HEADER RNA 13-NOV-24 9EC4 TITLE STRUCTURE OF THE BACILLUS SUBTILIS YJDF RIBOSWITCH APTAMER DOMAIN IN TITLE 2 COMPLEX WITH CHELERYTHRINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (81-MER); COMPND 3 CHAIN: M, A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS RIBOSWITCH, CHELERYTHRINE, APTAMER, RNA EXPDTA X-RAY DIFFRACTION AUTHOR R.T.BATEY,S.F.SPRADLIN REVDAT 2 15-APR-26 9EC4 1 JRNL REVDAT 1 19-NOV-25 9EC4 0 JRNL AUTH S.F.SPRADLIN,K.A.DICKERSON,R.T.BATEY JRNL TITL STRUCTURAL AND FUNCTIONAL CLUES CHALLENGE THE HYPOTHESIS JRNL TITL 2 THAT THE YJDF RIBOSWITCH IS NATIVELY REGULATED THROUGH BROAD JRNL TITL 3 RECOGNITION OF AZAAROMATIC COMPOUNDS. JRNL REF NUCLEIC ACIDS RES. V. 53 2025 JRNL REFN ESSN 1362-4962 JRNL PMID 41277687 JRNL DOI 10.1093/NAR/GKAF1278 REMARK 2 REMARK 2 RESOLUTION. 2.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.79 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 14483 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1447 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 19.7940 - 6.0923 0.98 1422 159 0.2035 0.2519 REMARK 3 2 6.0923 - 4.8592 0.98 1347 151 0.2019 0.2117 REMARK 3 3 4.8592 - 4.2519 0.97 1322 147 0.2045 0.2460 REMARK 3 4 4.2519 - 3.8663 0.97 1308 146 0.2215 0.2384 REMARK 3 5 3.8663 - 3.5910 0.98 1325 143 0.2174 0.2607 REMARK 3 6 3.5910 - 3.3803 0.98 1322 149 0.2502 0.2671 REMARK 3 7 3.3803 - 3.2118 0.96 1269 144 0.2514 0.2738 REMARK 3 8 3.2118 - 3.0725 0.95 1272 136 0.2525 0.2903 REMARK 3 9 3.0725 - 2.9546 0.95 1256 142 0.3592 0.4816 REMARK 3 10 2.9546 - 2.8530 0.88 1193 130 0.3819 0.4370 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) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.470 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 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 : 0.002 3951 REMARK 3 ANGLE : 0.610 6154 REMARK 3 CHIRALITY : 0.021 808 REMARK 3 PLANARITY : 0.002 164 REMARK 3 DIHEDRAL : 12.460 1928 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 9EC4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-NOV-24. REMARK 100 THE DEPOSITION ID IS D_1000290171. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-003 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 200K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14791 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08500 REMARK 200 FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.53500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5% MPD, 3 MM SPERMINE, 40 MM NA REMARK 280 -CACODYLATE PH 7.0, 20 MM KCL, 5 MM BACL2, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 54.82700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.63500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 54.82700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.63500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: M 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: 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 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 MG MG M 110 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 N2 GDP A 1 O2 C A 80 2.04 REMARK 500 O6 GDP A 1 N4 C A 80 2.06 REMARK 500 OP2 U A 75 O HOH A 201 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 