HEADER RNA/DNA 02-OCT-14 4WKJ TITLE CRYSTALLOGRAPHIC STRUCTURE OF A DODECAMERIC RNA-DNA HYBRID COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*C)-3'); COMPND 3 CHAIN: D, A, C, G; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(*GP*AP*AP*TP*CP*AP*GP*GP*TP*GP*TP*C)-3'); COMPND 7 CHAIN: E, B, F, H; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 4 ORGANISM_TAXID: 562; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 8 ORGANISM_TAXID: 562 KEYWDS RNA, DNA, HYBRID, DUPLEX, RNA-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.R.DAVIS,N.M.SHABAN,F.W.PERRINO,T.HOLLIS REVDAT 5 25-DEC-19 4WKJ 1 REMARK REVDAT 4 06-SEP-17 4WKJ 1 SOURCE REMARK REVDAT 3 04-MAR-15 4WKJ 1 JRNL REVDAT 2 29-OCT-14 4WKJ 1 REMARK REVDAT 1 22-OCT-14 4WKJ 0 JRNL AUTH R.R.DAVIS,N.M.SHABAN,F.W.PERRINO,T.HOLLIS JRNL TITL CRYSTAL STRUCTURE OF RNA-DNA DUPLEX PROVIDES INSIGHT INTO JRNL TITL 2 CONFORMATIONAL CHANGES INDUCED BY RNASE H BINDING. JRNL REF CELL CYCLE V. 14 668 2015 JRNL REFN ESSN 1551-4005 JRNL PMID 25664393 JRNL DOI 10.4161/15384101.2014.994996 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0085 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 7484 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) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.600 REMARK 3 FREE R VALUE TEST SET COUNT : 796 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 547 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.5030 REMARK 3 BIN FREE R VALUE SET COUNT : 52 REMARK 3 BIN FREE R VALUE : 0.5980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 1980 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 1 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 47.57 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.85000 REMARK 3 B22 (A**2) : 1.83000 REMARK 3 B33 (A**2) : -2.35000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.785 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.361 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.246 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 29.503 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2212 ; 0.009 ; 0.011 REMARK 3 BOND LENGTHS OTHERS (A): 1016 ; 0.012 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3416 ; 1.698 ; 1.225 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2432 ; 2.221 ; 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): 336 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1124 ; 0.016 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 476 ; 0.014 ; 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): 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 12 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 D 1 12 A 1 12 1414 0.01 0.05 REMARK 3 2 D 1 12 C 1 12 1404 0.03 0.05 REMARK 3 3 D 1 12 G 1 12 1388 0.04 0.05 REMARK 3 4 E 1 12 B 1 12 1662 0.05 0.05 REMARK 3 5 E 1 12 F 1 12 1636 0.08 0.05 REMARK 3 6 E 1 12 H 1 12 1636 0.07 0.05 REMARK 3 7 A 1 12 C 1 12 1408 0.03 0.05 REMARK 3 8 A 1 12 G 1 12 1396 0.04 0.05 REMARK 3 9 B 1 12 F 1 12 1652 0.06 0.05 REMARK 3 10 B 1 12 H 1 12 1656 0.05 0.05 REMARK 3 11 C 1 12 G 1 12 1412 0.03 0.05 REMARK 3 12 F 1 12 H 1 12 1638 0.08 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 12 REMARK 3 ORIGIN FOR THE GROUP (A): 10.8730 -10.0990 10.5900 REMARK 3 T TENSOR