HEADER DNA/ANTIBIOTIC 21-JUL-05 2ADW TITLE CRYSTAL STRUCTURE OF ECHINOMYCIN-(ACGTACGT)2 SOLVED BY SAD COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*AP*CP*GP*TP*AP*CP*GP*T)-3'; COMPND 3 CHAIN: A, C, E, G; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ECHINOMYCIN; COMPND 7 CHAIN: H, I, J, K; 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 DNA-ANTIBIOTIC COMPLEX, BISINTERCALATOR, HOOGSTEEN BASEPAIR, KEYWDS 2 DEPSIPEPTIDE, QUINOXALINE, THIOACETAL, ANTIBIOTIC, ANTITUMOR EXPDTA X-RAY DIFFRACTION AUTHOR J.A.CUESTA-SEIJO,G.M.SHELDRICK REVDAT 5 09-SEP-20 2ADW 1 TITLE REMARK SEQADV LINK REVDAT 4 27-JUL-11 2ADW 1 DBREF HETATM REMARK REVDAT 3 13-JUL-11 2ADW 1 VERSN REVDAT 2 24-FEB-09 2ADW 1 VERSN REVDAT 1 28-MAR-06 2ADW 0 JRNL AUTH J.A.CUESTA-SEIJO,M.S.WEISS,G.M.SHELDRICK JRNL TITL SERENDIPITOUS SAD PHASING OF AN ECHINOMYCIN-(ACGTACGT)2 JRNL TITL 2 BISINTERCALATION COMPLEX. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 62 417 2006 JRNL REFN ISSN 0907-4449 JRNL PMID 16552143 JRNL DOI 10.1107/S0907444906003763 REMARK 2 REMARK 2 RESOLUTION. 1.60 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : -99.00 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 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) : 0.180 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.180 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 2103 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 21134 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL 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)) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 250 REMARK 3 NUCLEIC ACID ATOMS : 644 REMARK 3 HETEROGEN ATOMS : 110 REMARK 3 SOLVENT ATOMS : 86 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 : 17 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : NULL REMARK 3 NUMBER OF RESTRAINTS : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 ANGLE DISTANCES (A) : NULL REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER. PARKINSON REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: CGLS SHELX REFINEMENT REMARK 4 REMARK 4 2ADW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JUL-05. REMARK 100 THE DEPOSITION ID IS D_1000033778. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9000 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21134 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -99.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 12.42 REMARK 200 R MERGE (I) : 0.07160 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.3 REMARK 200 DATA REDUNDANCY IN SHELL : 10.07 REMARK 200 R MERGE FOR SHELL (I) : 0.39410 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.330 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: AB INITIO 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 (%): 51.