C A 80 N1 - C2 - N3 ANGL. DEV. = 4.8 DEGREES REMARK 500 C A 80 C2 - N3 - C4 ANGL. DEV. = -9.3 DEGREES REMARK 500 C A 80 N3 - C4 - C5 ANGL. DEV. = 3.5 DEGREES REMARK 500 C A 80 C4 - C5 - C6 ANGL. DEV. = 3.2 DEGREES REMARK 500 C A 80 N1 - C2 - O2 ANGL. DEV. = -5.3 DEGREES REMARK 500 C A 80 N3 - C4 - N4 ANGL. DEV. = 4.4 DEGREES REMARK 500 C A 80 C5 - C4 - N4 ANGL. DEV. = -7.9 DEGREES 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 M 246 DISTANCE = 6.32 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 M 108 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GDP M 1 O6 REMARK 620 2 HOH M 209 O 107.4 REMARK 620 3 HOH M 217 O 159.0 83.5 REMARK 620 4 HOH M 230 O 86.8 76.8 78.1 REMARK 620 5 HOH A 201 O 77.7 169.2 88.8 94.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K M 105 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G M 24 O6 REMARK 620 2 HOH M 207 O 94.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K M 103 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A M 27 O2' REMARK 620 2 HOH M 202 O 73.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BA M 102 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C M 30 OP1 REMARK 620 2 G M 48 O3' 96.2 REMARK 620 3 G M 48 O2' 141.8 49.7 REMARK 620 4 U M 49 OP2 63.0 44.0 91.9 REMARK 620 5 HOH M 212 O 54.5 136.0 161.7 92.0 REMARK 620 6 HOH M 241 O 113.1 139.4 92.1 175.9 84.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG M 109 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C M 30 OP1 REMARK 620 2 U M 49 OP2 85.4 REMARK 620 3 HOH M 208 O 109.7 88.5 REMARK 620 4 HOH M 212 O 69.9 141.3 127.2 REMARK 620 5 HOH M 235 O 150.8 122.2 82.6 81.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K M 104 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G M 36 O6 REMARK 620 2 G M 44 O6 71.6 REMARK 620 3 U M 45 O4 74.8 65.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG M 107 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH M 201 O REMARK 620 2 HOH M 203 O 83.7 REMARK 620 3 HOH M 229 O 94.0 77.8 REMARK 620 4 HOH M 233 O 75.3 71.1 147.9 REMARK 620 5 HOH M 237 O 176.9 94.9 88.3 101.7 REMARK 620 6 HOH M 238 O 100.1 174.9 98.4 113.1 81.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG M 110 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH M 206 O REMARK 620 2 HOH M 206 O 117.0 REMARK 620 3 HOH M 214 O 49.8 73.1 REMARK 620 4 HOH M 214 O 73.1 49.8 52.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG M 111 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH M 211 O REMARK 620 2 HOH M 219 O 102.3 REMARK 620 3 HOH M 223 O 106.3 96.4 REMARK 620 4 HOH M 224 O 80.6 172.9 89.0 REMARK 620 5 HOH M 232 O 161.2 89.0 87.0 86.6 REMARK 620 6 HOH M 236 O 89.8 85.6 162.8 87.9 75.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG M 112 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH M 215 O REMARK 620 2 HOH M 221 O 98.0 REMARK 620 3 HOH M 225 O 74.3 97.3 REMARK 620 4 HOH M 231 O 84.9 95.4 157.0 REMARK 620 5 HOH M 234 O 72.1 168.8 75.3 89.1 REMARK 620 6 HOH M 244 O 170.7 88.0 98.0 101.6 101.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 110 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH M 242 O REMARK 620 2 HOH M 245 O 96.1 REMARK 620 3 HOH A 205 O 83.5 169.6 REMARK 620 4 HOH A 229 O 164.9 98.8 81.4 REMARK 620 5 HOH A 233 O 80.6 96.1 94.1 100.3 REMARK 620 6 HOH A 242 O 76.8 92.3 77.5 99.9 156.