PDB Short entry for 1VAQ HEADER DNA 19-FEB-04 1VAQ TITLE CRYSTAL STRUCTURE OF THE MG2+-(CHROMOMYCIN A3)2-D(TTGGCCAA)2 COMPLEX TITLE 2 REVEALS GGCC BINDING SPECIFICITY OF THE DRUG DIMER CHELATED BY METAL TITLE 3 ION COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*TP*TP*GP*GP*CP*CP*AP*A)-3'; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 OTHER_DETAILS: THE SYNTHETIC DNA OLIGONUCLEOTIDES WERE PURIFIED BY SOURCE 6 GEL ELECTROPHORESIS. KEYWDS CHROMOMYCIN A3, MAD, DNA DUPLEX, GGCC SITE, DNA KINK, CD SPECTRA, DNA EXPDTA X-RAY DIFFRACTION AUTHOR M.H.HOU,H.ROBINSON,Y.G.GAO,A.H.-J.WANG REVDAT 5 27-DEC-23 1VAQ 1 HETSYN LINK REVDAT 4 29-JUL-20 1VAQ 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 31-OCT-18 1VAQ 1 SOURCE REMARK LINK ATOM REVDAT 2 24-FEB-09 1VAQ 1 VERSN REVDAT 1 22-JUN-04 1VAQ 0 JRNL AUTH M.H.HOU,H.ROBINSON,Y.G.GAO,A.H.-J.WANG JRNL TITL CRYSTAL STRUCTURE OF THE [MG2+-(CHROMOMYCIN JRNL TITL 2 A3)2]-D(TTGGCCAA)2 COMPLEX REVEALS GGCC BINDING SPECIFICITY JRNL TITL 3 OF THE DRUG DIMER CHELATED BY A METAL ION JRNL REF NUCLEIC ACIDS RES. V. 32 2214 2004 JRNL REFN ISSN 0305-1048 JRNL PMID 15107489 JRNL DOI 10.1093/NAR/GKH549 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 10.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 7815 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 SET) : 0.235 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 726 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.07 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 735 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 644 REMARK 3 HETEROGEN ATOMS : 334 REMARK 3 SOLVENT ATOMS : 283 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.022 REMARK 3 BOND ANGLES (DEGREES) : 2.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1VAQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-FEB-04. REMARK 100 THE DEPOSITION ID IS D_1000006410. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5432 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : NULL REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.00550 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL 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 <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: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 30.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM-CACODYLATE, MGCL2, PH 5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 164.07333 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 82.03667 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 123.05500 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 41.01833 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 205.09167 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 164.07333 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 82.03667 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 41.01833 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 123.05500 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 205.09167 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, E, F, G, H 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, I, J, K, L 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 268 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 280 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 409 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 