HEADER RNA 27-FEB-13 4JF2 TITLE STRUCTURE OF A CLASS II PREQ1 RIBOSWITCH REVEALS LIGAND RECOGNITION BY TITLE 2 A NEW FOLD COMPND MOL_ID: 1; COMPND 2 MOLECULE: PREQ1-II RIBOSWITCH; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: LACTOBACILLUS RHAMNOSUS; SOURCE 4 ORGANISM_TAXID: 47715; SOURCE 5 OTHER_DETAILS: IN VITRO TRANSCRIPTION KEYWDS RIBOSWITCH, H-TYPE PSEUDOKNOT, RNA EXPDTA X-RAY DIFFRACTION AUTHOR J.A.LIBERMAN,J.E.WEDEKIND REVDAT 5 28-FEB-24 4JF2 1 REMARK LINK REVDAT 4 15-NOV-17 4JF2 1 REMARK REVDAT 3 12-JUN-13 4JF2 1 JRNL REVDAT 2 24-APR-13 4JF2 1 JRNL REVDAT 1 17-APR-13 4JF2 0 JRNL AUTH J.A.LIBERMAN,M.SALIM,J.KRUCINSKA,J.E.WEDEKIND JRNL TITL STRUCTURE OF A CLASS II PREQ1 RIBOSWITCH REVEALS LIGAND JRNL TITL 2 RECOGNITION BY A NEW FOLD. JRNL REF NAT.CHEM.BIOL. V. 9 353 2013 JRNL REFN ISSN 1552-4450 JRNL PMID 23584677 JRNL DOI 10.1038/NCHEMBIO.1231 REMARK 2 REMARK 2 RESOLUTION. 2.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.2_1290 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) : 2.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 11247 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.930 REMARK 3 FREE R VALUE TEST SET COUNT : 1117 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 25.6971 - 4.5529 0.97 1336 148 0.2040 0.2396 REMARK 3 2 4.5529 - 3.6170 0.99 1291 142 0.1527 0.1841 REMARK 3 3 3.6170 - 3.1607 0.99 1282 144 0.1616 0.2006 REMARK 3 4 3.1607 - 2.8721 1.00 1273 142 0.1923 0.2804 REMARK 3 5 2.8721 - 2.6665 0.99 1277 141 0.2424 0.2930 REMARK 3 6 2.6665 - 2.5094 1.00 1279 140 0.2440 0.3698 REMARK 3 7 2.5094 - 2.3838 1.00 1260 141 0.2341 0.3219 REMARK 3 8 2.3838 - 2.2801 0.88 1132 119 0.2319 0.3250 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.60 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.320 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.140 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.59 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 : 0.008 1880 REMARK 3 ANGLE : 1.368 2935 REMARK 3 CHIRALITY : 0.053 384 REMARK 3 PLANARITY : 0.008 78 REMARK 3 DIHEDRAL : 14.620 925 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.2137 31.6747 29.1420 REMARK 3 T TENSOR REMARK 3 T11: 0.2255 T22: 0.3680 REMARK 3 T33: 0.2024 T12: -0.0052 REMARK 3 T13: 0.0754 T23: -0.0420 REMARK 3 L TENSOR REMARK 3 L11: -0.5179 L22: -0.1591 REMARK 3 L33: 0.6491 L12: -0.6191 REMARK 3 L13: -1.2522 L23: 0.2211 REMARK 3 S TENSOR REMARK 3 S11: 0.2018 S12: 0.2089 S13: 0.1095 REMARK 3 S21: -0.1130 S22: 0.0031 S23: -0.1040 REMARK 3 S31: -0.3180 S32: -0.1889 S33: 0.1290 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 30 THROUGH 35 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.4734 32.7780 64.0840 REMARK 3 T TENSOR REMARK 3 T11: 0.4912 T22: 0.4698 REMARK 3 T33: 0.3358 T12: -0.2093 REMARK 3 T13: 0.2406 T23: -0.2899 REMARK 3 L TENSOR REMARK 3 L11: 2.8075 L22: 3.0360 REMARK 3 L33: 2.1364 L12: -2.7548 REMARK 3 L13: 1.8026 L23: -1.1173 REMARK 3 S TENSOR REMARK 3 S11: 0.3067 S12: -1.5598 S13: 0.5946 REMARK 3 S21: 1.2373 S22: 0.0301 S23: 0.8607 REMARK 3 S31: -0.0533 S32: -0.5483 S33: 2.3335 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 36 THROUGH 69 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.5276 21.2332 