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 105 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GDP A 1 O2B REMARK 620 2 GDP A 1 O6 113.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 109 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 18 O4 REMARK 620 2 G A 32 O6 108.8 REMARK 620 3 HOH A 208 O 57.5 115.4 REMARK 620 4 HOH A 214 O 60.5 157.4 77.0 REMARK 620 5 HOH A 217 O 132.2 80.1 159.8 93.0 REMARK 620 6 HOH A 241 O 132.4 115.4 87.3 82.7 73.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BA A 103 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 30 OP1 REMARK 620 2 A A 47 OP2 141.4 REMARK 620 3 G A 48 O3' 98.2 80.5 REMARK 620 4 G A 48 O2' 144.3 61.2 51.9 REMARK 620 5 U A 49 OP2 55.7 105.4 44.9 96.7 REMARK 620 6 HOH A 212 O 77.2 91.6 161.1 137.5 123.1 REMARK 620 7 HOH A 215 O 77.7 64.3 77.3 108.5 58.5 83.8 REMARK 620 8 HOH A 227 O 83.6 129.3 68.0 68.1 79.5 128.6 137.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 106 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 30 OP1 REMARK 620 2 U A 49 OP2 67.1 REMARK 620 3 HOH A 211 O 120.9 118.2 REMARK 620 4 HOH A 215 O 125.3 79.2 112.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BA A 102 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 35 O4 REMARK 620 2 G A 36 O6 71.2 REMARK 620 3 G A 44 O6 132.7 62.7 REMARK 620 4 U A 45 O4 92.3 85.6 74.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 108 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 69 O4 REMARK 620 2 HOH A 218 O 76.8 REMARK 620 3 HOH A 220 O 165.4 91.5 REMARK 620 4 HOH A 230 O 93.6 89.0 77.2 REMARK 620 5 HOH A 231 O 92.5 161.6 96.3 76.6 REMARK 620 6 HOH A 236 O 101.9 104.3 89.4 161.4 92.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 111 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 207 O REMARK 620 2 HOH A 219 O 71.4 REMARK 620 3 HOH A 224 O 137.4 98.9 REMARK 620 4 HOH A 228 O 95.0 79.7 124.8 REMARK 620 5 HOH A 232 O 85.8 157.0 99.8 100.2 REMARK 620 6 HOH A 238 O 70.3 63.1 68.5 142.5 112.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 112 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 202 O REMARK 620 2 HOH A 216 O 81.6 REMARK 620 3 HOH A 221 O 86.9 108.6 REMARK 620 4 HOH A 226 O 98.1 165.3 86.0 REMARK 620 5 HOH A 239 O 83.7 80.1 166.1 85.2 REMARK 620 6 HOH A 240 O 174.5 92.9 95.5 87.0 94.9 REMARK 620 N 1 2 3 4 5 DBREF 9EC4 M 1 81 PDB 9EC4 9EC4 1 81 DBREF 9EC4 A 1 81 PDB 9EC4 9EC4 1 81 SEQRES 1 M 81 GDP G A U G A A A A A A C A SEQRES 2 M 81 C G A U U C G G U U G G U SEQRES 3 M 81 A G U C C G G A U G C C G SEQRES 4 M 81 A A A G G U C A G U A A C SEQRES 5 M 81 C U U C C A C G A A A G U SEQRES 6 M 81 G G A U G U C C A U C A U SEQRES 7 M 81 C C A SEQRES 1 A 81 GDP G A U G A A A A A A C A SEQRES 2 A 81 C G A U U C G G U U G G U SEQRES 3 A 81 A G U C C G G A U G C C G SEQRES 4 A 81 A A A G G U C A G U A A C SEQRES 5 A 81 C U U C C A C G A A A G U SEQRES 6 A 81 G G A U G U C C A U C A U SEQRES 7 A 81 C C A HET GDP M 1 28 HET GDP A 1 28 HET CTI M 101 26 HET BA M 102 1 HET K M 103 1 HET K M 104 1 HET K M 105 1 HET MG M 