REMARK 3 T11: 0.3275 T22: 0.3650 REMARK 3 T33: 0.3697 T12: -0.0626 REMARK 3 T13: -0.0302 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 2.1268 L22: 0.2603 REMARK 3 L33: 2.5966 L12: 0.6820 REMARK 3 L13: -2.3130 L23: -0.7900 REMARK 3 S TENSOR REMARK 3 S11: -0.0731 S12: -0.0412 S13: -0.2201 REMARK 3 S21: -0.0384 S22: -0.1298 S23: -0.0710 REMARK 3 S31: 0.1637 S32: 0.1581 S33: 0.2029 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E 1 E 12 REMARK 3 ORIGIN FOR THE GROUP (A): 12.6500 -6.9380 10.0480 REMARK 3 T TENSOR REMARK 3 T11: 0.2772 T22: 0.2954 REMARK 3 T33: 0.3435 T12: -0.0927 REMARK 3 T13: -0.0079 T23: 0.0456 REMARK 3 L TENSOR REMARK 3 L11: 3.1984 L22: 5.1641 REMARK 3 L33: 6.1367 L12: 3.5677 REMARK 3 L13: -0.6204 L23: -1.3223 REMARK 3 S TENSOR REMARK 3 S11: 0.2335 S12: -0.2150 S13: 0.2194 REMARK 3 S21: -0.0559 S22: -0.5915 S23: 0.2450 REMARK 3 S31: -0.1296 S32: 0.3444 S33: 0.3579 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 12 REMARK 3 ORIGIN FOR THE GROUP (A): 12.4490 -10.1230 -10.5280 REMARK 3 T TENSOR REMARK 3 T11: 0.2838 T22: 0.2773 REMARK 3 T33: 0.3656 T12: 0.1321 REMARK 3 T13: -0.0136 T23: 0.0489 REMARK 3 L TENSOR REMARK 3 L11: 2.5842 L22: 0.0571 REMARK 3 L33: 2.1628 L12: -0.1466 REMARK 3 L13: -1.5712 L23: 0.3135 REMARK 3 S TENSOR REMARK 3 S11: -0.0415 S12: -0.2281 S13: -0.0748 REMARK 3 S21: 0.0390 S22: -0.0498 S23: 0.0207 REMARK 3 S31: 0.3280 S32: 0.0038 S33: 0.0913 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 12 REMARK 3 ORIGIN FOR THE GROUP (A): 10.7130 -6.9940 -9.9750 REMARK 3 T TENSOR REMARK 3 T11: 0.2836 T22: 0.2903 REMARK 3 T33: 0.3609 T12: 0.1094 REMARK 3 T13: 0.0042 T23: -0.0373 REMARK 3 L TENSOR REMARK 3 L11: 3.5341 L22: 4.0912 REMARK 3 L33: 3.7974 L12: -3.6763 REMARK 3 L13: -0.8496 L23: 1.6553 REMARK 3 S TENSOR REMARK 3 S11: 0.0905 S12: 0.1540 S13: 0.1116 REMARK 3 S21: -0.0613 S22: -0.3451 S23: -0.1039 REMARK 3 S31: -0.0712 S32: -0.3381 S33: 0.2547 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 12 REMARK 3 ORIGIN FOR THE GROUP (A): 8.9970 5.8500 -35.7990 REMARK 3 T TENSOR REMARK 3 T11: 0.0440 T22: 0.0520 REMARK 3 T33: 0.4048 T12: 0.0157 REMARK 3 T13: -0.0706 T23: 0.0819 REMARK 3 L TENSOR REMARK 3 L11: 4.2671 L22: 3.7318 REMARK 3 L33: 1.0590 L12: -1.6539 REMARK 3 L13: -1.8551 L23: 1.3279 REMARK 3 S TENSOR REMARK 3 S11: 0.0437 S12: -0.0886 S13: -0.0845 REMARK 3 S21: 0.0061 S22: 0.1455 S23: 0.0605 REMARK 3 S31: 0.0228 S32: 0.0138 S33: -0.1892 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 1 F 12 REMARK 3 ORIGIN FOR THE GROUP (A): 6.8240 7.2330 -33.4320 REMARK 3 T TENSOR REMARK 3 T11: 0.1348 T22: 0.0506 REMARK 3 T33: 0.4405 T12: 0.0338 REMARK 3 T13: 0.0555 T23: 0.0106 REMARK 3 L TENSOR REMARK 3 L11: 1.4819 L22: 3.6797 REMARK 3 L33: 4.6971 L12: -1.7806 REMARK 3 L13: -1.6305 L23: 1.1208 REMARK 3 S TENSOR REMARK 3 S11: -0.1122 S12: -0.0852 S13: -0.4302 REMARK 3 S21: 0.0035 S22: 0.2714 S23: 0.2654 REMARK 3 S31: 0.0063 S32: -0.1032 S33: -0.1592 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : G 1 G 12 REMARK 3 ORIGIN FOR THE GROUP (A): 32.4790 -15.0080 -35.9080 REMARK 3 T TENSOR REMARK 3 T11: 0.1101 T22: 0.0556 REMARK 3 T33: 0.2483 T12: 0.0151 REMARK 3 T13: -0.0708 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 5.2058 L22: 2.1890 REMARK 3 L33: 0.3904 