46.5271 REMARK 3 T TENSOR REMARK 3 T11: 0.1841 T22: 0.1414 REMARK 3 T33: 0.1778 T12: -0.0042 REMARK 3 T13: 0.0134 T23: -0.0385 REMARK 3 L TENSOR REMARK 3 L11: 3.3374 L22: 1.2589 REMARK 3 L33: 0.3059 L12: 1.0941 REMARK 3 L13: -0.9155 L23: -0.7364 REMARK 3 S TENSOR REMARK 3 S11: -0.0601 S12: 0.2208 S13: -0.3571 REMARK 3 S21: -0.1682 S22: -0.0351 S23: -0.1818 REMARK 3 S31: -0.0053 S32: -0.0415 S33: -0.1288 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 70 THROUGH 77 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.9547 23.7071 65.0851 REMARK 3 T TENSOR REMARK 3 T11: 0.3061 T22: 0.0279 REMARK 3 T33: -0.1328 T12: -0.1663 REMARK 3 T13: 0.0712 T23: 0.0482 REMARK 3 L TENSOR REMARK 3 L11: 6.1998 L22: 5.6097 REMARK 3 L33: 2.5072 L12: -0.2817 REMARK 3 L13: -0.1905 L23: -0.0020 REMARK 3 S TENSOR REMARK 3 S11: -0.4591 S12: -1.8102 S13: 0.3308 REMARK 3 S21: 1.3195 S22: 0.0166 S23: 0.4016 REMARK 3 S31: -0.3334 S32: 0.7271 S33: -1.8229 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4JF2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000077964. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAR-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 : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.127 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : RH COATED FLAT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : Q315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12133 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.3000 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) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 67.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.28100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14.8% PEG 6000, 160 MM MGCL2, 50 MM NA REMARK 280 -CACODYLATE PH 6.0, 1 MM SPERMINE, 150 MM CSCL, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 49.06000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.06000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 29.01800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 42.98600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 29.01800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 42.98600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 49.06000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 29.01800 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 42.98600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 49.06000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 29.01800 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 42.98600 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 C2 U A 35 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 261 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 O1G GTP A 1 O HOH A 236 2.19 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 U A 35 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 A A 43 N1 - C6 - N6 ANGL. DEV. = -3.6 DEGREES REMARK 500 U A 53 O5' - P - OP1 ANGL. DEV. = -10.4 DEGREES REMARK 500 C A 66 C6 - N1 - C2 ANGL. DEV. = -2.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 CS A 108 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP A 1 O1G REMARK 620 2 GTP A 1 O3B 45.9 REMARK 620 3 HOH A 265 O 125.3 80.