HEADER RNA 24-NOV-12 3ZD5 TITLE THE 2.2 A STRUCTURE OF A FULL-LENGTH CATALYTICALLY ACTIVE HAMMERHEAD TITLE 2 RIBOZYME COMPND MOL_ID: 1; COMPND 2 MOLECULE: HAMMERHEAD RIBOZYME, ENZYME STRAND; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HAMMERHEAD RIBOZYME, SUBSTRATE STRAND; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SCHISTOSOMA MANSONI; SOURCE 4 ORGANISM_TAXID: 6183; SOURCE 5 OTHER_DETAILS: ENZYME STRAND WAS OBTAINED BY T7 RNA TRANSCRIPTION; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 ORGANISM_SCIENTIFIC: SCHISTOSOMA MANSONI; SOURCE 9 ORGANISM_TAXID: 6183; SOURCE 10 OTHER_DETAILS: SUBSTRATE STRAND WAS OBTAINED BY SOLID-PHASE CHEMICAL SOURCE 11 SYNTHESIS KEYWDS CATALYTIC RNA, IN-LINE ATTACK, HAMMERHEAD RNA, STEM-LOOP INTERACTION, KEYWDS 2 URIDINE TURN, A-FORM HELIX, RNA EXPDTA X-RAY DIFFRACTION AUTHOR M.MARTICK,W.G.SCOTT REVDAT 3 13-MAR-19 3ZD5 1 SOURCE JRNL REMARK LINK REVDAT 2 06-MAR-13 3ZD5 1 REMARK REVDAT 1 12-DEC-12 3ZD5 0 SPRSDE 12-DEC-12 3ZD5 2GOZ JRNL AUTH M.MARTICK,W.G.SCOTT JRNL TITL TERTIARY CONTACTS DISTANT FROM THE ACTIVE SITE PRIME A JRNL TITL 2 RIBOZYME FOR CATALYSIS. JRNL REF CELL V. 126 309 2006 JRNL REFN ISSN 0092-8674 JRNL PMID 16859740 JRNL DOI 10.1016/J.CELL.2006.06.036 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.22 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.500 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 9615 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.700 REMARK 3 FREE R VALUE TEST SET COUNT : 935 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 20.2209 - 4.1983 0.97 1222 138 0.1273 0.1330 REMARK 3 2 4.1983 - 3.3372 0.99 1239 137 0.1470 0.1994 REMARK 3 3 3.3372 - 2.9168 0.99 1254 135 0.1929 0.2504 REMARK 3 4 2.9168 - 2.6507 1.00 1247 116 0.2530 0.3115 REMARK 3 5 2.6507 - 2.4611 1.00 1255 124 0.2468 0.3087 REMARK 3 6 2.4611 - 2.3162 1.00 1217 144 0.2366 0.2735 REMARK 3 7 2.3162 - 2.2004 1.00 1246 141 0.2441 0.3060 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.510 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 43.18 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 1503 REMARK 3 ANGLE : 0.937 2337 REMARK 3 CHIRALITY : 0.039 309 REMARK 3 PLANARITY : 0.006 63 REMARK 3 DIHEDRAL : 15.306 744 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:4) REMARK 3 ORIGIN FOR THE GROUP (A): -9.4762 18.8698 11.7237 REMARK 3 T TENSOR REMARK 3 T11: 0.5529 T22: 0.4116 REMARK 3 T33: 0.3284 T12: -0.0185 REMARK 3 T13: -0.0203 T23: -0.0640 REMARK 3 L TENSOR REMARK 3 L11: 4.2525 L22: 5.9746 REMARK 3 L33: 8.1616 L12: 3.7274 REMARK 3 L13: -1.4449 L23: -4.3063 REMARK 3 S TENSOR REMARK 3 S11: -0.0481 S12: -0.2587 S13: -0.2765 REMARK 3 S21: -0.2380 S22: 0.5956 S23: 0.1284 REMARK 3 S31: 1.4790 S32: -0.2624 S33: -0.6610 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 5:14) REMARK 3 ORIGIN FOR THE GROUP (A): -11.2335 7.2618 -8.4889 REMARK 3 T TENSOR REMARK 3 T11: 0.3748 T22: 0.3427 REMARK 3 T33: 0.4996 T12: -0.0208 REMARK 3 T13: 0.0732 T23: -0.0166 REMARK 3 L TENSOR REMARK 3 L11: 0.1185 L22: 3.4935 REMARK 3 L33: 0.0587 L12: 2.1936 REMARK 3 L13: 0.8110 L23: 2.0312 REMARK 3 S TENSOR REMARK 3 S11: -0.0296 S12: 0.0249 S13: -0.1988 REMARK 3 S21: -0.5860 S22: 0.1500 S23: -0.8705 REMARK 3 S31: -0.2272 S32: 0.1963 S33: -0.1333 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 15:25) REMARK 3 ORIGIN FOR THE GROUP (A): -18.2368 10.2441 -21.6235 REMARK 3 T TENSOR REMARK 3 T11: 0.6297 T22: 0.6993 REMARK 3 T33: 0.5237 T12: -0.1779 REMARK 3 T13: 0.0322 T23: 0.0433 REMARK 3 L TENSOR REMARK 3 L11: 1.1610 L22: 0.8835 REMARK 3 L33: 1.4751 L12: -1.4915 REMARK 3 L13: 0.2145 L23: 0.8948 REMARK 3 S TENSOR REMARK 3 S11: -0.2676 S12: 0.3754 S13: 0.4036 REMARK 3 S21: 0.1056 S22: 0.2926 S23: -0.2755 REMARK 3 S31: -0.4368 S32: 0.7151 S33: -0.0777 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 26:30) REMARK 3 ORIGIN FOR THE GROUP (A): -18.2041 15.7910 0.2597 REMARK 3 T TENSOR REMARK 3 T11: 0.4701 T22: 0.6644 REMARK 3 T33: 0.6720 T12: -0.1401 REMARK 3 T13: 0.0522 T23: -0.0378 REMARK 3 L TENSOR REMARK 3 L11: 4.3930 L22: 1.2620 REMARK 3 L33: 5.5628 L12: -1.4466 REMARK 3 L13: -1.0017 L23: 0.6210 REMARK 3 S TENSOR REMARK 3 S11: -0.6095 S12: -1.4966 S13: -0.0746 REMARK 3 S21: 0.9010 S22: -0.4580 S23: 0.0125 REMARK 3 S31: -0.1193 S32: -1.0944 S33: 0.6970 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 31:34) REMARK 3 ORIGIN FOR THE GROUP (A): -22.8821 13.9208 -9.7629 REMARK 3 T TENSOR REMARK 3 T11: 0.3956 T22: 0.6957 REMARK 3 T33: 0.4378 T12: 0.0378 REMARK 3 T13: -0.1072 T23: -0.0582 REMARK 3 L TENSOR REMARK 3 L11: 7.7184 L22: 2.0765 REMARK 3 L33: 3.2916 L12: -1.8808 REMARK 3 L13: 2.4962 L23: 0.5637 REMARK 3 S TENSOR REMARK 3 S11: 0.2971 S12: 0.1801 S13: -0.6982 REMARK 3 S21: 0.1852 S22: 0.0797 S23: 0.5144 REMARK 3 S31: -0.9466 S32: -0.6731 S33: -0.1671 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 35:38) REMARK 3 ORIGIN FOR THE GROUP (A): -23.8178 17.1293 -25.1717 REMARK 3 T TENSOR REMARK 3 T11: 0.9536 T22: 0.5902 REMARK 3 T33: 0.5295 T12: -0.0010 REMARK 3 T13: -0.1477 T23: 0.0682 REMARK 3 L TENSOR REMARK 3 L11: 3.7046 L22: 3.6976 REMARK 3 L33: 2.5770 L12: 1.1976 REMARK 3 L13: 1.2242 L23: -2.0981 REMARK 3 S TENSOR REMARK 3 S11: -0.7316 S12: -0.3674 S13: 0.4529 REMARK 3 S21: -0.0315 S22: 0.2016 S23: -0.2399 REMARK 3 S31: -1.7445 S32: -0.7544 S33: 0.5146 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 39:43) REMARK 3 ORIGIN FOR THE GROUP (A): -31.7080 7.8629 -33.0374 REMARK 3 T TENSOR REMARK 3 T11: 0.5127 T22: 0.4467 REMARK 3 T33: 0.3924 T12: -0.0212 REMARK 3 T13: 0.0421 T23: 0.0750 REMARK 3 L TENSOR REMARK 3 L11: 1.9145 L22: 2.3512 REMARK 3 L33: 2.0369 L12: -1.2449 REMARK 3 L13: 0.7325 L23: 0.1903 REMARK 3 S TENSOR REMARK 3 S11: -0.2403 S12: 0.2234 S13: -0.0918 REMARK 3 S21: -0.3927 S22: 0.1205 S23: 0.0220 REMARK 3 S31: -0.0439 S32: 0.5354 S33: 0.0781 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN B AND RESID 1:7) REMARK 3 ORIGIN FOR THE GROUP (A): -30.5658 