345 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 O HOH B 422 O HOH C 250 2.17 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 3 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG A 4 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT B 10 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC C 45 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DG A 3 0.14 SIDE CHAIN REMARK 500 DG A 4 0.11 SIDE CHAIN REMARK 500 DT B 10 0.07 SIDE CHAIN REMARK 500 DG B 11 0.11 SIDE CHAIN REMARK 500 DG B 12 0.10 SIDE CHAIN REMARK 500 DG C 44 0.06 SIDE CHAIN REMARK 500 DC C 45 0.09 SIDE CHAIN REMARK 500 DG D 51 0.10 SIDE CHAIN REMARK 500 DC D 53 0.07 SIDE CHAIN 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 B 237 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH B 319 DISTANCE = 6.64 ANGSTROMS REMARK 525 HOH B 362 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH B 386 DISTANCE = 7.52 ANGSTROMS REMARK 525 HOH B 394 DISTANCE = 8.85 ANGSTROMS REMARK 525 HOH B 411 DISTANCE = 7.44 ANGSTROMS REMARK 525 HOH B 413 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH B 424 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH B 432 DISTANCE = 7.63 ANGSTROMS REMARK 525 HOH B 435 DISTANCE = 7.38 ANGSTROMS REMARK 525 HOH B 438 DISTANCE = 11.53 ANGSTROMS REMARK 525 HOH B 453 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH C 292 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH C 352 DISTANCE = 7.79 ANGSTROMS REMARK 525 HOH C 357 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH C 358 DISTANCE = 5.81 ANGSTROMS REMARK 525 HOH C 434 DISTANCE = 6.80 ANGSTROMS REMARK 525 HOH C 443 DISTANCE = 7.31 ANGSTROMS REMARK 525 HOH C 444 DISTANCE = 6.87 ANGSTROMS REMARK 525 HOH D 244 DISTANCE = 8.11 ANGSTROMS REMARK 525 HOH D 245 DISTANCE = 7.16 ANGSTROMS REMARK 525 HOH D 275 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH D 276 DISTANCE = 8.58 ANGSTROMS REMARK 525 HOH D 277 DISTANCE = 10.07 ANGSTROMS REMARK 525 HOH D 278 DISTANCE = 11.39 ANGSTROMS REMARK 525 HOH D 336 DISTANCE = 6.80 ANGSTROMS REMARK 525 HOH D 339 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH D 341 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH D 342 DISTANCE = 8.32 ANGSTROMS REMARK 525 HOH D 393 DISTANCE = 7.26 ANGSTROMS REMARK 525 HOH D 399 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH D 406 DISTANCE = 7.57 ANGSTROMS REMARK 525 HOH D 419 DISTANCE = 10.78 ANGSTROMS REMARK 525 HOH D 447 DISTANCE = 6.10 ANGSTROMS REMARK 525 HOH D 464 DISTANCE = 10.14 ANGSTROMS REMARK 525 HOH D 465 DISTANCE = 12.77 ANGSTROMS REMARK 525 HOH D 472 DISTANCE = 6.73 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 MG A 81 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CPH A 33 O1 REMARK 620 2 CPH A 33 O9 82.0 REMARK 620 3 HOH A 481 O 99.5 105.4 REMARK 620 4 CPH B 23 O1 86.3 91.7 162.6 REMARK 620 5 CPH B 23 O9 98.6 172.9 81.6 81.3 REMARK 620 6 HOH B 480 O 167.5 87.9 90.2 86.7 90.