HEADER RNA 13-AUG-08 3E5E TITLE CRYSTAL STRUCTURES OF THE SMK BOX (SAM-III) RIBOSWITCH WITH SAH COMPND MOL_ID: 1; COMPND 2 MOLECULE: SMK BOX (SAM-III) RIBOSWITCH FOR RNA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: RNA WAS PREPARED BY IN VITRO TRANSCRIPTION KEYWDS SMK SAM RIBOSWITCH SHINE-DELGARNO TRANSLATION REGULATION, RNA EXPDTA X-RAY DIFFRACTION AUTHOR C.LU REVDAT 4 30-AUG-23 3E5E 1 REMARK LINK REVDAT 3 24-FEB-09 3E5E 1 VERSN REVDAT 2 21-OCT-08 3E5E 1 JRNL REVDAT 1 07-OCT-08 3E5E 0 JRNL AUTH C.LU,A.M.SMITH,R.T.FUCHS,F.DING,K.RAJASHANKAR,T.M.HENKIN, JRNL AUTH 2 A.KE JRNL TITL CRYSTAL STRUCTURES OF THE SAM-III/S(MK) RIBOSWITCH REVEAL JRNL TITL 2 THE SAM-DEPENDENT TRANSLATION INHIBITION MECHANISM. JRNL REF NAT.STRUCT.MOL.BIOL. V. 15 1076 2008 JRNL REFN ISSN 1545-9993 JRNL PMID 18806797 JRNL DOI 10.1038/NSMB.1494 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1615854.680 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 4922 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) : 0.222 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 229 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.017 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 750 REMARK 3 BIN R VALUE (WORKING SET) : 0.2790 REMARK 3 BIN FREE R VALUE : 0.2830 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 39 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.045 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 1155 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 5 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -9.19000 REMARK 3 B22 (A**2) : -9.19000 REMARK 3 B33 (A**2) : 18.38000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.34 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.25 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.753 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 18.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.470 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED 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 : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 54.26 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 : ION.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 4 : GTP.PARAM REMARK 3 PARAMETER FILE 5 : SAH.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : ION.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : GTP.TOP REMARK 3 TOPOLOGY FILE 5 : SAH.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED, REFMAC WAS REMARK 3 ALSO USED FOR REFINEMENT REMARK 4 REMARK 4 3E5E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-AUG-08. REMARK 100 THE DEPOSITION ID IS D_1000048896. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5258 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 37.800 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.2 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : 0.09900 REMARK 200 FOR THE DATA SET : 21.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.16000 REMARK 200 R SYM FOR SHELL (I) : 0.16000 REMARK 200 FOR SHELL : 6.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3E5C WITHOUT SAM OR ION OR WATER REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40 MM SODIUM CACODYLATE, 80 MM SRCL, REMARK 280 15% MPD, 2 MM SPERMINE-HCL, PH 7, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 49.20900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 49.20900 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.19650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 49.20900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 21.59825 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 49.20900 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 64.79475 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 49.20900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 64.79475 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.20900 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 21.59825 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 49.20900 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 49.20900 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 43.19650 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 49.20900 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 49.20900 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 43.19650 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 49.20900 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 64.79475 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 49.20900 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 21.59825 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 49.20900 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 21.59825 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 49.20900 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 64.79475 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 49.20900 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 49.20900 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 43.19650 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 GTP A 1 O3' U A 2 P 0.096 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 G A 36 O4' - C1' - N9 ANGL. DEV. = 7.