HEADER DNA/ANTIBIOTIC 16-NOV-15 5ES0 OBSLTE 16-MAY-18 5ES0 5XJW TITLE CRYSTAL STRUCTURE OF THE [CO2+-(CHROMOMYCIN A3)2]-D(TTCCGCCGCCGAA)2 TITLE 2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*TP*TP*CP*CP*GP*CP*CP*GP*CP*CP*GP*AP*A)-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: 32630 KEYWDS NUCLEOTIDE FLIPPING-OUT, CCG TRINUCLEOTIDE REPEATS, CHROMOMYCIN A3, KEYWDS 2 METALLOANTIBIOTICS, MINOR GROOVE BINDING DRUG, DNA-ANTIBIOTIC KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR W.H.TSENG,P.C.WU,M.H.HOU REVDAT 2 16-MAY-18 5ES0 1 OBSLTE REMARK REVDAT 1 16-NOV-16 5ES0 0 JRNL AUTH W.H.TSENG,P.C.WU,M.H.HOU JRNL TITL CRYSTAL STRUCTURE OF THE [CO2+-(CHROMOMYCIN JRNL TITL 2 A3)2]-D(TTCCGCCGCCGAA)2 COMPLEX JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 6359 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 312 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 416 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.3180 REMARK 3 BIN FREE R VALUE SET COUNT : 35 REMARK 3 BIN FREE R VALUE : 0.3250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 518 REMARK 3 HETEROGEN ATOMS : 169 REMARK 3 SOLVENT ATOMS : 144 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.74 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) : -3.11000 REMARK 3 B12 (A**2) : 0.96000 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): 0.225 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.200 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.152 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.863 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : MASK 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5ES0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000215362. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-SEP-12 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 : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.56418 REMARK 200 MONOCHROMATOR : LN2-COOLED, FIXED-EXIT DOUBLE REMARK 200 CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6739 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.26700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0 MM SINGLE STRANDED-DNA, 2.0 MM REMARK 280 CHROMOMYCIN A3, 4MM COCL2 6H2O, 50 MM SODIUM-CACODYLATE BUFFER, REMARK 280 5 MM MGCL2, 1 MM SPERMINE, 3 % MPD, PH 6.0, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 1 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -Y,-X,-Z+1/3 REMARK 290 5555 -X+Y,Y,-Z+2/3 REMARK 290 6555 X,X-Y,-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 -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 55.75733 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 27.87867 REMARK 290 SMTRY1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 27.87867 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 55.75733 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 0.00000 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 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 A 220 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 273 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 275 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 235 LIES ON A SPECIAL POSITION. 