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 115 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP A 1 O3G REMARK 620 2 G A 16 O6 86.6 REMARK 620 3 U A 17 O4 121.7 63.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 116 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP A 1 O1A REMARK 620 2 GTP A 1 O2G 87.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 105 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 5 O2 REMARK 620 2 C A 5 O2' 70.7 REMARK 620 3 U A 17 O2 68.6 130.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 110 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 6 O2 REMARK 620 2 C A 6 O2' 75.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 102 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 9 O3' REMARK 620 2 A A 10 N7 78.7 REMARK 620 3 A A 10 OP1 43.8 73.4 REMARK 620 4 HOH A 263 O 94.4 143.8 124.7 REMARK 620 5 HOH A 332 O 95.6 71.5 52.3 144.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 120 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 10 OP1 REMARK 620 2 HOH A 331 O 90.2 REMARK 620 3 HOH A 332 O 90.2 179.6 REMARK 620 4 HOH A 333 O 179.0 89.5 90.1 REMARK 620 5 HOH A 334 O 90.1 89.8 90.0 90.8 REMARK 620 6 HOH A 335 O 90.5 91.0 89.1 88.5 178.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 113 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 22 O3' REMARK 620 2 G A 23 OP1 44.6 REMARK 620 3 U A 53 O2 117.7 113.4 REMARK 620 4 HOH A 243 O 123.1 78.5 78.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 109 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 24 O2' REMARK 620 2 A A 52 O2' 118.3 REMARK 620 3 HOH A 345 O 93.2 86.4 REMARK 620 4 HOH A 346 O 149.0 76.1 58.8 REMARK 620 5 HOH A 347 O 77.3 145.5 61.0 77.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 112 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 37 O2' REMARK 620 2 C A 37 O2 73.4 REMARK 620 3 C A 38 O4' 69.3 77.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 117 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 41 OP1 REMARK 620 2 HOH A 312 O 179.0 REMARK 620 3 HOH A 313 O 91.1 89.9 REMARK 620 4 HOH A 314 O 90.0 90.1 88.6 REMARK 620 5 HOH A 315 O 92.1 87.8 90.5 177.7 REMARK 620 6 HOH A 316 O 87.6 91.4 178.7 91.5 89.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 119 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 42 OP1 REMARK 620 2 HOH A 326 O 91.0 REMARK 620 3 HOH A 327 O 89.2 179.1 REMARK 620 4 HOH A 328 O 87.3 89.6 91.3 REMARK 620 5 HOH A 329 O 91.0 89.2 89.9 177.9 REMARK 620 6 HOH A 330 O 178.6 89.6 90.2 91.5 90.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 106 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 48 O2' REMARK 620 2 C A 48 O2 72.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 103 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 51 O3' REMARK 620 2 A A 52 OP2 47.0 REMARK 620 3 U A 53 O4 76.4 97.8 REMARK 620 4 G A 65 O5' 142.8 118.9 72.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 107 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 51 O2 REMARK 620 2 U A 53 O4 67.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 118 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 53 OP1 REMARK 620 2 HOH A 317 O 89.2 REMARK 620 3 HOH A 318 O 88.4 89.8 REMARK 620 4 HOH A 319 O 91.0 89.0 178.7 REMARK 620 5 HOH A 320 O 178.4 91.3 90.0 90.