HEADER RNA 07-FEB-15 4Y1I TITLE LACTOCOCCUS LACTIS YYBP-YKOY MN RIBOSWITCH BOUND TO MN2+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACTOCOCCUS LACTIS YYBP-YKOY RIBOSWITCH; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS SUBSP. LACTIS; SOURCE 4 ORGANISM_TAXID: 1360 KEYWDS RIBOSWITCH, MANGANESE-BINDING, RNA EXPDTA X-RAY DIFFRACTION AUTHOR I.R.PRICE,A.KE REVDAT 5 28-FEB-24 4Y1I 1 LINK REVDAT 4 25-DEC-19 4Y1I 1 REMARK REVDAT 3 20-SEP-17 4Y1I 1 REMARK REVDAT 2 20-JUL-16 4Y1I 1 REMARK REVDAT 1 08-APR-15 4Y1I 0 JRNL AUTH I.R.PRICE,A.GABALLA,F.DING,J.D.HELMANN,A.KE JRNL TITL MN(2+)-SENSING MECHANISMS OF YYBP-YKOY ORPHAN RIBOSWITCHES. JRNL REF MOL.CELL V. 57 1110 2015 JRNL REFN ISSN 1097-2765 JRNL PMID 25794619 JRNL DOI 10.1016/J.MOLCEL.2015.02.016 REMARK 2 REMARK 2 RESOLUTION. 2.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: DEV_1834) 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) : 55.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.6 REMARK 3 NUMBER OF REFLECTIONS : 19804 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.740 REMARK 3 FREE R VALUE TEST SET COUNT : 2125 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 59.4781 - 8.6458 0.91 1340 128 0.1595 0.2055 REMARK 3 2 8.6458 - 6.8657 0.94 1372 142 0.1677 0.1869 REMARK 3 3 6.8657 - 5.9987 0.95 1353 154 0.1821 0.2338 REMARK 3 4 5.9987 - 5.4507 0.84 1247 133 0.1579 0.2114 REMARK 3 5 5.4507 - 5.0602 0.92 1323 141 0.1579 0.2093 REMARK 3 6 5.0602 - 4.7620 0.94 1337 136 0.1594 0.1645 REMARK 3 7 4.7620 - 4.5236 0.93 1352 143 0.1664 0.2030 REMARK 3 8 4.5236 - 4.3268 0.94 1382 147 0.1551 0.2270 REMARK 3 9 4.3268 - 4.1602 0.93 1338 145 0.1591 0.1515 REMARK 3 10 4.1602 - 4.0167 0.82 1157 138 0.1677 0.1760 REMARK 3 11 4.0167 - 3.8911 0.89 1337 135 0.1762 0.1870 REMARK 3 12 3.8911 - 3.7799 0.89 1261 128 0.1907 0.2306 REMARK 3 13 3.7799 - 3.6804 0.91 1328 155 0.1973 0.2344 REMARK 3 14 3.6804 - 3.5907 0.90 1278 125 0.2084 0.2493 REMARK 3 15 3.5907 - 3.5090 0.91 1324 151 0.2134 0.2038 REMARK 3 16 3.5090 - 3.4344 0.92 1299 154 0.2158 0.2141 REMARK 3 17 3.4344 - 3.3657 0.91 1300 162 0.2092 0.2103 REMARK 3 18 3.3657 - 3.3022 0.92 1331 119 0.2374 0.2404 REMARK 3 19 3.3022 - 3.2432 0.80 1192 124 0.2171 0.2353 REMARK 3 20 3.2432 - 3.1882 0.83 1161 155 0.2354 0.2855 REMARK 3 21 3.1882 - 3.1368 0.87 1261 104 0.2705 0.3079 REMARK 3 22 3.1368 - 3.0885 0.87 1295 149 0.2888 0.3311 REMARK 3 23 3.0885 - 3.0431 0.89 1272 123 0.2741 0.3264 REMARK 3 24 3.0431 - 3.0003 0.89 1279 136 0.2870 0.3285 REMARK 3 25 3.0003 - 2.9597 0.90 1330 164 0.3253 0.3668 REMARK 3 26 2.9597 - 2.9213 0.89 1251 137 0.3818 0.4015 REMARK 3 27 2.9213 - 2.8848 0.89 1306 132 0.4197 0.4459 REMARK 3 28 2.8848 - 2.8500 0.88 1265 156 0.4632 0.4831 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) : 27.480 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 : 0.013 4925 REMARK 3 ANGLE : 0.425 7584 REMARK 3 CHIRALITY : 0.018 1000 REMARK 3 PLANARITY : 0.002 202 REMARK 3 DIHEDRAL : 15.844 2470 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 4Y1I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1000206679. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-OCT-14 REMARK 200 TEMPERATURE (KELVIN) : 294 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.892 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20952 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 55.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.13600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.5000 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 (%) : 92.