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 O4 DT B 15 O HOH B 201 2.07 REMARK 500 OGL CDR A 103 C3 CPH B 106 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 N1 DT A 1 C2 0.056 REMARK 500 DT A 1 N3 DT A 1 C4 -0.052 REMARK 500 DT A 1 C5 DT A 1 C6 0.054 REMARK 500 DT A 2 N1 DT A 2 C2 0.049 REMARK 500 DT A 2 N3 DT A 2 C4 -0.057 REMARK 500 DT B 14 N1 DT B 14 C2 0.060 REMARK 500 DT B 14 C5 DT B 14 C6 0.056 REMARK 500 DT B 14 C2 DT B 14 O2 0.053 REMARK 500 DT B 15 C5 DT B 15 C6 0.043 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 O4' - C1' - N1 ANGL. DEV. = 7.6 DEGREES REMARK 500 DT A 1 C6 - N1 - C2 ANGL. DEV. = -3.5 DEGREES REMARK 500 DT A 1 N1 - C2 - N3 ANGL. DEV. = 8.5 DEGREES REMARK 500 DT A 1 C2 - N3 - C4 ANGL. DEV. = -6.2 DEGREES REMARK 500 DT A 1 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 DT A 2 N1 - C2 - N3 ANGL. DEV. = 6.8 DEGREES REMARK 500 DT A 2 C2 - N3 - C4 ANGL. DEV. = -6.6 DEGREES REMARK 500 DT A 2 N3 - C4 - C5 ANGL. DEV. = 4.7 DEGREES REMARK 500 DT A 2 N3 - C2 - O2 ANGL. DEV. = -4.6 DEGREES REMARK 500 DT A 2 C4 - C5 - C7 ANGL. DEV. = 4.9 DEGREES REMARK 500 DT A 2 C6 - C5 - C7 ANGL. DEV. = -4.4 DEGREES REMARK 500 DT B 14 O4' - C1' - N1 ANGL. DEV. = 6.9 DEGREES REMARK 500 DT B 14 N1 - C2 - N3 ANGL. DEV. = 5.3 DEGREES REMARK 500 DT B 14 C2 - N3 - C4 ANGL. DEV. = -5.4 DEGREES REMARK 500 DT B 14 N3 - C4 - C5 ANGL. DEV. = 4.1 DEGREES REMARK 500 DT B 14 C5 - C6 - N1 ANGL. DEV. = -4.0 DEGREES REMARK 500 DT B 14 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 DT B 14 C5 - C4 - O4 ANGL. DEV. = -5.1 DEGREES REMARK 500 DT B 15 O4' - C1' - N1 ANGL. DEV. = 10.6 DEGREES REMARK 500 DT B 15 N1 - C2 - N3 ANGL. DEV. = 7.1 DEGREES REMARK 500 DT B 15 C2 - N3 - C4 ANGL. DEV. = -5.8 DEGREES REMARK 500 DT B 15 N3 - C4 - C5 ANGL. DEV. = 3.8 DEGREES REMARK 500 DT B 15 N1 - C2 - O2 ANGL. DEV. = -5.3 DEGREES REMARK 500 DT B 15 C5 - C4 - O4 ANGL. DEV. = -6.0 DEGREES REMARK 500 DG B 24 O5' - P - OP2 ANGL. DEV. = -5.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 269 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH A 270 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH A 271 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH A 272 DISTANCE = 7.04 ANGSTROMS REMARK 525 HOH A 273 DISTANCE = 7.49 ANGSTROMS REMARK 525 HOH A 274 DISTANCE = 8.00 ANGSTROMS REMARK 525 HOH A 275 DISTANCE = 8.22 ANGSTROMS REMARK 525 HOH A 276 DISTANCE = 9.22 ANGSTROMS REMARK 525 HOH A 277 DISTANCE = 9.53 ANGSTROMS REMARK 525 HOH A 278 DISTANCE = 9.92 ANGSTROMS REMARK 525 HOH B 265 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH B 266 DISTANCE = 9.11 ANGSTROMS 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 CO A 107 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 8 N7 REMARK 620 2 HOH A 202 O 88.6 REMARK 620 3 HOH A 207 O 88.0 160.4 REMARK 620 4 HOH A 211 O 86.9 117.0 82.0 REMARK 620 5 HOH A 218 O 87.3 68.8 91.8 171.7 REMARK 620 6 HOH A 240 O 157.9 78.2 98.5 114.8 71.