12.8975 -25.8106 REMARK 3 T TENSOR REMARK 3 T11: 0.6174 T22: 0.4516 REMARK 3 T33: 0.3581 T12: -0.0624 REMARK 3 T13: -0.0321 T23: 0.0405 REMARK 3 L TENSOR REMARK 3 L11: 0.5070 L22: 0.8180 REMARK 3 L33: 1.2216 L12: -1.0476 REMARK 3 L13: 0.3118 L23: -0.6756 REMARK 3 S TENSOR REMARK 3 S11: -0.3777 S12: 0.1473 S13: 0.2175 REMARK 3 S21: -0.0535 S22: 0.1307 S23: -0.1940 REMARK 3 S31: -0.6890 S32: 0.0862 S33: 0.0967 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN B AND RESID 8:15) REMARK 3 ORIGIN FOR THE GROUP (A): -14.9224 2.3326 -3.8181 REMARK 3 T TENSOR REMARK 3 T11: 0.4262 T22: 0.3767 REMARK 3 T33: 0.5244 T12: -0.0580 REMARK 3 T13: -0.0383 T23: 0.0474 REMARK 3 L TENSOR REMARK 3 L11: -0.1116 L22: 3.0746 REMARK 3 L33: 0.6162 L12: -0.3328 REMARK 3 L13: 0.0103 L23: -0.2820 REMARK 3 S TENSOR REMARK 3 S11: 0.0456 S12: -0.1905 S13: 0.4418 REMARK 3 S21: 0.5737 S22: -0.4214 S23: -0.4682 REMARK 3 S31: 0.0470 S32: -0.0405 S33: 0.3955 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN B AND RESID 16:20) REMARK 3 ORIGIN FOR THE GROUP (A): -0.2282 22.1563 9.4133 REMARK 3 T TENSOR REMARK 3 T11: 0.4093 T22: 0.3500 REMARK 3 T33: 0.4702 T12: -0.0295 REMARK 3 T13: -0.0215 T23: 0.0490 REMARK 3 L TENSOR REMARK 3 L11: 2.0548 L22: 1.7338 REMARK 3 L33: 3.9355 L12: -0.7013 REMARK 3 L13: -1.3473 L23: 1.4534 REMARK 3 S TENSOR REMARK 3 S11: -0.0634 S12: 0.0029 S13: -0.5053 REMARK 3 S21: 0.0372 S22: -0.0266 S23: -0.1175 REMARK 3 S31: 0.8374 S32: -0.0763 S33: -0.0151 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: TLS MODEL BASED ON OUTPUT FROM TLS REMARK 3 MOTION DETERMINATION SERVER. TO REPLACE 2GOZ COORDINATES (DATA REMARK 3 REMAIN THE SAME). CORRECTED ANTI TO SYN BASE CONFORMATION OF C8 REMARK 3 IN CHAIN A. IMPROVED TLS AND WATER MODELS REMARK 4 REMARK 4 3ZD5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-NOV-12. REMARK 100 THE DEPOSITION ID IS D_1290054903. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-FEB-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.919, 0.920, 0.9266 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : ADSC REMARK 200 DATA SCALING SOFTWARE : MOSFLM REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9712 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 55.730 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.22000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: ALL VALUES SAME AS 2GOZ REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE ENZYME AND SUBSTRATE WERE MIXED IN REMARK 280 EQUIMOLAR AMOUNTS IN A SOLUTION CONTAINING 50 MM MES PH 5.5, 1.5 REMARK 280 MM EDTA. THE COMPLEX WAS FORMED BY INCUBATING THE MIXTURE AT 95C REMARK 280 FOR 2 MIN., THEN AT 65C FOR 2 MIN., AND FINALLY AT 27C FOR 5 REMARK 280 MIN. 1 MM MGCL2 WAS INCLUDED IN THE MIXTURE BEFORE THE FINAL REMARK 280 INCUBATION STEP. A 10 MG/ML CONCENTRATION OF RNA WAS USED FOR REMARK 280 THE CRYSTALLIZATION EXPERIMENTS. THE RESERVOIR SOLUTION REMARK 280 CONTAINED 0.5M (NH4)2SO4, 100 MM MES PH 6.5, AND 35% PEG 3350. REMARK 