106 1 HET MG M 107 1 HET MG M 108 1 HET MG M 109 1 HET MG M 110 1 HET MG M 111 1 HET MG M 112 1 HET CTI A 101 26 HET BA A 102 1 HET BA A 103 1 HET K A 104 1 HET K A 105 1 HET MG A 106 1 HET MG A 107 1 HET MG A 108 1 HET MG A 109 1 HET MG A 110 1 HET MG A 111 1 HET MG A 112 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM CTI 1,2-DIMETHOXY-12-METHYL[1,3]BENZODIOXOLO[5,6- HETNAM 2 CTI C]PHENANTHRIDIN-12-IUM HETNAM BA BARIUM ION HETNAM K POTASSIUM ION HETNAM MG MAGNESIUM ION HETSYN CTI CHELERYTHRINE FORMUL 1 GDP 2(C10 H15 N5 O11 P2) FORMUL 3 CTI 2(C21 H18 N O4 1+) FORMUL 4 BA 3(BA 2+) FORMUL 5 K 5(K 1+) FORMUL 8 MG 14(MG 2+) FORMUL 27 HOH *88(H2 O) LINK O3' GDP M 1 P G M 2 1555 1555 1.61 LINK O3' GDP A 1 P G A 2 1555 1555 1.61 LINK N1 GDP A 1 N3 C A 80 1555 1555 1.36 LINK O6 GDP M 1 MG MG M 108 1555 1555 2.29 LINK O6 G M 24 K K M 105 1555 1555 3.35 LINK O2' A M 27 K K M 103 1555 1555 2.82 LINK OP1 C M 30 BA BA M 102 1555 1555 2.70 LINK OP1 C M 30 MG MG M 109 1555 1555 2.22 LINK O6 G M 36 K K M 104 1555 1555 2.99 LINK O6 G M 44 K K M 104 1555 1555 3.06 LINK O4 U M 45 K K M 104 1555 1555 2.79 LINK O3' G M 48 BA BA M 102 1555 1555 3.50 LINK O2' G M 48 BA BA M 102 1555 1555 2.86 LINK OP2 U M 49 BA BA M 102 1555 1555 3.08 LINK OP2 U M 49 MG MG M 109 1555 1555 2.25 LINK BA BA M 102 O HOH M 212 1555 1555 3.22 LINK BA BA M 102 O HOH M 241 1555 1555 2.92 LINK K K M 103 O HOH M 202 1555 1555 3.37 LINK K K M 105 O HOH M 207 1555 1555 2.94 LINK MG MG M 107 O HOH M 201 1555 1555 2.29 LINK MG MG M 107 O HOH M 203 1555 1555 2.41 LINK MG MG M 107 O HOH M 229 1555 1555 2.56 LINK MG MG M 107 O HOH M 233 1555 1555 2.90 LINK MG MG M 107 O HOH M 237 1555 1555 2.07 LINK MG MG M 107 O HOH M 238 1555 1555 2.15 LINK MG MG M 108 O HOH M 209 1555 1555 2.41 LINK MG MG M 108 O HOH M 217 1555 1555 2.49 LINK MG MG M 108 O HOH M 230 1555 1555 2.66 LINK MG MG M 108 O HOH A 201 1555 1555 2.64 LINK MG MG M 109 O HOH M 208 1555 1555 2.02 LINK MG MG M 109 O HOH M 212 1555 1555 2.55 LINK MG MG M 109 O HOH M 235 1555 1555 2.54 LINK MG MG M 110 O HOH M 206 1555 1555 3.00 LINK MG MG M 110 O HOH M 206 1555 2655 3.00 LINK MG MG M 110 O HOH M 214 1555 1555 2.62 LINK MG MG M 110 O HOH M 214 1555 2655 2.62 LINK MG MG M 111 O HOH M 211 1555 1555 2.47 LINK MG MG M 111 O HOH M 219 1555 1555 2.15 LINK MG MG M 111 O HOH M 223 1555 1555 2.34 LINK MG MG M 111 O HOH M 224 1555 1555 2.13 LINK MG MG M 111 O HOH M 232 1555 1555 2.61 LINK MG MG M 111 O HOH M 236 1555 1555 2.28 LINK MG MG M 112 O HOH M 215 1555 1555 2.16 LINK MG MG M 112 O HOH M 221 1555 1555 2.65 LINK MG MG M 112 O HOH M 225 1555 1555 2.53 LINK MG MG M 112 O HOH M 231 1555 1555 2.13 LINK MG MG M 112 O HOH M 234 1555 1555 2.65 LINK MG MG M 112 O HOH M 244 1555 1555 2.10 LINK O HOH M 242 MG MG A 110 2654 1555 2.57 LINK O HOH M 245 MG MG A 110 2654 1555 2.29 LINK O2B GDP A 1 K K A 105 1555 1555 2.96 LINK O6 GDP A 1 K K A 105 1555 1555 3.38 LINK O4 U A 18 MG MG A 109 1555 1555 2.99 LINK OP1 C A 30 BA BA A 103 1555 1555 2.70 LINK OP1 C A 30 MG MG A 106 1555 1555 2.20 LINK O6 G A 32 MG MG A 109 1555 1555 2.80 LINK O4 U A 35 BA BA A 102 1555 1555 3.03 LINK O6 G A 36 BA BA A 102 1555 1555 3.01 LINK O6 G A 44 BA BA A 102 1555 1555 2.90 LINK O4 U A 