HEADER DNA/ANTIBIOTIC 26-MAY-03 1PFE TITLE ECHINOMYCIN-(GCGTACGC)2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3'; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ECHINOMYCIN; COMPND 7 CHAIN: B; 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 J.A.CUESTA-SEIJO REVDAT 6 03-APR-24 1PFE 1 REMARK SEQADV LINK REVDAT 5 27-JUL-11 1PFE 1 REMARK REVDAT 4 13-JUL-11 1PFE 1 VERSN REVDAT 3 24-FEB-09 1PFE 1 VERSN REVDAT 2 05-APR-05 1PFE 1 JRNL REVDAT 1 08-JUN-04 1PFE 0 JRNL AUTH J.A.CUESTA-SEIJO,G.M.SHELDRICK JRNL TITL STRUCTURES OF COMPLEXES BETWEEN ECHINOMYCIN AND DUPLEX DNA. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 61 442 2005 JRNL REFN ISSN 0907-4449 JRNL PMID 15805599 JRNL DOI 10.1107/S090744490500137X 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) : 21.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : THIN SHELLS REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.146 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.146 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.168 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 478 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 15164 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)) : 0.138 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.160 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 : 66 REMARK 3 NUCLEIC ACID ATOMS : 161 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 80 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 303.00 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 149.00 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 7 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 2979 REMARK 3 NUMBER OF RESTRAINTS : 2074 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.022 REMARK 3 ANGLE DISTANCES (A) : 0.036 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.172 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.068 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.059 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.041 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 : STANDARD SHELX FOR THE DNA, ENGH REMARK 3 & HUBER FOR THE STANDARD PROTEIN REMARK 3 PARTS OF ECHINOMYCIN, BUILT FROM REMARK 3 THE CSD FOR THE REST REMARK 3 SPECIAL CASE: TARGETS FOR ECHINOMYCIN BUILT FROM THE CSD 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/MICROHETEROGENEITY. REMARK 4 REMARK 4 1PFE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-MAY-03. REMARK 100 THE DEPOSITION ID IS D_1000019291. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8162 REMARK 200 MONOCHROMATOR : TRIANGULAR MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15164 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 21.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 14.91 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 30.0100 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 (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 13.05 REMARK 200 R MERGE FOR SHELL (I) : 0.24200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 11.48 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: TROSTIN A - (GCGTACGC)2 COMPLEX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LI2SO4, MGCL2, METHANOL, NAAC, REMARK 280 SPERMINE, PH 4.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-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 -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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 39.86700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 39.86700 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 39.86700 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 39.86700 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 39.86700 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 39.86700 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 300 REMARK: THE SECOND PART OF THE BIOLOGICAL ASSEMBLY IS GENERATED BY: REMARK 300 -X, -X+Y, -Z 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: 3960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.4 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 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A2002 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2013 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2019 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2024 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: B 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 B 3 CD REMARK 470 NCY B 7 CD 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 DG A 1 C2' DG A 1 C1' -0.077 REMARK 500 DG A 1 O4' DG A 1 C1' 0.111 REMARK 500 DC A 2 O4' DC A 2 C1' 0.086 REMARK 500 DG A 3 C2' DG A 3 C1' 0.078 REMARK 500 DG A 3 O4' DG A 3 C1' -0.086 REMARK 500 DT A 4 O4' DT A 4 C1' 0.079 REMARK 500 DG A 7 C2' DG A 7 C1' 0.076 REMARK 500 DG A 7 O4' DG A 7 C1' -0.079 REMARK 500 DC A 8 O4' DC A 8 C1' 0.085 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 DG A 1 O4' - C1' - N9 ANGL. DEV. = -8.7 DEGREES REMARK 500 DC A 2 C5' - C4' - O4' ANGL. DEV. = 9.4 DEGREES REMARK 500 DC A 2 O4' - C1' - N1 ANGL. DEV. = -5.5 DEGREES REMARK 500 DG A 3 O4' - C1' - N9 ANGL. DEV. = 6.9 DEGREES REMARK 500 DT A 4 O4' - C1' - N1 ANGL. DEV. = -6.3 DEGREES REMARK 500 DA A 5 C1' - O4' - C4' ANGL. DEV. = -6.7 DEGREES REMARK 500 DC A 6 O4' - C1' - N1 ANGL. DEV. = -5.7 DEGREES REMARK 500 DG A 7 O4' - C1' - N9 ANGL. DEV. = 6.2 DEGREES REMARK 500 DC A 8 O4' - C1' - N1 ANGL. DEV. = -5.2 DEGREES REMARK 500 DC A 8 N3 - C4 - C5 ANGL. DEV. = -3.3 DEGREES REMARK 500 DC A 8 N1 - C2 - O2 ANGL. DEV. = 4.8 DEGREES 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 CL A 20 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN B OF ECHINOMYCIN 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: 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: 2ADW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE REMARK 900 GROUP P42212 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 1PFE A 1 8 PDB 1PFE 1PFE 1 8 DBREF 1PFE B 1 8 NOR NOR01126 NOR01126 1 8 SEQADV 1PFE N2C B 3 NOR NOR01126 NCY 3 MICROHETEROGENEITY SEQADV 1PFE NCY B 7 NOR NOR01126 N2C 7 MICROHETEROGENEITY SEQRES 1 A 8 DG DC DG DT DA DC DG DC SEQRES 1 B 8 DSN ALA N2C MVA DSN ALA NCY MVA HET DSN B 1 6 HET N2C B 3 7 HET NCY B 3 7 HET MVA B 4 8 HET DSN B 5 6 HET NCY B 7 7 HET N2C B 7 7 HET MVA B 8 8 HET CL A 20 1 HET QUI B 0 12 HET QUI B 9 12 HETNAM DSN D-SERINE HETNAM N2C N,S-DIMETHYLCYSTEINE HETNAM NCY N-METHYLCYSTEINE HETNAM MVA N-METHYLVALINE HETNAM CL CHLORIDE ION HETNAM QUI 2-CARBOXYQUINOXALINE FORMUL 2 DSN 2(C3 H7 N O3) FORMUL 2 N2C 2(C5 H11 N O2 S) FORMUL 2 NCY 2(C4 H9 N O2 S) FORMUL 2 MVA 2(C6 H13 N O2) FORMUL 3 CL CL 1- FORMUL 4 QUI 2(C9 H6 N2 O2) FORMUL 6 HOH *80(H2 O) LINK C QUI B 0 N DSN B 1 1555 1555 1.35 LINK C DSN B 1 N ALA B 2 1555 1555 1.35 LINK OG DSN B 1 C MVA B 8 1555 1555 1.33 LINK C ALA B 2 N AN2C B 3 1555 1555 1.36 LINK C ALA B 2 N BNCY B 3 1555 1555 1.36 LINK C BNCY B 3 N MVA B 4 1555 1555 1.34 LINK C AN2C B 3 N MVA B 4 1555 1555 1.34 LINK CB AN2C B 3 SG ANCY B 7 1555 1555 1.80 LINK SG BNCY B 3 CB BN2C B 7 1555 1555 1.81 LINK C MVA B 4 OG DSN B 5 1555 1555 1.33 LINK C DSN B 5 N ALA B 6 1555 1555 1.32 LINK N DSN B 5 C QUI B 9 1555 1555 1.37 LINK C ALA B 6 N ANCY B 7 1555 1555 1.35 LINK C ALA B 6 N BN2C B 7 1555 1555 1.35 LINK C ANCY B 7 N MVA B 8 1555 1555 1.32 LINK C BN2C B 7 N MVA B 8 1555 1555 1.32 SITE 1 AC1 1 HOH A2069 SITE 1 AC2 16 DG A 1 DC A 2 DG A 3 DT A 4 SITE 2 AC2 16 DA A 5 DC A 6 DG A 7 DC A 8 SITE 3 AC2 16 HOH B2001 HOH B2002 HOH B2003 HOH B2005 SITE 4 AC2 16 HOH B2006 HOH B2007 HOH B2009 HOH B2010 CRYST1 39.374 39.374 79.734 90.00 90.00 120.00 P 63 2 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 0.025397 0.014663 0.000000 0.00000 SCALE2 0.000000 0.029326 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012542 0.00000