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 200, PEG3350, MES, SPERMINE, PH 6, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 40.45200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 40.45200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 24.09700 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 40.45200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 40.45200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 24.09700 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 40.45200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 40.45200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 24.09700 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 40.45200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 40.45200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 24.09700 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.7 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, G, J, K 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, H, I 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 E2014 LIES ON A SPECIAL POSITION. REMARK 375 HOH E2028 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 HERE, ECHINOMYCIN IS REPRESENTED BY GROUPING TOGETHER THE REMARK 400 SEQUENCE (SEQRES) AND TWO LIGANDS (HET) QUI. REMARK 400 REMARK 400 THE ECHINOMYCIN IS CYCLIC DEPSIPEPTIDE, A MEMBER OF ANTIBIOTIC REMARK 400 CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: ECHINOMYCIN REMARK 400 CHAIN: K REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 COMPONENT_2: RESIDUE QUI, 2 COPIES REMARK 400 DESCRIPTION: ECHINOMYCIN IS A BICYCLIC OCTADEPSIPEPTIDE. REMARK 400 BICYCLIZATION IS ACHIEVED BY LINKING THE N- AND THE REMARK 400 C- TERMINI, AND A THIOACETAL BOND BETWEEN RESIDUES 3 REMARK 400 AND 7. THE TWO QUINOXALINE CHROMOPHORES ARE LINKED REMARK 400 TO THE D-SERINE RESIDUES, RESIDUES 1 AND 5. REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 N2C I 3 CD REMARK 470 NCY I 7 CD REMARK 470 N2C J 3 CD REMARK 470 NCY J 7 CD REMARK 470 N2C K 3 CD REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OG DSN H 1 O MVA H 8 2.19 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 C2 - N3 - C4 ANGL. DEV. = -3.2 DEGREES REMARK 500 DC A 2 O4' - C1' - N1 ANGL. DEV. = -6.8 DEGREES REMARK 500 DG A 3 O5' - C5' - C4' ANGL. DEV. = -7.0 DEGREES REMARK 500 DG A 3 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT A 4 O4' - C1' - N1 ANGL. DEV. = -9.0 DEGREES REMARK 500 DA A 5 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DA A 5 C2 - N3 - C4 ANGL. DEV. = -3.3 DEGREES REMARK 500 DA A 5 N3 - C4 - C5 ANGL. DEV. = 4.3 DEGREES REMARK 500 DA C 101 O4' - C1' - N9 ANGL. DEV. = -5.0 DEGREES REMARK 500 DC C 102 O5' - C5' - C4' ANGL. DEV. = -6.5 DEGREES REMARK 500 DC C 102 O4' - C4' - C3' ANGL. DEV. = -3.1 DEGREES REMARK 500 DG C 103 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG C 103 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA C 105 C3' - O3' - P ANGL. DEV. = 10.4 DEGREES REMARK 500 DC C 106 O4' - C1' - N1 ANGL. DEV. = -4.7 DEGREES REMARK 500 DG C 107 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG C 107 N1 - C6 - O6 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT C 108 