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 SAH A 220 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 SR A 210 SR REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 38 OP2 REMARK 620 2 SAH A 220 N 71.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SR A 212 SR REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 38 OP2 REMARK 620 2 SAH A 220 N 71.8 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 219 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 210 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH A 220 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3E5C RELATED DB: PDB REMARK 900 THE SAME RNA IN COMPLEX WITH SAM REMARK 900 RELATED ID: 3E5F RELATED DB: PDB REMARK 900 THE SAME RNA IN COMPLEX WITH EEM DBREF 3E5E A 1 53 PDB 3E5E 3E5E 1 53 SEQRES 1 A 53 GTP U U C C C G A A A G G A SEQRES 2 A 53 U G G C G G A A A C G C C SEQRES 3 A 53 A G A U G C C U U G U A A SEQRES 4 A 53 C C G A A A G G G G G A A SEQRES 5 A 53 U MODRES 3E5E GTP A 1 G GUANOSINE-5'-TRIPHOSPHATE HET GTP A 1 32 HET SR A 201 1 HET SR A 202 1 HET SR A 203 1 HET SR A 204 1 HET SR A 205 1 HET SR A 206 1 HET SR A 207 1 HET SR A 208 1 HET SR A 219 1 HET SR A 210 1 HET SR A 211 1 HET SR A 212 1 HET SAH A 220 26 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM SR STRONTIUM ION HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE FORMUL 1 GTP C10 H16 N5 O14 P3 FORMUL 2 SR 12(SR 2+) FORMUL 14 SAH C14 H20 N6 O5 S FORMUL 15 HOH *5(H2 O) LINK O3' GTP A 1 P U A 2 1555 1555 1.70 LINK O4 U A 14 SR B SR A 211 1555 1555 2.76 LINK O4 U A 14 SR A SR A 219 1555 1555 2.76 LINK OP2 A A 38 SR A SR A 210 1555 1555 2.56 LINK OP2 A A 38 SR B SR A 212 1555 1555 2.56 LINK SR SR A 206 O HOH A 222 1555 1555 2.44 LINK SR A SR A 210 N SAH A 220 1555 1555 2.28 LINK SR B SR A 212 N SAH A 220 1555 1555 2.28 SITE 1 AC1 1 G A 46 SITE 1 AC2 2 G A 19 A A 21 SITE 1 AC3 2 C A 6 HOH A 222 SITE 1 AC4 2 U A 34 G A 36 SITE 1 AC5 1 A A 38 SITE 1 AC6 2 U A 14 G A 15 SITE 1 AC7 2 A A 38 A A 39 SITE 1 AC8 2 U A 14 G A 15 SITE 1 AC9 2 A A 38 A A 39 SITE 1 BC1 7 G A 7 U A 37 A A 38 G A 47 SITE 2 BC1 7 G A 48 HOH A 221 HOH A 223 CRYST1 98.418 98.418 86.393 90.00 90.00 90.00 I 41 2 2 16 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 0.010161 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010161 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011575 0.00000 HETATM 1 PG GTP A 1 -14.177 33.386 -23.828 1.00 77.92 P HETATM 2 O1G GTP A 1 -12.925 32.579 -23.523 1.00 77.13 O HETATM 3 O2G GTP A 1 -13.877 34.873 -23.722 1.00 77.56 O HETATM 4 O3G GTP A 1 -15.193 33.023 -22.761 1.00 77.17 O HETATM 5 O3B GTP A 1 -14.812 33.063 -25.303 1.00 72.80 O HETATM 6 PB GTP A 1 -14.030 32.807 -26.705 1.00 69.09 P HETATM 7 O1B GTP A 1 -14.311 31.397 -27.181 1.00 69.43 O HETATM 8 O2B GTP A 1 -14.572 33.759 -27.748 1.00 67.23 O HETATM 9 O3A GTP A 1 -12.425 33.046 -26.419 1.00 66.36 O HETATM 10 PA GTP A 1 -11.168 32.015 -26.124 1.00 62.09 P HETATM 11 O1A GTP A 1 -11.403 31.171 -24.883 1.00 60.52 O HETATM 12 O2A GTP A 1 -10.836 31.132 -27.309 1.00 61.59 O HETATM 13 O5' GTP A 1 -9.927 33.020 -25.871 1.00 57.83 O HETATM 14 C5' GTP A 1 -9.177 33.557 -26.944 1.00 51.79 C HETATM 15 C4' GTP A 1 -8.449 35.000 -26.467 1.00 42.76 C HETATM 16 O4' GTP A 1 -9.449 35.396 -25.577 1.00 40.33 O HETATM 17 C3' GTP A 1 -7.378 34.886 -25.430 1.00 41.65 C HETATM 18 O3' GTP A 1 -6.121 34.455 -25.965 1.00 42.77 O HETATM 19 C2' GTP A 1 -7.518 36.366 -25.087 1.00 40.01 C HETATM 20 O2' GTP A 1 -7.073 37.224 -26.092 1.00 41.46 O HETATM 21 C1' GTP A 1 -9.059 36.528 -24.931 1.00 43.03 C HETATM 22 N9 GTP A 1 -9.797 36.208 -23.700 1.00 38.35 N HETATM 23 C8 GTP A 1 -10.788 35.267 -23.564 1.00 36.53 C HETATM 24 N7 GTP A 1 -11.222 35.286 -22.287 1.00 34.70 N HETATM 25 C5 GTP A 1 -10.524 36.225 -21.617 1.00 34.43 C HETATM 26 C6 GTP A 1 -10.566 36.647 -20.295 1.00 34.92 C HETATM 27 O6 GTP A 1 -11.374 36.124 -19.517 1.00 36.53 O HETATM 28 N1 GTP A 1 -9.707 37.647 -19.866 1.00 33.30 N HETATM 29 C2 GTP A 1 -8.824 38.216 -20.762 1.00 33.85 C HETATM 30 N2 GTP A 1 -8.005 39.176 -20.361 1.00 34.04 N HETATM 31 N3 GTP A 1 -8.783 37.793 -22.078 1.00 34.11 N HETATM 32 C4 GTP A 1 -9.624 36.814 -22.491 1.00 35.39 C