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 104 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 58 O6 REMARK 620 2 G A 59 O6 59.1 REMARK 620 3 HOH A 348 O 74.2 98.6 REMARK 620 4 HOH A 349 O 76.2 125.9 96.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CS A 111 CS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 66 O2 REMARK 620 2 C A 66 O2' 76.0 REMARK 620 3 HOH A 303 O 96.9 138.6 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PRF A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 110 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 111 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 112 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 113 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 114 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 115 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CS A 116 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 117 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 118 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 119 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 120 DBREF 4JF2 A 1 77 PDB 4JF2 4JF2 1 77 SEQRES 1 A 77 GTP G A A C C G C G A A A G SEQRES 2 A 77 C G G U U C C A C G A C G SEQRES 3 A 77 A U A C U U A U U U C C U SEQRES 4 A 77 U U G A U C G U C G U U A SEQRES 5 A 77 U U A C U G G C U U C G G SEQRES 6 A 77 C C A C A A A G G A G A MODRES 4JF2 GTP A 1 G GUANOSINE-5'-TRIPHOSPHATE HET GTP A 1 32 HET PRF A 101 13 HET CS A 102 1 HET CS A 103 1 HET CS A 104 1 HET CS A 105 1 HET CS A 106 1 HET CS A 107 1 HET CS A 108 1 HET CS A 109 1 HET CS A 110 1 HET CS A 111 1 HET CS A 112 1 HET CS A 113 1 HET CS A 114 1 HET CS A 115 1 HET CS A 116 1 HET MG A 117 1 HET MG A 118 1 HET MG A 119 1 HET MG A 120 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM PRF 7-DEAZA-7-AMINOMETHYL-GUANINE HETNAM CS CESIUM ION HETNAM MG MAGNESIUM ION FORMUL 1 GTP C10 H16 N5 O14 P3 FORMUL 2 PRF C7 H9 N5 O FORMUL 3 CS 15(CS 1+) FORMUL 18 MG 4(MG 2+) FORMUL 22 HOH *152(H2 O) LINK O3' GTP A 1 P G A 2 1555 1555 1.60 LINK O1G GTP A 1 CS CS A 108 1555 1555 3.09 LINK O3B GTP A 1 CS CS A 108 1555 1555 3.38 LINK O3G GTP A 1 CS CS A 115 1555 1555 3.30 LINK O1A GTP A 1 CS CS A 116 1555 1555 3.21 LINK O2G GTP A 1 CS CS A 116 1555 1555 3.32 LINK O2 C A 5 CS CS A 105 1555 1555 3.08 LINK O2' C A 5 CS CS A 105 1555 1555 3.09 LINK O2 C A 6 CS CS A 110 1555 1555 2.98 LINK O2' C A 6 CS CS A 110 1555 1555 3.25 LINK O3' G A 9 CS CS A 102 1555 1555 3.20 LINK N7 A A 10 CS CS A 102 1555 1555 3.18 LINK OP1 A A 10 CS CS A 102 1555 1555 3.38 LINK OP1 A A 10 MG MG A 120 1555 1555 2.06 LINK O2' A A 11 CS CS A 114 1555 1555 3.17 LINK O6 G A 16 CS CS A 115 1555 1555 3.37 LINK O2 U A 17 CS CS A 105 1555 1555 3.28 LINK O4 U A 17 CS CS A 115 1555 1555 3.00 LINK O3' C A 22 CS CS A 113 1555 1555 3.31 LINK OP1 G A 23 CS CS A 113 1555 1555 3.26 LINK O2' A A 24 CS CS A 109 1555 1555 3.23 LINK O2' C A 37 CS CS A 112 1555 1555 2.98 LINK O2 C A 37 CS CS A 112 1555 1555 3.18 LINK O4' C A 38 CS CS A 112 1555 1555 3.31 LINK OP1 U A 41 MG MG A 117 1555 1555 2.10 LINK OP1 G A 42 MG MG A 119 1555 1555 1.98 LINK O2' C A 48 CS CS A 106 1555 1555 