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.47000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.870 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHENIX PHENIX.AUTOSOL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: RNA SOLUTION: 10 MM NA CACODYLATE PH REMARK 280 7, 50 MM NACL, 10 MM MGCL2, 2.5 MM MNCL2, MOTHER LIQUOR: 14% (+/- REMARK 280 )-2-METHYL-2,4-PENTANEDIOL (MPD) , 40 MM NA CACODYLATE PH 7.0, REMARK 280 80 MM NACL, 20 MM BACL2, 12 MM SPERMINE TETRA-HCL, AT 21 C, WITH REMARK 280 1:2 RNA: MOTHER LIQUOR DROP RATIO. CRYOPROTECTION: 20% PEG-400 REMARK 280 AND 0.1 MM MNCL2 OVERNIGHT SOAK., VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 33.64250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 63.94050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 33.64250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 63.94050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 18200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 63730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -752.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 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 OP2 A B 13 O HOH B 307 1.99 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 A 307 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A 316 DISTANCE = 9.66 ANGSTROMS REMARK 525 HOH B 317 DISTANCE = 6.40 ANGSTROMS REMARK 525 HOH B 319 DISTANCE = 6.75 ANGSTROMS REMARK 525 HOH B 323 DISTANCE = 7.29 ANGSTROMS REMARK 525 HOH B 327 DISTANCE = 12.40 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 BA A 214 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 6 O6 REMARK 620 2 HOH A 309 O 113.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 207 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 8 OP1 REMARK 620 2 G A 9 OP2 95.7 REMARK 620 3 A A 10 OP1 113.1 88.4 REMARK 620 4 U A 39 OP1 164.1 100.2 68.9 REMARK 620 5 C A 45 OP1 94.3 89.6 152.6 84.5 REMARK 620 6 HOH A 310 O 85.9 162.4 107.1 78.6 72.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 224 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 9 OP1 REMARK 620 2 U A 39 OP2 74.2 REMARK 620 3 C A 40 OP2 99.2 104.4 REMARK 620 4 A A 41 N7 165.7 95.5 92.9 REMARK 620 5 U A 44 OP1 84.3 154.5 92.2 102.9 REMARK 620 6 C A 45 OP2 74.6 73.6 173.8 93.1 87.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 206 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 21 O3' REMARK 620 2 G A 21 O2' 79.0 REMARK 620 3 A A 22 OP1 71.1 145.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BA A 217 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 21 O6 REMARK 620 2 HOH A 321 O 83.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BA A 213 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 35 O6 REMARK 620 2 U A 36 O4 71.3 REMARK 620 3 G A 61 O6 134.6 87.1 REMARK 620 4 G A 62 O6 61.6 72.7 74.2 REMARK 620 5 HOH A 304 O 96.0 63.5 109.5 135.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BA A 221 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 39 O4 REMARK 620 2 C A 40 O2 67.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 212 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 43 O2 REMARK 620 2 G A 94 O6 90.1 REMARK 620 3 HOH A 319 O 126.1 99.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 208 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 59 O2' REMARK 620 2 U B 43 O4 120.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 211 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 100 O4 REMARK 620 2 GTP A 226 O1G 82.