3 6 HOH B2013 HOH B2014 SITE 1 AC4 12 DA A 1 DC A 2 DG A 3 DT A 4 SITE 2 AC4 12 DT A 8 HOH A2030 DA B 105 DC B 106 SITE 3 AC4 12 DG B 107 DT B 108 HOH B2014 HOH C2001 SITE 1 AC5 9 DA A 5 DC A 6 DG A 7 DT A 8 SITE 2 AC5 9 HOH A2006 DA B 101 DC B 102 DG B 103 SITE 3 AC5 9 DT B 104 CRYST1 26.544 26.544 162.129 90.00 90.00 90.00 P 41 21 2 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 0.037673 0.000000 0.000000 0.00000 SCALE2 0.000000 0.037673 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006168 0.00000