280 AFTER MIXING THE RESERVOIR SOLUTION, THE SALT AND PEG PHASES REMARK 280 WERE ALLOWED TO SEPARATE, AND ONLY THE SALT PHASE WAS USED FOR REMARK 280 THE DROPS. THE CRYSTALS GREW IN HANGING DROPS OF 2 MICROLITERS REMARK 280 AFTER 12 MONTHS OF INCUBATION AT 28C. THE CRYSTALS WERE WASHED REMARK 280 IN THE SALT PHASE OF THE RESERVOIR SOLUTION PRIOR TO CRYO- REMARK 280 FREEZING., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 301K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 24.94300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.60500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 24.94300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.60500 REMARK 290 SMTRY3 4 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: 4570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 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 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 DC B 20 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE (OMC): CLEAVAGE SITE REMARK 600 SUBSTRATE ANALOGUE INHIBITOR REMARK 600 GUANOSINE-5'-DIPHOSPHATE (GDP): 5 PRIME END OF TRANSCRIBED REMARK 600 SEQUENCE. REMARK 600 5-BROMO-URIDINE-5'-MONOPHOSPHATE (5BU): USED FOR MAD REMARK 600 PHASING REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZP8 RELATED DB: PDB REMARK 900 HIGH-RESOLUTION FULL-LENGTH HAMMERHEAD RIBOZYME REMARK 900 RELATED ID: 3ZD4 RELATED DB: PDB REMARK 900 FULL-LENGTH HAMMERHEAD RIBOZYME WITH G12A SUBSTITUTION AT THE REMARK 900 GENERAL BASE POSITION DBREF 3ZD5 A 1 43 PDB 3ZD5 3ZD5 1 43 DBREF 3ZD5 B 1 20 PDB 3ZD5 3ZD5 1 20 SEQRES 1 A 43 GDP G A U G U A C U A C C A SEQRES 2 A 43 G C U G A U G A G U C C C SEQRES 3 A 43 A A A U A G G A C G A A A SEQRES 4 A 43 C G C C SEQRES 1 B 20 G G C G U OMC C U G G 5BU A U SEQRES 2 B 20 C C A A 5BU C DC MODRES 3ZD5 GDP A 1 G GUANOSINE-5'-DIPHOSPHATE MODRES 3ZD5 OMC B 6 C O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE MODRES 3ZD5 5BU B 11 U 5-BROMO-URIDINE-5'-MONOPHOSPHATE MODRES 3ZD5 5BU B 18 U 5-BROMO-URIDINE-5'-MONOPHOSPHATE HET GDP A 1 28 HET OMC B 6 21 HET 5BU B 11 21 HET 5BU B 18 21 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM OMC O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE HETNAM 5BU 5-BROMO-URIDINE-5'-MONOPHOSPHATE FORMUL 1 GDP C10 H15 N5 O11 P2 FORMUL 2 OMC C10 H16 N3 O8 P FORMUL 2 5BU 2(C9 H12 BR N2 O9 P) FORMUL 3 HOH *34(H2 O) LINK O3' GDP A 1 P G A 2 1555 1555 1.59 LINK P OMC B 6 O3' U B 5 1555 1555 1.61 LINK O3' OMC B 6 P C B 7 1555 1555 1.60 LINK O3' 5BU B 11 P A B 12 1555 1555 1.60 LINK P 5BU B 11 O3' G B 10 1555 1555 1.61 LINK O3' 5BU B 18 P C B 19 1555 1555 1.60 LINK P 5BU B 18 O3' A B 17 1555 1555 1.61 LINK O3' C B 19 P DC B 20 1555 1555 1.61 CRYST1 49.886 69.210 60.076 90.00 111.83 90.00 C 1 2 1 4 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 0.020046 0.000000 0.008030 0.00000 SCALE2 0.000000 0.014449 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017931 0.00000 HETATM 1 PB GDP A 1 -5.768 9.158 15.384 