3.01 LINK O2 C A 48 CS CS A 106 1555 1555 3.32 LINK O3' U A 51 CS CS A 103 1555 1555 3.30 LINK O2 U A 51 CS CS A 107 1555 1555 3.23 LINK OP2 A A 52 CS CS A 103 1555 1555 2.98 LINK O2' A A 52 CS CS A 109 1555 1555 3.43 LINK O4 U A 53 CS CS A 103 1555 1555 3.14 LINK O4 U A 53 CS CS A 107 1555 1555 3.07 LINK O2 U A 53 CS CS A 113 1555 1555 2.95 LINK OP1 U A 53 MG MG A 118 1555 1555 2.08 LINK O6 G A 58 CS CS A 104 1555 1555 3.10 LINK O6 G A 59 CS CS A 104 1555 1555 3.31 LINK O5' G A 65 CS CS A 103 1555 1555 3.09 LINK O2 C A 66 CS CS A 111 1555 1555 2.90 LINK O2' C A 66 CS CS A 111 1555 1555 3.18 LINK CS CS A 102 O HOH A 263 1555 1555 3.27 LINK CS CS A 102 O HOH A 332 1555 1555 3.35 LINK CS CS A 104 O HOH A 348 1555 1555 2.47 LINK CS CS A 104 O HOH A 349 1555 1555 3.08 LINK CS CS A 108 O HOH A 265 1555 1555 3.48 LINK CS CS A 109 O HOH A 345 1555 1555 3.18 LINK CS CS A 109 O HOH A 346 1555 1555 3.10 LINK CS CS A 109 O HOH A 347 1555 1555 2.76 LINK CS CS A 111 O HOH A 303 1555 1555 3.14 LINK CS CS A 113 O HOH A 243 1555 1555 3.03 LINK MG MG A 117 O HOH A 312 1555 1555 2.08 LINK MG MG A 117 O HOH A 313 1555 1555 2.13 LINK MG MG A 117 O HOH A 314 1555 1555 2.11 LINK MG MG A 117 O HOH A 315 1555 1555 2.05 LINK MG MG A 117 O HOH A 316 1555 1555 2.11 LINK MG MG A 118 O HOH A 317 1555 1555 2.10 LINK MG MG A 118 O HOH A 318 1555 1555 2.11 LINK MG MG A 118 O HOH A 319 1555 1555 2.11 LINK MG MG A 118 O HOH A 320 1555 1555 2.07 LINK MG MG A 119 O HOH A 326 1555 1555 2.07 LINK MG MG A 119 O HOH A 327 1555 1555 2.09 LINK MG MG A 119 O HOH A 328 1555 1555 2.12 LINK MG MG A 119 O HOH A 329 1555 1555 2.10 LINK MG MG A 119 O HOH A 330 1555 1555 2.04 LINK MG MG A 120 O HOH A 331 1555 1555 2.08 LINK MG MG A 120 O HOH A 332 1555 1555 2.13 LINK MG MG A 120 O HOH A 333 1555 1555 2.01 LINK MG MG A 120 O HOH A 334 1555 1555 2.07 LINK MG MG A 120 O HOH A 335 1555 1555 2.05 SITE 1 AC1 7 C A 30 U A 31 U A 41 G A 42 SITE 2 AC1 7 A A 70 A A 71 HOH A 203 SITE 1 AC2 3 G A 9 A A 10 U A 57 SITE 1 AC3 5 U A 51 A A 52 U A 53 G A 64 SITE 2 AC3 5 G A 65 SITE 1 AC4 4 G A 58 G A 59 HOH A 348 HOH A 349 SITE 1 AC5 3 C A 5 C A 6 U A 17 SITE 1 AC6 3 C A 48 G A 49 U A 57 SITE 1 AC7 2 U A 51 U A 53 SITE 1 AC8 1 GTP A 1 SITE 1 AC9 4 A A 24 A A 52 C A 69 HOH A 347 SITE 1 BC1 2 C A 6 G A 7 SITE 1 BC2 2 C A 66 C A 67 SITE 1 BC3 2 C A 37 C A 38 SITE 1 BC4 4 C A 22 G A 23 U A 53 HOH A 243 SITE 1 BC5 2 A A 11 U A 40 SITE 1 BC6 3 GTP A 1 G A 16 U A 17 SITE 1 BC7 2 GTP A 1 G A 2 SITE 1 BC8 6 U A 41 HOH A 312 HOH A 313 HOH A 314 SITE 2 BC8 6 HOH A 315 HOH A 316 SITE 1 BC9 6 U A 53 A A 70 HOH A 317 HOH A 318 SITE 2 BC9 6 HOH A 319 HOH A 320 SITE 1 CC1 6 G A 42 HOH A 326 HOH A 327 HOH A 328 SITE 2 CC1 6 HOH A 329 HOH A 330 SITE 1 CC2 6 A A 10 HOH A 331 HOH A 332 HOH A 333 SITE 2 CC2 6 HOH A 334 HOH A 335 CRYST1 58.036 85.972 98.120 90.00 90.00 90.00 C 2 2 21 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 0.017231 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011632 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010192 0.00000 HETATM 1 PG GTP A 1 13.351 27.409 25.103 0.50 59.57 P ANISOU 1 PG GTP A 1 6943 8838 6852 -144 578 -486 P HETATM 2 O1G GTP A 1 14.846 27.644 24.996 0.50 60.34 O ANISOU 2 O1G GTP A 1 7087 8827 