O4' - C1' - N1 ANGL. DEV. = -4.8 DEGREES REMARK 500 DC E 202 C3' - O3' - P ANGL. DEV. = 8.9 DEGREES REMARK 500 DT E 204 O4' - C1' - N1 ANGL. DEV. = -9.6 DEGREES REMARK 500 DA E 205 N1 - C6 - N6 ANGL. DEV. = 4.7 DEGREES REMARK 500 DC E 206 O4' - C1' - N1 ANGL. DEV. = -6.7 DEGREES REMARK 500 DA G 301 O4' - C1' - N9 ANGL. DEV. = -6.8 DEGREES REMARK 500 DG G 303 O4' - C1' - N9 ANGL. DEV. = 6.2 DEGREES REMARK 500 DT G 304 O4' - C1' - N1 ANGL. DEV. = -8.7 DEGREES REMARK 500 DA G 305 C2 - N3 - C4 ANGL. DEV. = -3.1 DEGREES REMARK 500 DA G 305 N1 - C6 - N6 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC G 306 O4' - C1' - N1 ANGL. DEV. = -6.8 DEGREES REMARK 500 DG G 307 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DT G 308 N3 - C4 - O4 ANGL. DEV. = 3.9 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 NI E 400 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 7 N7 REMARK 620 2 DG E 207 N7 176.2 REMARK 620 3 HOH E2032 O 92.7 89.1 REMARK 620 4 HOH E2033 O 89.0 87.8 86.7 REMARK 620 5 HOH E2034 O 90.2 93.2 87.5 174.0 REMARK 620 6 HOH E2035 O 87.7 90.8 173.7 99.6 86.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN E 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 7 N7 REMARK 620 2 DG E 207 N7 176.2 REMARK 620 3 HOH E2032 O 92.7 89.1 REMARK 620 4 HOH E2033 O 89.0 87.8 86.7 REMARK 620 5 HOH E2034 O 90.2 93.2 87.5 174.0 REMARK 620 6 HOH E2035 O 87.7 90.8 173.7 99.6 86.3 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 NI E 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN E 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES C 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR LINKED RESIDUES H 0 to 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR LINKED RESIDUES I 0 to 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR LINKED RESIDUES J 0 to 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR LINKED RESIDUES K 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 UK-6305 REMARK 900 RELATED ID: 1PFE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(GCGTACG) COMPLEXED WITH ECHINOMYCIN - SPACE REMARK 900 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 - SPACE REMARK 900 GROUP P632 REMARK 900 RELATED ID: 1XVN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE REMARK 900 GROUP P632 REMARK 900 RELATED ID: 1XVR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(CGTACG) COMPLEXED WITH ECHINOMYCIN - SPACE REMARK 900 GROUP C21 REMARK 900 RELATED ID: 2DA8 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF D(GATATC) COMPLEXED WITH A MODIFIED TRIOSTIN REMARK 900 A AT POSITIONS 4 AND 8 REMARK 900 RELATED ID: 3GO3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE REMARK 900 GROUP P41212 DBREF 2ADW A 1 8 PDB 2ADW 2ADW 1 8 DBREF 2ADW C 101 108 PDB 2ADW 2ADW 101 108 DBREF 2ADW E 201 208 PDB 2ADW 2ADW 201 208 DBREF 2ADW G 301 308 PDB 2ADW 2ADW 301 308 DBREF 2ADW H 1 8 NOR NOR01126 NOR01126 1 8 DBREF 2ADW I 1 8 NOR NOR01126 NOR01126 1 8 DBREF 2ADW J 1 8 NOR NOR01126 NOR01126 1 8 DBREF 2ADW K 1 8 NOR