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 206 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 8 OP1 REMARK 620 2 G B 9 OP2 102.0 REMARK 620 3 A B 10 OP1 88.0 99.5 REMARK 620 4 U B 39 OP1 163.0 95.0 88.4 REMARK 620 5 C B 45 OP1 90.4 94.0 166.5 89.2 REMARK 620 6 HOH B 311 O 85.5 164.8 93.9 78.2 72.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 223 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 9 OP1 REMARK 620 2 U B 39 OP2 102.5 REMARK 620 3 C B 40 OP2 80.6 90.3 REMARK 620 4 A B 41 N7 161.1 77.7 80.6 REMARK 620 5 U B 44 OP1 99.1 158.2 96.0 82.8 REMARK 620 6 C B 45 OP2 117.2 94.4 159.9 81.4 73.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A B 13 OP2 REMARK 620 2 HOH B 306 O 128.1 REMARK 620 3 HOH B 307 O 56.1 95.8 REMARK 620 4 HOH B 308 O 113.3 112.3 145.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 205 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A B 23 O3' REMARK 620 2 A B 24 OP1 71.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BA B 217 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 35 O6 REMARK 620 2 U B 36 O4 68.4 REMARK 620 3 G B 61 O6 132.5 85.7 REMARK 620 4 G B 62 O6 64.1 68.1 69.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 309 O REMARK 620 2 HOH B 332 O 95.1 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 GTP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 209 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 210 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 216 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 217 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 218 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 220 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 221 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 222 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA A 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 224 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 225 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GTP A 226 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 209 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 210 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AG1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AG2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AG3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA B 215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AG4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA B 217 REMARK 800 REMARK 800 SITE_IDENTIFIER: AG5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA B 218 REMARK 800 REMARK 800 SITE_IDENTIFIER: AG6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA B 219 REMARK 800 REMARK 800 SITE_IDENTIFIER: AG7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BA B 221 REMARK 800 REMARK 800 SITE_IDENTIFIER: AG8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 223 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Y1J RELATED DB: PDB REMARK 900 RELATED ID: 4Y1M RELATED DB: PDB DBREF 4Y1I A 3 102 PDB 4Y1I 4Y1I 3 102 DBREF 4Y1I B 3 102 PDB 4Y1I 4Y1I 3 102 SEQRES 1 A 100 A A A G G G G A G U A G C SEQRES 2 A 100 G U C G G G A A A C C G A SEQRES 3 A 100 A A C A A A G U C G U C A SEQRES 4 A 100 A U U C G U G A G G A A A SEQRES 5 A 100 C U C A C C G G C U U U G SEQRES 6 A 100 U U G A C A U A C G A A A SEQRES 7 A 100 G U A U G U U U A G C A A SEQRES 8 A 100 G A C C U U U C C SEQRES 1 B 100 A A A G G G G A G U A G C SEQRES 2 B 100 G U C G G G A A A C C G A SEQRES 3 B 100 A A C A A A G U C G U C A SEQRES 4 B 100 A U U C G U G A G G A A A SEQRES 5 B 100 C U C A C C G G C U U U G SEQRES 6 B 100 U U G A C A U A C G