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO B 108 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG B 21 N7 REMARK 620 2 HOH B 249 O 176.3 REMARK 620 3 HOH B 209 O 87.7 95.5 REMARK 620 4 HOH B 210 O 87.5 91.2 82.4 REMARK 620 5 HOH B 215 O 88.4 88.3 175.8 95.8 REMARK 620 6 HOH B 205 O 94.5 85.9 112.1 165.4 69.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO B 107 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CPH A 106 O1 REMARK 620 2 CPH A 106 O9 84.3 REMARK 620 3 CPH B 106 O1 82.8 90.8 REMARK 620 4 CPH B 106 O9 93.8 176.2 85.7 REMARK 620 5 HOH B 204 O 166.2 83.2 91.7 98.4 REMARK 620 6 HOH A 204 O 92.1 103.3 164.6 80.0 96.3 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 CO A 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO B 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO B 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Poly-Saccharide residues CDR A REMARK 800 101 through CPH B 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-Saccharide CDR A 101 and CDR REMARK 800 A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Poly-Saccharide residues ERI B REMARK 800 101 through CPH A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-Saccharide ARI A 105 and CPH REMARK 800 A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-Saccharide CDR B 102 and CDR REMARK 800 B 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-Saccharide CDR B 103 and ERI REMARK 800 B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-Saccharide 1GL B 104 and ARI REMARK 800 B 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-Saccharide ARI B 105 and CPH REMARK 800 B 106 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5ERZ RELATED DB: PDB DBREF 5ES0 A 1 13 PDB 5ES0 5ES0 1 13 DBREF 5ES0 B 14 26 PDB 5ES0 5ES0 14 26 SEQRES 1 A 13 DT DT DC DC DG DC DC DG DC DC DG DA DA SEQRES 1 B 13 DT DT DC DC DG DC DC DG DC DC DG DA DA HET CDR A 101 9 HET ERI A 102 14 HET CDR A 103 9 HET 1GL A 104 11 HET ARI A 105 12 HET CPH A 106 28 HET CO A 107 1 HET ERI B 101 14 HET CDR B 102 9 HET CDR B 103 9 HET 1GL B 104 11 HET ARI B 105 12 HET CPH B 106 28 HET CO B 107 1 HET CO B 108 1 HETNAM CDR 2,3-DIDEOXYFUCOSE HETNAM ERI 4-O-ACETYL-2,6-DIDEOXY-3-C-METHYL-BETA-L-ARABINO- HETNAM 2 ERI HEXOPYRANOSE HETNAM 1GL 4-O-METHYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE HETNAM ARI [O4]-ACETOXY-2,3-DIDEOXYFUCOSE HETNAM CPH (1S)-5-DEOXY-1-O-METHYL-1-C-[(2R,3S)-3,5,7,10- HETNAM 2 CPH TETRAHYDROXY-6-METHYL-4-OXO-1,2,3,4- HETNAM 3 CPH TETRAHYDROANTHRACEN-2-YL]-D-XYLULOSE HETNAM CO COBALT (II) ION HETSYN CPH NONE FORMUL 3 CDR 4(C6 H12 O3) FORMUL 3 ERI 2(C9 H16 O5) FORMUL 4 1GL 2(C7 H14 O4) FORMUL 4 ARI 2(C8 H14 O4) FORMUL 5 CPH 2(C21 H24 O9) FORMUL 6 CO 3(CO 2+) FORMUL 12 HOH *144(H2 O) LINK N7 DG A 8 CO CO A 107 1555 1555 2.26 LINK N7 DG B 21 CO CO B 108 1555 1555 2.24 LINK C3 CDR A 101 O1 ERI A 102 1555 1555 1.48 LINK OGL ARI A 105 C6 CPH A 106 1555 1555 1.57 LINK C3 CDR B 103 O1 ERI B 101 1555 1555 1.58 LINK OGL ARI B 105 C6 CPH B 106 1555 1555 1.61 LINK C2 CPH B 106 OGL CDR A 103 1555 1555 1.73 LINK OGL CDR A 101 C3 CDR A 103 1555 1555 1.79 LINK C3 CDR B 102 OGL CDR B 103 1555 1555 1.79 LINK O1 1GL