HEADER RNA 21-NOV-14 4RUM TITLE CRYSTAL STRUCTURE OF THE NICO TRANSITION-METAL RIBOSWITCH BOUND TO TITLE 2 COBALT COMPND MOL_ID: 1; COMPND 2 MOLECULE: NICO RIBOSWITCH RNA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 OTHER_DETAILS: IN VITRO TRANSCRIBED RNA KEYWDS RNA HELIX, LIGAND SENSOR, COBALT AND NICKEL BINDING, RNA, RIBOSWITCH EXPDTA X-RAY DIFFRACTION AUTHOR A.RAMESH,W.C.WINKLER REVDAT 2 28-FEB-24 4RUM 1 REMARK LINK REVDAT 1 08-APR-15 4RUM 0 JRNL AUTH K.FURUKAWA,A.RAMESH,Z.ZHOU,Z.WEINBERG,T.VALLERY,W.C.WINKLER, JRNL AUTH 2 R.R.BREAKER JRNL TITL BACTERIAL RIBOSWITCHES COOPERATIVELY BIND NI(2+) OR CO(2+) JRNL TITL 2 IONS AND CONTROL EXPRESSION OF HEAVY METAL TRANSPORTERS. JRNL REF MOL.CELL V. 57 1088 2015 JRNL REFN ISSN 1097-2765 JRNL PMID 25794617 JRNL DOI 10.1016/J.MOLCEL.2015.02.009 REMARK 2 REMARK 2 RESOLUTION. 2.64 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.4_1496) 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) : 2.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 75.6 REMARK 3 NUMBER OF REFLECTIONS : 22654 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) : 0.194 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.940 REMARK 3 FREE R VALUE TEST SET COUNT : 2252 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 33.8696 - 6.6433 0.98 1668 191 0.2518 0.2666 REMARK 3 2 6.6433 - 5.2794 1.00 1678 183 0.1827 0.2301 REMARK 3 3 5.2794 - 4.6139 1.00 1697 184 0.1686 0.1799 REMARK 3 4 4.6139 - 4.1929 1.00 1676 191 0.1576 0.2288 REMARK 3 5 4.1929 - 3.8929 0.99 1676 181 0.1614 0.1939 REMARK 3 6 3.8929 - 3.6636 0.96 1624 175 0.1508 0.1829 REMARK 3 7 3.6636 - 3.4803 0.93 1585 173 0.1629 0.1834 REMARK 3 8 3.4803 - 3.3290 0.83 1371 161 0.1726 0.2218 REMARK 3 9 3.3290 - 3.2009 0.76 1291 135 0.1682 0.2066 REMARK 3 10 3.2009 - 3.0905 0.63 1057 114 0.2029 0.2711 REMARK 3 11 3.0905 - 2.9940 0.54 904 100 0.2448 0.3358 REMARK 3 12 2.9940 - 2.9084 0.53 896 100 0.2473 0.3021 REMARK 3 13 2.9084 - 2.8319 0.53 880 98 0.2987 0.3022 REMARK 3 14 2.8319 - 2.7628 0.52 895 99 0.3077 0.3551 REMARK 3 15 2.7628 - 2.7001 0.50 843 94 0.3497 0.3317 REMARK 3 16 2.7001 - 2.6426 0.40 661 73 0.3674 0.4163 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.560 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 62.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.70 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 : 0.006 2238 REMARK 3 ANGLE : 1.238 3486 REMARK 3 CHIRALITY : 0.049 460 REMARK 3 PLANARITY : 0.007 92 REMARK 3 DIHEDRAL : 16.705 1093 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 4RUM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-NOV-14. REMARK 100 THE DEPOSITION ID IS D_1000087815. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9917 REMARK 200 MONOCHROMATOR : ROSENBAUM-ROCK HIGH-RESOLUTION REMARK 200 DOUBLE-CRYSTAL MONOCHROMATOR 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 : 16067 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.640 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.900 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 14.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06900 REMARK 200 FOR THE DATA SET : 41.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.64 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.00000 REMARK 200 FOR SHELL : 1.930 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% V/V METHYL PENTANEDIOL, 40 MM REMARK 280 SODIUM CACODYLATE PH 7.0, 12 MM SPERMINE TETRAHYDROCHLORIDE, 40 REMARK 280 MM LITHIUM CHLORIDE AND 80 MM STRONTIUM CHLORIDE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 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 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 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 47.89500 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 47.89500 