45 BA BA A 102 1555 1555 2.87 LINK OP2 A A 47 BA BA A 103 1555 1555 2.65 LINK O3' G A 48 BA BA A 103 1555 1555 3.19 LINK O2' G A 48 BA BA A 103 1555 1555 3.05 LINK OP2 U A 49 BA BA A 103 1555 1555 3.35 LINK OP2 U A 49 MG MG A 106 1555 1555 2.91 LINK O4 U A 69 MG MG A 108 1555 1555 2.44 LINK BA BA A 103 O HOH A 212 1555 1555 3.31 LINK BA BA A 103 O HOH A 215 1555 1555 3.25 LINK BA BA A 103 O HOH A 227 1555 1555 2.95 LINK MG MG A 106 O HOH A 211 1555 1555 2.38 LINK MG MG A 106 O HOH A 215 1555 1555 2.04 LINK MG MG A 108 O HOH A 218 1555 1555 2.18 LINK MG MG A 108 O HOH A 220 1555 1555 2.59 LINK MG MG A 108 O HOH A 230 1555 1555 2.59 LINK MG MG A 108 O HOH A 231 1555 1555 2.33 LINK MG MG A 108 O HOH A 236 1555 1555 2.28 LINK MG MG A 109 O HOH A 208 1555 1555 1.99 LINK MG MG A 109 O HOH A 214 1555 1555 2.50 LINK MG MG A 109 O HOH A 217 1555 1555 2.19 LINK MG MG A 109 O HOH A 241 1555 1555 2.16 LINK MG MG A 110 O HOH A 205 1555 1555 2.18 LINK MG MG A 110 O HOH A 229 1555 1555 2.21 LINK MG MG A 110 O HOH A 233 1555 1555 2.12 LINK MG MG A 110 O HOH A 242 1555 1555 2.59 LINK MG MG A 111 O HOH A 207 1555 1555 2.08 LINK MG MG A 111 O HOH A 219 1555 1555 2.33 LINK MG MG A 111 O HOH A 224 1555 4456 2.05 LINK MG MG A 111 O HOH A 228 1555 1555 2.11 LINK MG MG A 111 O HOH A 232 1555 1555 2.07 LINK MG MG A 111 O HOH A 238 1555 1555 2.24 LINK MG MG A 112 O HOH A 202 1555 1555 2.27 LINK MG MG A 112 O HOH A 216 1555 1555 2.14 LINK MG MG A 112 O HOH A 221 1555 1555 2.23 LINK MG MG A 112 O HOH A 226 1555 1555 2.32 LINK MG MG A 112 O HOH A 239 1555 1555 2.33 LINK MG MG A 112 O HOH A 240 1555 1555 2.23 CRYST1 109.654 69.270 82.099 90.00 90.00 90.00 P 21 21 2 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 0.009120 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014436 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012180 0.00000 CONECT 1 2 3 4 5 CONECT 2 1 CONECT 3 1 CONECT 4 1 CONECT 5 1 6 CONECT 6 5 7 8 9 CONECT 7 6 CONECT 8 6 CONECT 9 6 10 CONECT 10 9 11 CONECT 11 10 12 13 CONECT 12 11 17 CONECT 13 11 14 15 CONECT 14 13 29 CONECT 15 13 16 17 CONECT 16 15 CONECT 17 12 15 18 CONECT 18 17 19 28 CONECT 19 18 20 CONECT 20 19 21 CONECT 21 20 22 28 CONECT 22 21 23 24 CONECT 23 22 3511 CONECT 24 22 25 CONECT 25 24 26 27 CONECT 26 25 CONECT 27 25 28 CONECT 28 18 21 27 CONECT 29 14 CONECT 519 3508 CONECT 578 3506 CONECT 634 3505 3512 CONECT 778 3507 CONECT 953 3507 CONECT 976 3507 CONECT 1029 3505 CONECT 1031 3505 CONECT 1046 3505 3512 CONECT 1740 1741 1742 1743 1744 CONECT 1741 1740 CONECT 1742 1740 3545 CONECT 1743 1740 CONECT 1744 1740 1745 CONECT 1745 1744 1746 1747 1748 CONECT 1746 1745 CONECT 1747 1745 CONECT 1748 1745 1749 CONECT 1749 1748 1750 CONECT 1750 1749 1751 1752 CONECT 1751 1750 1756 CONECT 1752 1750 1753 1754 CONECT 1753 1752 1768 CONECT 1754 1752 1755 1756 CONECT 1755 1754 CONECT 1756 1751 1754 1757 CONECT 1757 1756 1758 1767 CONECT 1758 1757 1759 CONECT 1759 1758 1760 CONECT 1760 1759 1761 1767 CONECT 1761 1760 1762 1763 CONECT 1762 1761 3545 CONECT 1763 1761 1764 3451 CONECT 1764 1763 1765 1766 CONECT 1765 1764 CONECT 1766 1764 1767 CONECT 1767 1757 1760 1766 CONECT 1768 1753 CONECT 2132 3549 CONECT 2373 3543 3546 CONECT 2429 3549 CONECT 2497 3542 