1.00106.73 P ANISOU 1 PB GDP A 1 17752 10599 12202 1460 -577 189 P HETATM 2 O1B GDP A 1 -4.575 9.455 14.497 1.00109.92 O ANISOU 2 O1B GDP A 1 18021 10936 12808 1957 -307 -48 O HETATM 3 O2B GDP A 1 -5.294 9.114 16.822 1.00 97.24 O ANISOU 3 O2B GDP A 1 16211 9686 11050 1679 -764 508 O HETATM 4 O3B GDP A 1 -6.379 7.825 14.997 1.00113.44 O ANISOU 4 O3B GDP A 1 19414 10770 12918 1231 -574 259 O HETATM 5 O3A GDP A 1 -6.878 10.325 15.228 1.00136.52 O ANISOU 5 O3A GDP A 1 21171 14870 15833 912 -655 74 O HETATM 6 PA GDP A 1 -7.853 10.515 13.948 1.00 77.50 P ANISOU 6 PA GDP A 1 13944 7278 8225 416 -606 -103 P HETATM 7 O1A GDP A 1 -8.636 9.266 13.611 1.00 81.57 O ANISOU 7 O1A GDP A 1 15189 7263 8540 23 -686 15 O HETATM 8 O2A GDP A 1 -7.087 11.023 12.742 1.00 74.36 O ANISOU 8 O2A GDP A 1 13499 6829 7924 644 -383 -425 O HETATM 9 O5' GDP A 1 -8.825 11.671 14.507 1.00 75.74 O ANISOU 9 O5' GDP A 1 13148 7665 7965 59 -712 -4 O HETATM 10 C5' GDP A 1 -10.188 11.407 14.827 1.00 71.22 C ANISOU 10 C5' GDP A 1 12663 7166 7232 -473 -861 247 C HETATM 11 C4' GDP A 1 -10.738 12.595 15.603 1.00 56.20 C ANISOU 11 C4' GDP A 1 10132 5845 5377 -559 -834 328 C HETATM 12 O4' GDP A 1 -9.850 12.944 16.671 1.00 50.96 O ANISOU 12 O4' GDP A 1 9212 5387 4765 -177 -798 292 O HETATM 13 C3' GDP A 1 -10.788 13.845 14.746 1.00 52.81 C ANISOU 13 C3' GDP A 1 9310 5677 5078 -563 -704 140 C HETATM 14 O3' GDP A 1 -12.007 13.995 14.026 1.00 54.59 O ANISOU 14 O3' GDP A 1 9498 5983 5262 -1044 -761 305 O HETATM 15 C2' GDP A 1 -10.632 14.968 15.744 1.00 46.36 C ANISOU 15 C2' GDP A 1 7979 5295 4339 -376 -587 109 C HETATM 16 O2' GDP A 1 -11.886 15.208 16.388 1.00 49.09 O ANISOU 16 O2' GDP A 1 8124 5895 4634 -695 -564 362 O HETATM 17 C1' GDP A 1 -9.688 14.366 16.753 1.00 46.58 C ANISOU 17 C1' GDP A 1 8144 5247 4307 -79 -653 126 C HETATM 18 N9 GDP A 1 -8.313 14.755 16.356 1.00 49.52 N ANISOU 18 N9 GDP A 1 8403 5610 4804 335 -587 -116 N HETATM 19 C8 GDP A 1 -7.339 13.935 15.912 1.00 51.80 C ANISOU 19 C8 GDP A 1 8961 5568 5152 647 -603 -166 C HETATM 20 N7 GDP A 1 -6.199 14.624 15.640 1.00 44.42 N ANISOU 20 N7 GDP A 1 7737 4799 4342 982 -510 -350 N HETATM 21 C5 GDP A 1 -6.451 15.924 15.894 1.00 43.73 C ANISOU 21 C5 GDP A 1 7250 5115 4250 842 -455 -447 C HETATM 22 C6 GDP A 1 -5.696 17.195 15.812 1.00 48.90 C ANISOU 22 C6 GDP A 1 7505 6103 4972 968 -364 -642 C HETATM 23 O6 GDP A 1 -4.505 17.221 15.430 1.00 62.72 O ANISOU 23 O6 GDP A 1 9150 7870 6811 1272 -343 -730 O HETATM 24 N1 GDP A 1 -6.318 18.319 16.173 1.00 45.45 N ANISOU 24 N1 GDP A 1 6829 5938 4502 749 -280 -701 N HETATM 25 C2 GDP A 1 -7.592 18.326 16.596 1.00 42.45 C ANISOU 25 C2 GDP A 1 6492 5577 4060 471 -246 -567 C HETATM 26 N2 GDP A 1 -8.145 19.510 16.956 1.00 42.57 N ANISOU 26 N2 GDP A 1 6263 5829 4083 337 -73 -627 N HETATM 27 N3 GDP A 1 -8.346 17.208 16.689 1.00 43.47 N ANISOU 27 N3 GDP A 1 6903 5489 4123 318 -349 -355 N HETATM 28 C4 GDP A 1 -7.838 16.000 16.363 1.00 45.90 C ANISOU 28 C4 GDP A 1 7546 5471 4423 459 -473 -299 C