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 114.99300 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 47.89500 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 47.89500 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 114.99300 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 47.89500 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 47.89500 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 114.99300 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 47.89500 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 47.89500 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 114.99300 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 47.89500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 47.89500 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 114.99300 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 47.89500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 47.89500 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 114.99300 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 47.89500 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 47.89500 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 114.99300 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 47.89500 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 47.89500 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 114.99300 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 U A 71 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 C A 99 C5' C4' O4' C3' O3' C2' O2' REMARK 470 C A 99 C1' N1 C2 O2 N3 C4 N4 REMARK 470 C A 99 C5 C6 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 O HOH A 274 O HOH A 275 2.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 N1 G A 29 O2' A A 78 3655 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 G A 29 N3 - C4 - C5 ANGL. DEV. = 5.4 DEGREES REMARK 500 G A 29 N3 - C4 - N9 ANGL. DEV. = -6.9 DEGREES REMARK 500 G A 29 C6 - C5 - N7 ANGL. DEV. = 3.8 DEGREES REMARK 500 G A 29 C8 - N9 - C1' ANGL. DEV. = 11.5 DEGREES REMARK 500 G A 29 C4 - N9 - C1' ANGL. DEV. = -12.3 DEGREES REMARK 500 U A 70 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES REMARK 500 U A 70 C2 - N1 - C1' ANGL. DEV. = 8.0 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 K A 103 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP A 6 O2B REMARK 620 2 GTP A 6 O1A 59.4 REMARK 620 3 HOH A 261 O 65.8 125.1 REMARK 620 4 HOH A 262 O 65.7 55.1 105.2 REMARK 620 5 HOH A 269 O 65.1 104.3 51.9 57.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SR A 114 SR REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP A 6 O6 REMARK 620 2 GTP A 6 O1G 142.3 REMARK 620 3 GTP A 6 O1B 139.1 65.0 REMARK 620 4 GTP A 6 N7 72.9 88.1 81.0 REMARK 620 5 HOH A 263 O 58.0 154.3 111.2 117.0 REMARK 620 6 HOH A 266 O 147.7 63.7 58.9 137.5 92.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO A 110 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 14 N7 REMARK 620 2 G A 45 N7 101.5 REMARK 620 3 HOH A 208 O 171.6 83.0 REMARK 620 4 HOH A 212 O 94.8 85.9 78.3 REMARK 620 5 HOH A 213 O 94.6 160.6 79.7 82.0 REMARK 620 6 HOH A 220 O 95.7 110.5 89.3 158.2 78.2 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 G A 15 O6 REMARK 620 2 A A 41 OP2 91.3 REMARK 620 3 HOH A 228 O 67.5 74.9 REMARK 620 4 HOH A 229 O 58.0 113.1 124.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO A 111 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 18 O6 REMARK 620 2 HOH A 206 O 84.7 REMARK 620 3 HOH A 207 O 136.9 85.4 REMARK 620 4 HOH A 210 O 69.6 71.3 143.8 REMARK 620 5 HOH A 211 O 71.8 135.6 136.9 65.5 REMARK 620 6 HOH A 236 O 108.4 152.2 68.2 135.9 72.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO A 108 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 46 O2' REMARK 620 2 G A 47 N7 92.4 REMARK 620 3 G A 87 N7 88.5 177.5 REMARK 620 4 HOH A 201 O 78.4 90.4 92.0 REMARK 620 5 HOH A 202 O 90.6 77.8 99.8 163.6 REMARK 620 6 HOH A 203 O 169.7 78.6 100.6 96.4 92.