CONECT 2517 3542 CONECT 2692 3542 CONECT 2715 3542 CONECT 2740 3543 CONECT 2768 3543 CONECT 2770 3543 CONECT 2785 3543 3546 CONECT 3226 3548 CONECT 3451 1763 CONECT 3479 3480 3500 CONECT 3480 3479 3481 3483 CONECT 3481 3480 3482 3486 CONECT 3482 3481 3501 CONECT 3483 3480 3484 3487 CONECT 3484 3483 3485 3488 CONECT 3485 3484 3486 CONECT 3486 3481 3485 CONECT 3487 3483 3490 3491 CONECT 3488 3484 3489 3494 CONECT 3489 3488 3490 3495 CONECT 3490 3487 3489 CONECT 3491 3487 CONECT 3492 3493 3495 3498 CONECT 3493 3492 3494 CONECT 3494 3488 3493 CONECT 3495 3489 3492 3496 CONECT 3496 3495 3497 CONECT 3497 3496 CONECT 3498 3492 3499 CONECT 3499 3498 CONECT 3500 3479 3501 3502 CONECT 3501 3482 3500 3504 CONECT 3502 3500 3503 CONECT 3503 3502 3504 CONECT 3504 3501 3503 CONECT 3505 634 1029 1031 1046 CONECT 3505 3564 3593 CONECT 3506 578 3554 CONECT 3507 778 953 976 CONECT 3508 519 3559 CONECT 3510 3553 3555 3581 3585 CONECT 3510 3589 3590 CONECT 3511 23 3561 3569 3582 CONECT 3511 3599 CONECT 3512 634 1046 3560 3564 CONECT 3512 3587 CONECT 3513 3558 3566 CONECT 3514 3563 3571 3575 3576 CONECT 3514 3584 3588 CONECT 3515 3567 3573 3577 3583 CONECT 3515 3586 3596 CONECT 3516 3517 3537 CONECT 3517 3516 3518 3520 CONECT 3518 3517 3519 3523 CONECT 3519 3518 3538 CONECT 3520 3517 3521 3524 CONECT 3521 3520 3522 3525 CONECT 3522 3521 3523 CONECT 3523 3518 3522 CONECT 3524 3520 3527 3528 CONECT 3525 3521 3526 3531 CONECT 3526 3525 3527 3532 CONECT 3527 3524 3526 CONECT 3528 3524 CONECT 3529 3530 3532 3535 CONECT 3530 3529 3531 CONECT 3531 3525 3530 CONECT 3532 3526 3529 3533 CONECT 3533 3532 3534 CONECT 3534 3533 CONECT 3535 3529 3536 CONECT 3536 3535 CONECT 3537 3516 3538 3539 CONECT 3538 3519 3537 3541 CONECT 3539 3537 3540 CONECT 3540 3539 3541 CONECT 3541 3538 3540 CONECT 3542 2497 2517 2692 2715 CONECT 3543 2373 2740 2768 2770 CONECT 3543 2785 3610 3613 3625 CONECT 3545 1742 1762 CONECT 3546 2373 2785 3609 3613 CONECT 3548 3226 3616 3618 3628 CONECT 3548 3629 3634 CONECT 3549 2132 2429 3606 3612 CONECT 3549 3615 3639 CONECT 3550 3603 3627 3631 3640 CONECT 3551 3605 3617 3626 3630 CONECT 3551 3636 CONECT 3552 3600 3614 3619 3624 CONECT 3552 3637 3638 CONECT 3553 3510 CONECT 3554 3506 CONECT 3555 3510 CONECT 3558 3513 CONECT 3559 3508 CONECT 3560 3512 CONECT 3561 3511 CONECT 3563 3514 CONECT 3564 3505 3512 CONECT 3566 3513 CONECT 3567 3515 CONECT 3569 3511 CONECT 3571 3514 CONECT 3573 3515 CONECT 3575 3514 CONECT 3576 3514 CONECT 3577 3515 CONECT 3581 3510 CONECT 3582 3511 CONECT 3583 3515 CONECT 3584 3514 CONECT 3585 3510 CONECT 3586 3515 CONECT 3587 3512 CONECT 3588 3514 CONECT 3589 3510 CONECT 3590 3510 CONECT 3593 3505 CONECT 3596 3515 CONECT 3599 3511 CONECT 3600 3552 CONECT 3603 3550 CONECT 3605 3551 CONECT 3606 3549 CONECT 3609 3546 CONECT 3610 3543 CONECT 3612 3549 CONECT 3613 3543 3546 CONECT 3614 3552 CONECT 3615 3549 CONECT 3616 3548 CONECT 3617 3551 CONECT 3618 3548 CONECT 3619 3552 CONECT 3624 3552 CONECT 3625 3543 CONECT 3626 3551 CONECT 3627 3550 CONECT 3628 3548 CONECT 3629 3548 CONECT 3630 3551 CONECT 3631 3550 CONECT 3634 3548 CONECT 3636 3551 CONECT 3637 3552 CONECT 3638 3552 CONECT 3639 3549 CONECT 3640 3550 MASTER 458 0 26 0 0 0 0 6 3638 2 220 14 END