L12: -1.3206 REMARK 3 L13: -1.3318 L23: 0.6343 REMARK 3 S TENSOR REMARK 3 S11: -0.2146 S12: -0.1962 S13: 0.0173 REMARK 3 S21: -0.0009 S22: 0.2260 S23: 0.0927 REMARK 3 S31: 0.0500 S32: 0.0816 S33: -0.0114 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H 1 H 12 REMARK 3 ORIGIN FOR THE GROUP (A): 30.3590 -13.6300 -33.3700 REMARK 3 T TENSOR REMARK 3 T11: 0.1912 T22: 0.0695 REMARK 3 T33: 0.3056 T12: 0.0063 REMARK 3 T13: -0.0250 T23: -0.0332 REMARK 3 L TENSOR REMARK 3 L11: 2.6008 L22: 4.5334 REMARK 3 L33: 4.4207 L12: -2.1967 REMARK 3 L13: -1.9320 L23: -1.1504 REMARK 3 S TENSOR REMARK 3 S11: -0.1318 S12: -0.0055 S13: -0.1890 REMARK 3 S21: 0.1652 S22: 0.2392 S23: 0.2895 REMARK 3 S31: 0.1520 S32: -0.2237 S33: -0.1074 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.10 REMARK 3 ION PROBE RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4WKJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000200975. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 92 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8314 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 26.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : 0.49200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1ZBI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2 M MAGNESIUM FORMATE, REMARK 280 10% 2-METHYL-2,4-PENTANEDIOL, PH 6.5, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-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 22.22950 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: 1100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 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 350 REMARK 350 BIOMOLECULE: 3 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: 1150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, F 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: 4 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: 1100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 F 1 O3' DA F 2 P -0.148 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 A D 9 O5' - P - OP2 ANGL. DEV. = -8.5 DEGREES REMARK 500 C C 6 O5' - P - OP1 ANGL. DEV. = -7.6 DEGREES REMARK 500 A G 4 O5' - P - OP2 ANGL. DEV. = 7.3 DEGREES REMARK 500 G G 8 O5' - P - OP2 ANGL. DEV. = -6.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF 4WKJ D 1 12 PDB 4WKJ 4WKJ 1 12 DBREF 4WKJ E 1 12 PDB 4WKJ 4WKJ 1 12 DBREF 4WKJ A 1 12 PDB 4WKJ 4WKJ 1 12 DBREF 4WKJ B 1 12 PDB 4WKJ 4WKJ 1 12 DBREF 4WKJ C 1 12 PDB 4WKJ 4WKJ 1 12 DBREF 4WKJ F 1 12 PDB 4WKJ 4WKJ 1 12 DBREF 4WKJ G 1 12 PDB 4WKJ 4WKJ 1 12 DBREF 4WKJ H 1 12 PDB 4WKJ 4WKJ 1 12 SEQRES 1 D 12 G A C A C C U G A U U C SEQRES 1 E 12 DG DA DA DT DC DA DG DG DT DG DT DC SEQRES 1 A 12 G A C A C C U G A U U C SEQRES 1 B 12 DG DA DA DT DC DA DG DG DT DG DT DC SEQRES 1 C 12 G A C A C C U G A U U C SEQRES 1 F 12 DG DA DA DT DC DA DG DG DT DG DT DC SEQRES 1 G 12 G A C A C C U G A U U C SEQRES 1 H 12 DG DA DA DT DC DA DG DG DT DG DT DC HET MG F 101 1 HETNAM MG MAGNESIUM ION FORMUL 9 MG MG 2+ FORMUL 10 HOH *(H2 O) CRYST1 46.649 44.459 83.346 90.00 105.27 90.00 P 1 21 1 8 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 0.021437 0.000000 0.005852 0.00000 SCALE2 0.000000 0.022493 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012437 0.00000 MASTER 467 0 1 0 0 0 0 6 0 0 0 8 END