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO A 109 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 46 N7 REMARK 620 2 G A 87 O2' 90.1 REMARK 620 3 G A 88 N7 172.8 96.5 REMARK 620 4 G A 88 C8 159.5 73.1 25.2 REMARK 620 5 HOH A 214 O 92.0 93.1 85.0 77.5 REMARK 620 6 HOH A 216 O 97.3 93.2 85.0 95.5 168.7 REMARK 620 7 HOH A 217 O 84.2 173.4 89.0 111.7 83.8 90.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 102 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 49 O4 REMARK 620 2 G A 58 O6 80.9 REMARK 620 3 HOH A 209 O 147.2 66.3 REMARK 620 4 HOH A 218 O 92.5 63.4 72.1 REMARK 620 5 HOH A 234 O 84.5 58.0 79.6 121.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 101 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 51 O3' REMARK 620 2 G A 52 OP1 43.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 106 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 86 O6 REMARK 620 2 HOH A 273 O 66.7 REMARK 620 3 HOH A 274 O 97.8 79.7 REMARK 620 4 HOH A 275 O 56.0 47.4 46.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 113 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 285 O REMARK 620 2 HOH A 286 O 157.4 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 K A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 110 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 111 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 112 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 113 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 114 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 115 DBREF 4RUM A 6 99 PDB 4RUM 4RUM 6 99 SEQRES 1 A 94 GTP G G A A C U G A G C A G SEQRES 2 A 94 G C A A U G A C C A G A G SEQRES 3 A 94 C G G U C A U G C A G C C SEQRES 4 A 94 G G G C U G C G A A A G C SEQRES 5 A 94 G G C A A C A G A U G A U SEQRES 6 A 94 U A C A C G C A C A U C U SEQRES 7 A 94 G U G G G A C A G U U C C SEQRES 8 A 94 C A C MODRES 4RUM GTP A 6 G GUANOSINE-5'-TRIPHOSPHATE HET GTP A 6 32 HET K A 101 1 HET K A 102 1 HET K A 103 1 HET K A 104 1 HET K A 105 1 HET K A 106 1 HET K A 107 1 HET CO A 108 1 HET CO A 109 1 HET CO A 110 1 HET CO A 111 1 HET MG A 112 1 HET MG A 113 1 HET SR A 114 1 HET GOL A 115 14 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM K POTASSIUM ION HETNAM CO COBALT (II) ION HETNAM MG MAGNESIUM ION HETNAM SR STRONTIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 GTP C10 H16 N5 O14 P3 FORMUL 2 K 7(K 1+) FORMUL 9 CO 4(CO 2+) FORMUL 13 MG 2(MG 2+) FORMUL 15 SR SR 2+ FORMUL 16 GOL C3 H8 O3 FORMUL 17 HOH *88(H2 O) LINK O3' GTP A 6 P G A 7 1555 1555 1.60 LINK O2B GTP A 6 K K A 103 1555 1555 2.70 LINK O1A GTP A 6 K K A 103 1555 1555 2.95 LINK O6 GTP A 6 SR SR A 114 1555 1555 2.45 LINK O1G GTP A 6 SR SR A 114 1555 1555 2.51 LINK O1B GTP A 6 SR SR A 114 1555 1555 2.58 LINK N7 GTP A 6 SR SR A 114 1555 1555 2.75 LINK N7 A A 14 CO CO A 110 1555 1555 1.93 LINK O6 G A 15 MG MG A 112 1555 1555 2.50 LINK O6 G A 18 CO CO A 111 1555 1555 2.61 LINK OP2 A A 41 MG MG A 112 1555 1555 2.49 LINK N7 G A 45 CO CO A 110 1555 1555 2.15 LINK O2' G A 46 CO CO A 108 1555 1555 2.32 LINK N7 G A 46 CO CO A 109 1555 1555 2.07 LINK N7 G A 47 CO CO A 108 1555 1555 2.19 LINK O4 U A 49 K K A 102 1555 1555 2.63 LINK O3' C A 51 K K A 101 1555 1555 3.23 LINK OP1 G A 52 K K A 101 1555 1555 3.47 LINK O6 G A 58 K K A 102 1555 1555 2.89 LINK O6 G A 86 K K A 106 1555 1555 2.79 LINK N7 G A 87 CO CO A 108 1555 1555 2.05 LINK O2' G A 87 CO CO A 109 1555 1555 2.13 LINK N7 G A 88 CO CO A 109 1555 1555 1.97 LINK C8 G A 88 CO CO A 109 1555 1555 2.79 LINK K K A 102 O HOH A 209 1555 1555 2.64 LINK K K A 102 O HOH A 218 1555 1555 2.74 LINK K K A 102 O HOH A 234 1555 1555 2.99 LINK K K A 103 O HOH A 261 1555 1555 2.54 LINK K K A 103 O HOH A 262 