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 82 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CPH C 73 O1 REMARK 620 2 CPH C 73 O9 80.9 REMARK 620 3 CPH D 63 O9 93.1 169.2 REMARK 620 4 CPH D 63 O1 91.1 105.6 83.3 REMARK 620 5 HOH D 482 O 82.5 84.8 85.5 166.8 REMARK 620 6 HOH D 483 O 173.1 93.5 91.8 94.2 93.0 REMARK 620 N 1 2 3 4 5 DBREF 1VAQ A 1 8 PDB 1VAQ 1VAQ 1 8 DBREF 1VAQ B 9 16 PDB 1VAQ 1VAQ 9 16 DBREF 1VAQ C 41 48 PDB 1VAQ 1VAQ 41 48 DBREF 1VAQ D 49 56 PDB 1VAQ 1VAQ 49 56 SEQRES 1 A 8 DT DT DG DG DC DC DA DA SEQRES 1 B 8 DT DT DG DG DC DC DA DA SEQRES 1 C 8 DT DT DG DG DC DC DA DA SEQRES 1 D 8 DT DT DG DG DC DC DA DA HET ARI E 1 12 HET 1GL E 2 11 HET ARI F 1 12 HET 1GL F 2 11 HET CDR G 1 9 HET CDR G 2 9 HET ERI G 3 14 HET CDR H 1 9 HET CDR H 2 9 HET ERI H 3 14 HET ARI I 1 12 HET 1GL I 2 11 HET CDR J 1 9 HET CDR J 2 9 HET ERI J 3 14 HET ARI K 1 12 HET 1GL K 2 11 HET CDR L 1 9 HET CDR L 2 9 HET ERI L 3 14 HET MG A 81 1 HET CPH A 33 28 HET CPH B 23 28 HET CPH C 73 28 HET MG D 82 1 HET CPH D 63 28 HETNAM ARI (2R,3R,6R)-6-HYDROXY-2-METHYLTETRAHYDRO-2H-PYRAN-3-YL HETNAM 2 ARI ACETATE HETNAM 1GL 2,6-DIDEOXY-4-O-METHYL-ALPHA-D-GALACTOPYRANOSE HETNAM CDR (2R,5S,6R)-6-METHYLTETRAHYDRO-2H-PYRAN-2,5-DIOL HETNAM ERI 3-C-METHYL-4-O-ACETYL-ALPHA-L-OLIVOPYRANOSE HETNAM MG MAGNESIUM ION 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 HETSYN ARI [O4]-ACETOXY-2,3-DIDEOXYFUCOSE HETSYN 1GL 4-O-METHYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE; 2- HETSYN 2 1GL DEOXY-4-O-METHYL-ALPHA-D-FUCOPYRANOSE; 2,6-DIDEOXY-4- HETSYN 3 1GL O-METHYL-ALPHA-D-GALACTOSE; 2,6-DIDEOXY-4-O-METHYL-D- HETSYN 4 1GL GALACTOSE; 2,6-DIDEOXY-4-O-METHYL-GALACTOSE HETSYN CDR 2,3-DIDEOXYFUCOSE HETSYN ERI 4-O-ACETYL-2,6-DIDEOXY-3-C-METHYL-BETA-L-ARABINO- HETSYN 2 ERI HEXOPYRANOSE; 3-C-METHYL-4-O-ACETYL-ALPHA-L-OLIVOSE; HETSYN 3 ERI 3-C-METHYL-4-O-ACETYL-L-OLIVOSE; 3-C-METHYL-4-O- HETSYN 4 ERI ACETYL-OLIVOSE HETSYN CPH NONE FORMUL 5 ARI 4(C8 H14 O4) FORMUL 5 1GL 4(C7 H14 O4) FORMUL 7 CDR 8(C6 H12 O3) FORMUL 7 ERI 4(C9 H16 O5) FORMUL 13 MG 2(MG 2+) FORMUL 14 CPH 4(C21 H24 O9) FORMUL 19 HOH *283(H2 O) LINK C6 CPH A 33 O1 ARI E 1 1555 1555 1.38 LINK C2 CPH A 33 O1 CDR H 1 1555 1555 1.39 LINK C6 CPH B 23 O1 ARI F 1 1555 1555 1.38 LINK C2 CPH B 23 O1 CDR G 1 1555 1555 1.38 LINK C6 CPH C 73 O1 ARI I 1 1555 1555 1.37 LINK C2 CPH C 73 O1 CDR J 1 1555 1555 1.39 LINK C6 CPH D 63 O1 ARI K 1 1555 1555 1.38 LINK C2 CPH D 63 O1 CDR L 1 1555 1555 1.38 LINK C3 ARI E 1 O1 1GL E 2 1555 1555 1.38 LINK C3 ARI F 1 O1 1GL F 2 1555 1555 1.39 LINK C3 CDR G 1 O1 CDR G 2 1555 1555 1.39 LINK C3 CDR G 2 O1 ERI G 3 1555 1555 1.39 LINK C3 CDR H 1 O1 CDR H 2 1555 1555 1.39 LINK C3 CDR H 2 O1 ERI H 3 1555 1555 1.39 LINK C3 ARI I 1 O1 1GL I 2 1555 1555 1.39 LINK C3 CDR J 1 O1 CDR J 2 1555 1555 1.39 LINK C3 CDR J 2 O1 ERI J 3 1555 1555 1.38 LINK C3 ARI K 1 O1 1GL K 2 1555 1555 1.40 LINK C3 CDR L 1 O1 CDR L 2 1555 1555 1.40 LINK C3 CDR L 2 O1 ERI L 3 1555 1555 1.37 LINK O1 CPH A 33 MG MG A 81 1555 1555 2.04 LINK O9 CPH A 33 MG MG A 81 1555 1555 1.87 LINK MG MG A 81 O HOH A 481 1555 1555 2.06 LINK MG MG A 81 O1 CPH B 23 1555 1555 2.00 LINK MG MG A 81 O9 CPH B 23 1555 1555 1.81 LINK MG MG A 81 O HOH B 480 1555 1555 2.07 LINK O1 CPH C 73 MG MG D 82 1555 1555 2.07 LINK O9 CPH C 73 MG MG D 82 1555 1555 1.88 LINK O9 CPH D 63 MG MG D 82 1555 1555 1.84 LINK O1 CPH D 63 MG MG D 82 1555 1555 2.11 LINK MG MG D 82 O HOH D 482 1555 1555 2.07 LINK MG MG D 82 O HOH D 483 1555 1555 2.01 CRYST1 42.230 42.230 246.110 90.00 90.00 120.00 P 65 2 2 48 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 0.023680 0.013672 0.000000 0.00000 SCALE2 0.000000 0.027343 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004063 0.00000