NOR01126 NOR01126 1 8 SEQADV 2ADW N2C H 3 NOR NOR01126 NCY 3 MICROHETEROGENEITY SEQADV 2ADW NCY H 7 NOR NOR01126 N2C 7 MICROHETEROGENEITY SEQADV 2ADW N2C I 3 NOR NOR01126 NCY 3 MICROHETEROGENEITY SEQADV 2ADW NCY I 7 NOR NOR01126 N2C 7 MICROHETEROGENEITY SEQADV 2ADW N2C J 3 NOR NOR01126 NCY 3 MICROHETEROGENEITY SEQADV 2ADW NCY J 7 NOR NOR01126 N2C 7 MICROHETEROGENEITY SEQRES 1 A 8 DA DC DG DT DA DC DG DT SEQRES 1 C 8 DA DC DG DT DA DC DG DT SEQRES 1 E 8 DA DC DG DT DA DC DG DT SEQRES 1 G 8 DA DC DG DT DA DC DG DT SEQRES 1 H 8 DSN ALA N2C MVA DSN ALA NCY MVA SEQRES 1 I 8 DSN ALA N2C MVA DSN ALA NCY MVA SEQRES 1 J 8 DSN ALA N2C MVA DSN ALA NCY MVA SEQRES 1 K 8 DSN ALA N2C MVA DSN ALA NCY MVA HET DSN H 1 10 HET N2C H 3 11 HET NCY H 3 11 HET MVA H 4 19 HET DSN H 5 10 HET NCY H 7 11 HET N2C H 7 11 HET MVA H 8 19 HET DSN I 1 10 HET N2C I 3 11 HET NCY I 3 11 HET MVA I 4 19 HET DSN I 5 10 HET NCY I 7 11 HET N2C I 7 11 HET MVA I 8 19 HET DSN J 1 10 HET N2C J 3 11 HET NCY J 3 11 HET MVA J 4 19 HET DSN J 5 10 HET NCY J 7 11 HET N2C J 7 11 HET MVA J 8 19 HET DSN K 1 10 HET N2C K 3 11 HET MVA K 4 19 HET DSN K 5 10 HET NCY K 7 11 HET MVA K 8 19 HET MES C 406 24 HET NI E 400 1 HET ZN E 401 1 HET QUI H 0 17 HET QUI H 9 17 HET QUI I 0 17 HET QUI I 9 17 HET QUI J 0 17 HET QUI J 9 17 HET QUI K 0 17 HET QUI K 9 17 HETNAM DSN D-SERINE HETNAM N2C N,S-DIMETHYLCYSTEINE HETNAM NCY N-METHYLCYSTEINE HETNAM MVA N-METHYLVALINE HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM NI NICKEL (II) ION HETNAM ZN ZINC ION HETNAM QUI 2-CARBOXYQUINOXALINE FORMUL 5 DSN 8(C3 H7 N O3) FORMUL 5 N2C 7(C5 H11 N O2 S) FORMUL 5 NCY 7(C4 H9 N O2 S) FORMUL 5 MVA 8(C6 H13 N O2) FORMUL 9 MES C6 H13 N O4 S FORMUL 10 NI NI 2+ FORMUL 11 ZN ZN 2+ FORMUL 12 QUI 8(C9 H6 N2 O2) FORMUL 20 HOH *86(H2 O) LINK C QUI H 0 N DSN H 1 1555 1555 1.37 LINK C DSN H 1 N ALA H 2 1555 1555 1.34 LINK OG DSN H 1 C MVA H 8 1555 1555 1.32 LINK C ALA H 2 N AN2C H 3 1555 1555 1.33 LINK C ALA H 2 N BNCY H 3 1555 1555 1.33 LINK C AN2C H 3 N MVA H 4 1555 1555 1.32 LINK C BNCY H 3 N MVA H 4 1555 1555 1.32 LINK SG AN2C H 3 CB ANCY H 7 1555 1555 1.81 LINK CB BNCY H 3 SG BN2C H 7 1555 1555 1.81 LINK C MVA H 4 OG DSN H 5 1555 1555 1.32 LINK C DSN H 5 N ALA H 6 1555 1555 1.32 LINK N DSN H 5 C QUI H 9 1555 1555 1.37 LINK C ALA H 6 N ANCY H 7 1555 1555 1.33 LINK C ALA H 6 N BN2C H 7 1555 1555 1.33 LINK C ANCY H 7 N MVA H 8 1555 1555 1.34 LINK C BN2C H 7 N MVA H 8 1555 1555 1.34 LINK C QUI I 0 N DSN I 1 1555 1555 1.36 LINK C DSN I 1 N ALA I 2 1555 1555 1.34 LINK OG DSN I 1 C MVA I 8 1555 1555 1.31 LINK C ALA I 2 N BNCY I 3 1555 1555 1.34 LINK C ALA I 2 N AN2C I 3 1555 1555 1.34 LINK C BNCY I 3 N MVA I 4 1555 1555 1.35 LINK C AN2C I 3 N MVA I 4 1555 1555 1.35 LINK SG BNCY I 3 CB BN2C I 7 1555 1555 1.81 LINK CB AN2C I 3 SG ANCY I 7 1555 1555 1.81 LINK C MVA I 4 OG DSN I 5 1555 1555 1.32 LINK C DSN I 5 N ALA I 6 1555 1555 1.32 LINK N DSN I 5 C QUI I 9 1555 1555 1.36 LINK C ALA I 6 N BN2C I 7 1555 1555 1.32 LINK C ALA I 6 N ANCY I 7 