1555 1555 2.75 LINK K K A 103 O HOH A 269 1555 1555 2.77 LINK K K A 106 O HOH A 273 1555 1555 2.90 LINK K K A 106 O HOH A 274 1555 1555 2.57 LINK K K A 106 O HOH A 275 1555 1555 2.62 LINK CO CO A 108 O HOH A 201 1555 1555 2.04 LINK CO CO A 108 O HOH A 202 1555 1555 1.90 LINK CO CO A 108 O HOH A 203 1555 1555 1.97 LINK CO CO A 109 O HOH A 214 1555 1555 2.00 LINK CO CO A 109 O HOH A 216 1555 1555 1.94 LINK CO CO A 109 O HOH A 217 1555 1555 2.11 LINK CO CO A 110 O HOH A 208 1555 1555 1.88 LINK CO CO A 110 O HOH A 212 1555 1555 2.00 LINK CO CO A 110 O HOH A 213 1555 1555 1.95 LINK CO CO A 110 O HOH A 220 1555 1555 2.06 LINK CO CO A 111 O HOH A 206 1555 1555 2.20 LINK CO CO A 111 O HOH A 207 1555 1555 2.27 LINK CO CO A 111 O HOH A 210 1555 1555 2.47 LINK CO CO A 111 O HOH A 211 1555 1555 2.36 LINK CO CO A 111 O HOH A 236 1555 1555 2.46 LINK MG MG A 112 O HOH A 228 1555 1555 2.29 LINK MG MG A 112 O HOH A 229 1555 1555 2.68 LINK MG MG A 113 O HOH A 285 1555 1555 2.72 LINK MG MG A 113 O HOH A 286 1555 1555 2.55 LINK SR SR A 114 O HOH A 263 1555 1555 2.32 LINK SR SR A 114 O HOH A 266 1555 1555 2.37 SITE 1 AC1 4 A A 25 C A 51 G A 52 A A 61 SITE 1 AC2 5 U A 49 G A 58 HOH A 209 HOH A 218 SITE 2 AC2 5 HOH A 234 SITE 1 AC3 4 GTP A 6 HOH A 261 HOH A 262 HOH A 269 SITE 1 AC4 1 G A 29 SITE 1 AC5 4 G A 86 HOH A 273 HOH A 274 HOH A 275 SITE 1 AC6 7 G A 46 G A 47 G A 86 G A 87 SITE 2 AC6 7 HOH A 201 HOH A 202 HOH A 203 SITE 1 AC7 6 G A 46 G A 87 G A 88 HOH A 214 SITE 2 AC7 6 HOH A 216 HOH A 217 SITE 1 AC8 6 A A 14 G A 45 HOH A 208 HOH A 212 SITE 2 AC8 6 HOH A 213 HOH A 220 SITE 1 AC9 6 G A 18 HOH A 206 HOH A 207 HOH A 210 SITE 2 AC9 6 HOH A 211 HOH A 236 SITE 1 BC1 4 G A 15 A A 41 HOH A 228 HOH A 229 SITE 1 BC2 2 HOH A 285 HOH A 286 SITE 1 BC3 3 GTP A 6 HOH A 263 HOH A 266 SITE 1 BC4 2 G A 52 HOH A 283 CRYST1 95.790 95.790 229.986 90.00 90.00 90.00 I 4 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 0.010440 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010440 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004348 0.00000 HETATM 1 PG GTP A 6 12.672 45.003 115.432 0.50 18.30 P HETATM 2 O1G GTP A 6 11.642 46.007 114.986 1.00 15.62 O HETATM 3 O2G GTP A 6 12.501 44.487 116.846 1.00 17.27 O HETATM 4 O3G GTP A 6 14.025 45.616 115.272 1.00 17.05 O HETATM 5 O3B GTP A 6 12.558 43.734 114.481 1.00 33.63 O HETATM 6 PB GTP A 6 12.189 43.821 112.961 1.00 38.15 P HETATM 7 O1B GTP A 6 12.187 45.222 112.423 1.00 32.24 O HETATM 8 O2B GTP A 6 13.273 43.031 112.221 1.00 41.66 O HETATM 9 O3A GTP A 6 10.724 43.227 112.795 1.00 41.39 O HETATM 10 PA GTP A 6 10.282 41.956 112.003 1.00 40.39 P HETATM 11 O1A GTP A 6 11.198 41.749 110.836 1.00 39.60 O HETATM 12 O2A GTP A 6 10.315 40.743 112.940 1.00 23.61 O HETATM 13 O5' GTP A 6 8.802 42.228 111.457 1.00 35.52 O HETATM 14 C5' GTP A 6 7.710 41.512 112.003 1.00 31.06 C HETATM 15 C4' GTP A 6 6.463 42.223 111.600 1.00 28.96 C HETATM 16 O4' GTP A 6 6.106 43.174 112.645 1.00 31.04 O HETATM 17 C3' GTP A 6 6.723 43.057 110.414 1.00 30.33 C HETATM 18 O3' GTP A 6 6.502 42.344 109.208 1.00 35.67 O HETATM 19 C2' GTP A 6 5.770 44.191 110.559 1.00 31.62 C HETATM 20 O2' GTP A 6 4.471 43.866 110.139 1.00 33.84 O HETATM 21 C1' GTP A 6 5.804 44.444 112.030 1.00 34.22 C HETATM 22 N9 GTP A 6 6.860 45.358 112.190 1.00 34.28 N HETATM 23 C8 GTP A 6 8.113 45.058 112.615 1.00 33.44 C HETATM 24 N7 GTP A 6 8.863 46.170 112.608 1.00 34.21 N HETATM 25 C5 GTP A 6 8.094 47.199 112.141 1.00 27.05 C HETATM 26 C6 GTP A 6 8.324 48.587 111.907 1.00 30.97 C HETATM 27 O6 GTP A 6 9.593 49.147 112.163 1.00 30.92 O HETATM 28 N1 GTP A 6 7.278 49.336 111.420 1.00 34.27 N HETATM 29 C2 GTP A 6 6.096 48.811 111.173 1.00 33.00 C HETATM 30 N2 GTP A 6 5.045 49.667 110.659 1.00 31.56 N HETATM 31 N3 GTP A 6 5.836 47.488 111.389 1.00 29.64 N HETATM 32 C4 GTP A 6 6.806 46.676 111.862 1.00 28.67 C