7011 -205 613 -500 O HETATM 3 O2G GTP A 1 12.926 26.533 23.942 0.50 59.49 O ANISOU 3 O2G GTP A 1 6883 8933 6788 -127 544 -471 O HETATM 4 O3G GTP A 1 12.654 28.749 25.037 0.50 58.14 O ANISOU 4 O3G GTP A 1 6814 8639 6639 -43 638 -437 O HETATM 5 O3B GTP A 1 13.067 26.653 26.504 1.00 67.16 O ANISOU 5 O3B GTP A 1 7860 9819 7837 -204 530 -542 O HETATM 6 PB GTP A 1 11.693 26.884 27.329 1.00 95.48 P ANISOU 6 PB GTP A 1 11429 13451 11397 -150 510 -539 P HETATM 7 O1B GTP A 1 11.884 27.870 28.459 1.00 95.25 O ANISOU 7 O1B GTP A 1 11453 13321 11417 -147 541 -535 O HETATM 8 O2B GTP A 1 10.601 27.363 26.400 1.00 95.97 O ANISOU 8 O2B GTP A 1 11486 13598 11381 -52 521 -484 O HETATM 9 O3A GTP A 1 11.293 25.429 27.905 1.00 84.09 O ANISOU 9 O3A GTP A 1 9917 12079 9952 -201 454 -603 O HETATM 10 PA GTP A 1 12.356 24.467 28.641 1.00 48.03 P ANISOU 10 PA GTP A 1 5341 7474 5436 -292 445 -668 P HETATM 11 O1A GTP A 1 13.305 23.923 27.596 1.00 51.31 O ANISOU 11 O1A GTP A 1 5754 7903 5837 -340 453 -659 O HETATM 12 O2A GTP A 1 13.088 25.145 29.767 1.00 50.41 O ANISOU 12 O2A GTP A 1 5682 7669 5804 -310 463 -688 O HETATM 13 O5' GTP A 1 11.519 23.272 29.304 1.00 28.44 O ANISOU 13 O5' GTP A 1 2806 5062 2937 -303 417 -729 O HETATM 14 C5' GTP A 1 10.542 22.578 28.578 1.00 24.11 C ANISOU 14 C5' GTP A 1 2208 4628 2326 -288 402 -733 C HETATM 15 C4' GTP A 1 9.234 22.481 29.353 1.00 27.96 C ANISOU 15 C4' GTP A 1 2671 5145 2806 -244 381 -762 C HETATM 16 O4' GTP A 1 9.267 22.968 30.683 1.00 30.82 O ANISOU 16 O4' GTP A 1 3068 5413 3230 -227 379 -776 O HETATM 17 C3' GTP A 1 8.137 23.283 28.693 1.00 29.32 C ANISOU 17 C3' GTP A 1 2832 5385 2923 -168 372 -708 C HETATM 18 O3' GTP A 1 7.624 22.520 27.640 1.00 27.78 O ANISOU 18 O3' GTP A 1 2589 5295 2670 -174 354 -715 O HETATM 19 C2' GTP A 1 7.131 23.408 29.804 1.00 30.26 C ANISOU 19 C2' GTP A 1 2950 5488 3059 -129 353 -729 C HETATM 20 O2' GTP A 1 6.371 22.222 29.819 1.00 34.42 O ANISOU 20 O2' GTP A 1 3438 6065 3577 -151 320 -783 O HETATM 21 C1' GTP A 1 7.999 23.521 31.043 1.00 26.91 C ANISOU 21 C1' GTP A 1 2570 4932 2720 -161 360 -753 C HETATM 22 N9 GTP A 1 8.257 24.962 31.214 1.00 24.59 N ANISOU 22 N9 GTP A 1 2338 4556 2450 -123 374 -679 N HETATM 23 C8 GTP A 1 9.503 25.544 31.212 1.00 19.48 C ANISOU 23 C8 GTP A 1 1733 3824 1843 -156 404 -662 C HETATM 24 N7 GTP A 1 9.353 26.882 31.360 1.00 19.79 N ANISOU 24 N7 GTP A 1 1830 3804 1886 -110 431 -596 N HETATM 25 C5 GTP A 1 8.038 27.169 31.472 1.00 20.13 C ANISOU 25 C5 GTP A 1 1870 3893 1887 -43 415 -559 C HETATM 26 C6 GTP A 1 7.345 28.370 31.660 1.00 20.99 C ANISOU 26 C6 GTP A 1 2033 3975 1967 25 440 -479 C HETATM 27 O6 GTP A 1 7.973 29.441 31.740 1.00 20.28 O ANISOU 27 O6 GTP A 1 2009 3801 1894 28 496 -433 O HETATM 28 N1 GTP A 1 5.963 28.339 31.746 1.00 19.39 N ANISOU 28 N1 GTP A 1 1812 3844 1712 88 412 -453 N HETATM 29 C2 GTP A 1 5.294 27.130 31.627 1.00 23.63 C ANISOU 29 C2 GTP A 1 2273 4476 2230 77 363 -519 C HETATM 30 N2 GTP A 1 3.962 27.051 31.677 1.00 19.28 N ANISOU 30 N2 GTP A 1 1697 4004 1625 133 336 -508 N HETATM 31 N3 GTP A 1 5.990 25.959 31.451 1.00 18.77 N ANISOU 31 N3 GTP A 1 1609 3880 1644 5 350 -602 N HETATM 32 C4 GTP A 1 7.337 25.968 31.375 1.00 21.44 C ANISOU 32 C4 GTP A 1 1969 4151 2028 -52 374 -615 C