HEADER DNA/ANTIBIOTIC 11-MAY-16 5JW0 TITLE CRYSTAL STRUCTURE OF MITHRAMYCIN ANALOGUE MTM SA-PHE IN COMPLEX WITH A TITLE 2 10-MER DNA AGGGTACCCT COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(P*AP*GP*GP*GP*TP*AP*CP*CP*CP*T)-3'); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32360 KEYWDS ANTI-CANCER AGENT, DNA BINDING, NATURAL PRODUCT, TRANSCRIPTION KEYWDS 2 FACTOR, EWING SARCOMA, DNA-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.HOU,J.ROHR,O.V.TSODIKOV REVDAT 2 26-OCT-16 5JW0 1 JRNL REVDAT 1 14-SEP-16 5JW0 0 JRNL AUTH C.HOU,S.WEIDENBACH,K.E.CANO,Z.WANG,P.MITRA,D.N.IVANOV, JRNL AUTH 2 J.ROHR,O.V.TSODIKOV JRNL TITL STRUCTURES OF MITHRAMYCIN ANALOGUES BOUND TO DNA AND JRNL TITL 2 IMPLICATIONS FOR TARGETING TRANSCRIPTION FACTOR FLI1. JRNL REF NUCLEIC ACIDS RES. V. 44 8990 2016 JRNL REFN ESSN 1362-4962 JRNL PMID 27587584 JRNL DOI 10.1093/NAR/GKW761 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0071 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 6349 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 + TEST SET) : 0.264 REMARK 3 R VALUE (WORKING SET) : 0.262 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.500 REMARK 3 FREE R VALUE TEST SET COUNT : 373 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 426 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.46 REMARK 3 BIN R VALUE (WORKING SET) : 0.3670 REMARK 3 BIN FREE R VALUE SET COUNT : 34 REMARK 3 BIN FREE R VALUE : 0.4070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 407 REMARK 3 HETEROGEN ATOMS : 342 REMARK 3 SOLVENT ATOMS : 10 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.96000 REMARK 3 B22 (A**2) : 0.96000 REMARK 3 B33 (A**2) : -1.93000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.309 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.246 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.170 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.213 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.891 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.880 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 845 ; 0.009 ; 0.015 REMARK 3 BOND LENGTHS OTHERS (A): 517 ; 0.008 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1250 ; 1.745 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1233 ; 2.224 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 152 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 392 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 138 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1 ; 0.244 ; 3.838 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 845 ; 3.529 ; 4.429 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 836 ; 3.349 ; 4.427 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1251 ; 4.291 ; 6.627 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1145 ; 5.658 ;45.909 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1145 ; 5.654 ;45.911 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5JW0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1000221309. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUL-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6349 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 200 DATA REDUNDANCY : 9.300 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 35.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 81.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 6.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: INCUBATION AGAINST AGAINST 35% V/V 2 REMARK 280 -METHYL-2,4-PENTANEDIOL, PH 6.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 62.62150 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 25.28200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 25.28200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 93.93225 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 25.28200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 25.28200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 31.31075 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 25.28200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 25.28200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 93.93225 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 25.28200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 25.28200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 31.31075 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 62.62150 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: 1 COMPLEX OF 2 MTM SA-PHE DIMERS BOUND TO ONE DOUBLE- REMARK 300 STRANDED DNA OLIGOMER 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -185.0 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 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 ZN A 108 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 5 N7 REMARK 620 2 HOH A 202 O 108.