1555 1555 1.32 LINK C BN2C I 7 N MVA I 8 1555 1555 1.34 LINK C ANCY I 7 N MVA I 8 1555 1555 1.34 LINK C QUI J 0 N DSN J 1 1555 1555 1.37 LINK C DSN J 1 N ALA J 2 1555 1555 1.32 LINK OG DSN J 1 C MVA J 8 1555 1555 1.32 LINK C ALA J 2 N AN2C J 3 1555 1555 1.34 LINK C ALA J 2 N BNCY J 3 1555 1555 1.34 LINK C AN2C J 3 N MVA J 4 1555 1555 1.33 LINK C BNCY J 3 N MVA J 4 1555 1555 1.33 LINK CB AN2C J 3 SG ANCY J 7 1555 1555 1.80 LINK SG BNCY J 3 CB BN2C J 7 1555 1555 1.80 LINK C MVA J 4 OG DSN J 5 1555 1555 1.32 LINK C DSN J 5 N ALA J 6 1555 1555 1.33 LINK N DSN J 5 C QUI J 9 1555 1555 1.37 LINK C ALA J 6 N BN2C J 7 1555 1555 1.33 LINK C ALA J 6 N ANCY J 7 1555 1555 1.33 LINK C BN2C J 7 N MVA J 8 1555 1555 1.32 LINK C ANCY J 7 N MVA J 8 1555 1555 1.32 LINK C QUI K 0 N DSN K 1 1555 1555 1.38 LINK C DSN K 1 N ALA K 2 1555 1555 1.33 LINK OG DSN K 1 C MVA K 8 1555 1555 1.33 LINK C ALA K 2 N N2C K 3 1555 1555 1.32 LINK C N2C K 3 N MVA K 4 1555 1555 1.33 LINK CB N2C K 3 SG NCY K 7 1555 1555 1.83 LINK C MVA K 4 OG DSN K 5 1555 1555 1.32 LINK C DSN K 5 N ALA K 6 1555 1555 1.34 LINK N DSN K 5 C QUI K 9 1555 1555 1.37 LINK C ALA K 6 N NCY K 7 1555 1555 1.34 LINK C NCY K 7 N MVA K 8 1555 1555 1.33 LINK N7 DG A 7 NI A NI E 400 6555 1555 2.22 LINK N7 DG A 7 ZN B ZN E 401 6555 1555 2.22 LINK N7 DG E 207 NI A NI E 400 1555 1555 2.10 LINK N7 DG E 207 ZN B ZN E 401 1555 1555 2.10 LINK NI A NI E 400 O HOH E2032 1555 1555 2.12 LINK NI A NI E 400 O HOH E2033 1555 1555 2.04 LINK NI A NI E 400 O HOH E2034 1555 1555 2.13 LINK NI A NI E 400 O HOH E2035 1555 1555 2.11 LINK ZN B ZN E 401 O HOH E2032 1555 1555 2.12 LINK ZN B ZN E 401 O HOH E2033 1555 1555 2.04 LINK ZN B ZN E 401 O HOH E2034 1555 1555 2.13 LINK ZN B ZN E 401 O HOH E2035 1555 1555 2.11 SITE 1 AC1 6 DG A 7 DG E 207 HOH E2032 HOH E2033 SITE 2 AC1 6 HOH E2034 HOH E2035 SITE 1 AC2 6 DG A 7 DG E 207 HOH E2032 HOH E2033 SITE 2 AC2 6 HOH E2034 HOH E2035 SITE 1 AC3 7 DC C 106 DG C 107 QUI H 9 DSN I 1 SITE 2 AC3 7 N2C I 3 NCY I 7 MVA I 8 SITE 1 AC4 11 DA A 1 DC A 2 DG A 3 DT A 4 SITE 2 AC4 11 DA C 105 DC C 106 DG C 107 DT C 108 SITE 3 AC4 11 MES C 406 HOH H2002 HOH H2004 SITE 1 AC5 19 DA A 5 DC A 6 DG A 7 DT A 8 SITE 2 AC5 19 HOH A2015 DA C 101 DC C 102 DG C 103 SITE 3 AC5 19 DT C 104 MES C 406 DA E 201 DT G 308 SITE 4 AC5 19 HOH G2007 HOH I2001 HOH I2002 DSN K 1 SITE 5 AC5 19 N2C K 3 NCY K 7 MVA K 8 SITE 1 AC6 15 DT A 8 DA C 101 DA E 205 DC E 206 SITE 2 AC6 15 DG E 207 DT E 208 HOH E2034 DA G 301 SITE 3 AC6 15 DC G 302 DG G 303 DT G 304 HOH J2001 SITE 4 AC6 15 HOH J2002 HOH J2003 HOH J2004 SITE 1 AC7 15 DC A 6 DA E 201 DC E 202 DG E 203 SITE 2 AC7 15 DT E 204 DA G 305 DC G 306 DG G 307 SITE 3 AC7 15 DT G 308 N2C I 3 MVA I 4 HOH K2001 SITE 4 AC7 15 HOH K2002 HOH K2005 HOH K2006 CRYST1 80.904 80.904 48.194 90.00 90.00 90.00 P 42 21 2 32 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 0.012360 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012360 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020749 0.00000