B 104 C3 ARI B 105 1555 1555 1.79 LINK C2 CPH A 106 OGL CDR B 102 1555 1555 1.86 LINK O1 1GL A 104 C3 ARI A 105 1555 1555 1.96 LINK O1 CPH A 106 CO CO B 107 1555 1555 1.87 LINK O9 CPH A 106 CO CO B 107 1555 1555 1.86 LINK CO CO A 107 O HOH A 202 1555 1555 2.08 LINK CO CO A 107 O HOH A 207 1555 1555 1.99 LINK CO CO A 107 O HOH A 211 1555 1555 1.78 LINK CO CO A 107 O HOH A 218 1555 1555 1.88 LINK CO CO A 107 O HOH A 240 1555 1555 2.48 LINK O1 CPH B 106 CO CO B 107 1555 1555 1.90 LINK O9 CPH B 106 CO CO B 107 1555 1555 1.86 LINK CO CO B 107 O HOH B 204 1555 1555 2.21 LINK CO CO B 107 O HOH A 204 1555 1555 2.18 LINK CO CO B 108 O HOH B 249 1555 1555 2.32 LINK CO CO B 108 O HOH B 209 1555 1555 2.01 LINK CO CO B 108 O HOH B 210 1555 1555 2.00 LINK CO CO B 108 O HOH B 215 1555 1555 1.85 LINK CO CO B 108 O HOH B 205 1555 1555 2.13 SITE 1 AC1 6 DG A 8 HOH A 202 HOH A 207 HOH A 211 SITE 2 AC1 6 HOH A 218 HOH A 240 SITE 1 AC2 4 CPH A 106 HOH A 204 CPH B 106 HOH B 204 SITE 1 AC3 6 DG B 21 HOH B 205 HOH B 209 HOH B 210 SITE 2 AC3 6 HOH B 215 HOH B 249 SITE 1 AC4 29 DG A 5 DC A 6 DG A 8 DC A 9 SITE 2 AC4 29 DC A 10 DG A 11 HOH A 203 HOH A 204 SITE 3 AC4 29 HOH A 209 HOH A 215 HOH A 216 HOH A 217 SITE 4 AC4 29 HOH A 227 HOH A 236 DG B 18 DC B 19 SITE 5 AC4 29 DG B 21 DC B 22 DC B 23 DG B 24 SITE 6 AC4 29 CO B 107 HOH B 202 HOH B 204 HOH B 206 SITE 7 AC4 29 HOH B 207 HOH B 216 HOH B 217 HOH B 218 SITE 8 AC4 29 HOH B 248 SITE 1 AC5 7 ERI A 102 ARI A 105 CPH A 106 HOH A 215 SITE 2 AC5 7 DC B 23 DG B 24 CPH B 106 SITE 1 AC6 29 DG A 5 DC A 6 DG A 8 DC A 9 SITE 2 AC6 29 DC A 10 DG A 11 HOH A 203 HOH A 204 SITE 3 AC6 29 HOH A 209 HOH A 215 HOH A 216 HOH A 217 SITE 4 AC6 29 HOH A 227 HOH A 236 DG B 18 DC B 19 SITE 5 AC6 29 DG B 21 DC B 22 DC B 23 DG B 24 SITE 6 AC6 29 CO B 107 HOH B 202 HOH B 204 HOH B 206 SITE 7 AC6 29 HOH B 207 HOH B 216 HOH B 217 HOH B 218 SITE 8 AC6 29 HOH B 248 SITE 1 AC7 17 DG A 5 DG A 8 DC A 9 DC A 10 SITE 2 AC7 17 CDR A 101 ERI A 102 CDR A 103 1GL A 104 SITE 3 AC7 17 HOH A 204 HOH A 216 HOH A 217 HOH A 236 SITE 4 AC7 17 DC B 23 CDR B 102 CPH B 106 CO B 107 SITE 5 AC7 17 HOH B 204 SITE 1 AC8 25 DG A 5 DC A 6 DG A 8 DC A 9 SITE 2 AC8 25 DC A 10 DG A 11 CDR A 101 ARI A 105 SITE 3 AC8 25 HOH A 203 HOH A 204 HOH A 217 HOH A 227 SITE 4 AC8 25 HOH A 236 DG B 18 DG B 21 DC B 22 SITE 5 AC8 25 DC B 23 DG B 24 ERI B 101 ARI B 105 SITE 6 AC8 25 CO B 107 HOH B 204 HOH B 207 HOH B 217 SITE 7 AC8 25 HOH B 218 SITE 1 AC9 8 DG A 11 DG B 18 DC B 19 CDR B 102 SITE 2 AC9 8 ARI B 105 CPH B 106 HOH B 202 HOH B 207 SITE 1 AD1 7 DC B 19 ERI B 101 CDR B 103 CPH B 106 SITE 2 AD1 7 HOH B 206 HOH B 216 HOH B 248 SITE 1 AD2 17 DC A 10 CDR A 103 CPH A 106 HOH A 204 SITE 2 AD2 17 DG B 18 DG B 21 DC B 22 DC B 23 SITE 3 AD2 17 ERI B 101 CDR B 102 CDR B 103 1GL B 104 SITE 4 AD2 17 CO B 107 HOH B 204 HOH B 216 HOH B 217 SITE 5 AD2 17 HOH B 248 CRYST1 48.309 48.309 83.636 90.00 90.00 120.00 P 32 1 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 0.020700 0.011951 0.000000 0.00000 SCALE2 0.000000 0.023902 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011957 0.00000