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 105 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 6 N7 REMARK 620 2 HOH A 206 O 86.2 REMARK 620 3 HOH A 207 O 116.1 156.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 102 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG B 0 N7 REMARK 620 2 HOH B 203 O 176.3 REMARK 620 3 HOH B 201 O 91.5 84.9 REMARK 620 4 HOH B 202 O 91.0 91.6 146.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 104 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 6O7 A 101 O14 REMARK 620 2 6O7 A 101 O15 78.0 REMARK 620 3 6O7 A 102 O14 73.3 96.6 REMARK 620 4 6O7 A 102 O15 88.4 166.4 80.2 REMARK 620 5 HOH A 204 O 92.8 80.9 166.1 99.0 REMARK 620 6 HOH A 205 O 157.2 84.5 94.4 108.8 98.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 106 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 6O7 A 103 O14 REMARK 620 2 6O7 A 103 O15 86.4 REMARK 620 3 6O7 B 101 O15 94.8 169.7 REMARK 620 4 HOH A 201 O 107.2 99.1 90.3 REMARK 620 5 HOH A 203 O 155.0 75.5 100.0 92.8 REMARK 620 6 6O7 B 101 O14 82.9 87.7 82.3 168.0 79.4 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 6O7 A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6O7 A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6O7 A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6O7 B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 102 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5JW2 RELATED DB: PDB REMARK 900 RELATED ID: 5JVW RELATED DB: PDB REMARK 900 RELATED ID: 5JVT RELATED DB: PDB DBREF 5JW0 A 4 13 PDB 5JW0 5JW0 4 13 DBREF 5JW0 B -2 7 PDB 5JW0 5JW0 -2 7 SEQRES 1 A 10 DA DG DG DG DT DA DC DC DC DT SEQRES 1 B 10 DA DG DG DG DT DA DC DC DC DT HET 6O7 A 101 84 HET 6O7 A 102 84 HET 6O7 A 103 84 HET ZN A 104 1 HET ZN A 105 1 HET ZN A 106 1 HET ZN A 107 1 HET ZN A 108 1 HET 6O7 B 101 84 HET ZN B 102 1 HETNAM 6O7 PLICAMYCIN, MITHRAMYCIN ANALOGUE MTM SA-PHE HETNAM ZN ZINC ION HETSYN 6O7 METHYL (2S)-2-({(2S)-2-[(2R,3S)-3-{[(2S,4R,5R,6R)-4- HETSYN 2 6O7 {[(2S,4R,5S,6R)-4-{[(2S,4S,5R,6R)-4,5-DIHYDROXY-4,6- HETSYN 3 6O7 DIMETHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-5-HYDROXY-6- HETSYN 4 6O7 METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-5-HYDROXY-6- HETSYN 5 6O7 METHYLTETRAHYDRO-2H-PYRAN-2-YL]OXY}-7-{[(2S,4R,5R,6R)- HETSYN 6 6O7 4-{[(2S,4R,5S,6R)-4,5-DIHYDROXY-6-METHYLTETRAHYDRO-2H- HETSYN 7 6O7 PYRAN-2-YL]OXY}-5-HYDROXY-6-METHYLTETRAHYDRO-2H-PYRAN- HETSYN 8 6O7 2-YL]OXY}-5,10-DIHYDROXY-6-METHYL-4-OXO-1,2,3,4- HETSYN 9 6O7 TETRAHYDROANTHRACEN-2-YL]-2-METHOXYACETYL}AMINO)-3- HETSYN 10 6O7 PHENYLPROPANOATE (NON-PREFERRED NAME) FORMUL 3 6O7 4(C59 H81 N O24) FORMUL 6 ZN 6(ZN 2+) FORMUL 13 HOH *10(H2 O) LINK N7 DG A 5 ZN ZN A 108 1555 1555 2.10 LINK N7 DG A 6 ZN ZN A 105 1555 1555 2.07 LINK N7 DA A 9 ZN ZN A 107 1555 1555 2.09 LINK N7 DG B 0 ZN ZN B 102 1555 1555 2.10 LINK O14 6O7 A 101 ZN ZN A 104 1555 1555 2.03 LINK O15 6O7 A 101 ZN ZN A 104 1555 1555 1.98 LINK O14 6O7 A 102 ZN ZN A 104 1555 1555 2.00 LINK O15 6O7 A 102 ZN ZN A 104 1555 1555 1.95 LINK O14 6O7 A 103 ZN ZN A 106 1555 1555 2.01 LINK O15 6O7 A 103 ZN ZN A 106 1555 1555 1.96 LINK ZN ZN A 104 O HOH A 204 1555 1555 1.97 LINK ZN ZN A 104 O HOH A 205 1555 1555 2.02 LINK ZN ZN A 105 O HOH A 206 1555 1555 2.00 LINK ZN ZN A 105 O HOH A 207 1555 1555 2.00 LINK ZN ZN A 106 O15 6O7 B 101 1555 1555 1.97 LINK ZN ZN A 106 O HOH A 201 1555 1555 1.99 LINK ZN ZN A 106 O HOH A 203 1555 1555 1.99 LINK ZN ZN A 106 O14 6O7 B 101 1555 1555 2.01 LINK ZN ZN A 108 O HOH A 202 1555 1555 1.99 LINK ZN ZN B 102 O HOH B 203 1555 1555 2.02 LINK ZN ZN B 102 O HOH B 201 1555 1555 1.98 LINK ZN ZN B 102 O HOH B 202 1555 1555 1.99 SITE 1 AC1 13 DA A 4 DG A 6 6O7 A 102 6O7 A 103 SITE 2 AC1 13 ZN A 104 HOH A 204 HOH A 205 DA B -2 SITE 3 AC1 13 DG B -1 DC B 5 DC B 6 DT B 7 SITE 4 AC1 13 6O7 B 101 SITE 1 AC2 12 DG A 5 DG A 6 DG A 7 DT A 8 SITE 2 AC2 12 DA A 9 6O7 A 101 ZN A 104 HOH A 204 SITE 3 AC2 12 HOH A 205 DC B 4 DT B 7 6O7 B 101 SITE 1 AC3 12 DC A 10 DC A 11 DC A 12 DT A 13 SITE 2 AC3 12 6O7 A 101 ZN A 106 HOH A 201 HOH A 203 SITE 3 AC3 12 DG B -1 DG B 1 DT B 2 6O7 B 101 SITE 1 AC4 4 6O7 A 101 6O7 A 102 HOH A 204 HOH A 205 SITE 1 AC5 3 DG A 6 HOH A 206 HOH A 207 SITE 1 AC6 4 6O7 A 103 HOH A 201 HOH A 203 6O7 B 101 SITE 1 AC7 2 DT A 8 DA A 9 SITE 1 AC8 2 DG A 5 HOH A 202 SITE 1 AC9 12 DA A 9 6O7 A 101 6O7 A 102 6O7 A 103 SITE 2 AC9 12 ZN A 106 HOH A 201 HOH A 203 DG B 0 SITE 3 AC9 12 DG B 1 DT B 2 DA B 3 DC B 4 SITE 1 AD1 4 DG B 0 HOH B 201 HOH B 202 HOH B 203 CRYST1 50.564 50.564 125.243 90.00 90.00 90.00 P 43 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 0.019777 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019777 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007984 0.00000 MASTER 353 0 10 0 0 0 19 6 0 0 0 2 END