A A A SEQRES 7 B 100 G U A U G U U U A G C A A SEQRES 8 B 100 G A C C U U U C C HET GTP A 201 32 HET MG A 202 1 HET MG A 203 1 HET MG A 204 1 HET MG A 205 1 HET MG A 206 1 HET MG A 207 1 HET MG A 208 1 HET MG A 209 1 HET MG A 210 1 HET MG A 211 1 HET MG A 212 1 HET BA A 213 1 HET BA A 214 1 HET BA A 215 1 HET BA A 216 1 HET BA A 217 1 HET BA A 218 1 HET BA A 219 1 HET BA A 220 1 HET BA A 221 1 HET BA A 222 1 HET BA A 223 1 HET MN A 224 1 HET MN A 225 1 HET GTP A 226 32 HET MG B 201 1 HET MG B 202 1 HET MG B 203 1 HET MG B 204 1 HET MG B 205 1 HET MG B 206 1 HET MG B 207 1 HET MG B 208 1 HET MG B 209 1 HET MG B 210 1 HET MG B 211 1 HET MG B 212 1 HET MG B 213 1 HET MG B 214 1 HET BA B 215 1 HET BA B 216 1 HET BA B 217 1 HET BA B 218 1 HET BA B 219 1 HET BA B 220 1 HET BA B 221 1 HET BA B 222 1 HET MN B 223 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM BA BARIUM ION HETNAM MN MANGANESE (II) ION FORMUL 3 GTP 2(C10 H16 N5 O14 P3) FORMUL 4 MG 25(MG 2+) FORMUL 15 BA 19(BA 2+) FORMUL 26 MN 3(MN 2+) FORMUL 52 HOH *56(H2 O) LINK O6 G A 6 BA BA A 214 1555 1555 3.17 LINK OP1 G A 8 MG MG A 207 1555 1555 2.11 LINK O6 G A 8 BA BA A 220 1555 1555 3.17 LINK OP2 G A 9 MG MG A 207 1555 1555 2.09 LINK OP1 G A 9 MN MN A 224 1555 1555 2.21 LINK OP1 A A 10 MG MG A 207 1555 1555 2.25 LINK OP2 A A 13 BA BA A 222 1555 1555 3.24 LINK O3' G A 21 MG MG A 206 1555 1555 1.93 LINK O2' G A 21 MG MG A 206 1555 1555 2.39 LINK O6 G A 21 BA BA A 217 1555 1555 2.76 LINK OP1 A A 22 MG MG A 206 1555 1555 2.33 LINK O6 G A 35 BA BA A 213 1555 1555 2.76 LINK O4 U A 36 BA BA A 213 1555 1555 2.74 LINK OP1 U A 39 MG MG A 207 1555 1555 2.01 LINK O4 U A 39 BA BA A 221 1555 1555 3.49 LINK OP2 U A 39 MN MN A 224 1555 1555 2.30 LINK O2 C A 40 BA BA A 221 1555 1555 2.75 LINK OP2 C A 40 MN MN A 224 1555 1555 2.33 LINK N7 A A 41 MN MN A 224 1555 1555 2.26 LINK O2 U A 43 MG MG A 212 1555 1555 3.00 LINK OP1 U A 44 MN MN A 224 1555 1555 2.23 LINK OP1 C A 45 MG MG A 207 1555 1555 2.22 LINK OP2 C A 45 MN MN A 224 1555 1555 2.27 LINK O2' C A 59 MG MG A 208 1555 1555 2.49 LINK O6 G A 61 BA BA A 213 1555 1555 3.15 LINK O6 G A 62 BA BA A 213 1555 1555 2.76 LINK O4 U A 68 MG MG A 210 1555 1555 2.31 LINK OP1 A A 79 BA BA A 218 1555 1555 3.37 LINK N7 G A 81 MN MN A 225 1555 1555 2.29 LINK O6 G A 94 MG MG A 212 1555 1555 2.31 LINK O4 U A 100 MG MG A 211 1555 1555 3.00 LINK MG MG A 204 O HOH A 320 1555 1555 2.06 LINK MG MG A 207 O HOH A 310 1555 1555 2.07 LINK MG MG A 208 O4 U B 43 1555 1555 2.24 LINK MG MG A 211 O1G GTP A 226 1555 2555 2.77 LINK MG MG A 212 O HOH A 319 1555 1555 2.07 LINK BA BA A 213 O HOH A 304 1555 1555 3.11 LINK BA BA A 214 O HOH A 309 1555 1555 3.02 LINK BA BA A 216 O HOH A 308 1555 1555 3.18 LINK BA BA A 217 O HOH A 321 1555 1555 2.74 LINK OP1 G B 8 MG MG B 206 1555 1555 2.15 LINK O6 G B 8 BA BA B 219 1555 1555 2.76 LINK OP2 G B 9 MG MG B 206 1555 1555 2.13 LINK OP1 G B 9 MN MN B 223 1555 1555 2.43 LINK OP1 A B 10 MG MG B 206 1555 1555 2.11 LINK OP2 A B 13 MG MG B 201 1555 1555 2.17 LINK O6 G B 21 BA BA B 221 1555 1555 3.30 LINK O3' A B 23 MG MG B 205 1555 1555 2.19 LINK OP1 A B 24 MG MG B 205 1555 1555 2.10 LINK OP1 A B 33 MG MG B 213 1555 1555 2.97 LINK O6 G B 35 BA BA B 217 1555 1555 2.74 LINK O4 U B 36 BA BA B 217 1555 1555 2.74 LINK OP1 U B 39 MG MG B 206 1555 1555 2.15 LINK OP2 U B 39 MN MN B 223 1555 1555 2.25 LINK OP2 C B 40 MN MN B 223 1555 1555 2.14 LINK N7 A B 41 MN MN B 223 1555 1555 2.40 LINK OP1 U B 44 MN MN B 223 1555 1555 2.21 LINK OP1 C B 45 MG MG B 206 1555 1555 2.12 LINK OP2 C B 45 MN MN B 223 1555 1555 2.19 LINK OP2 G B 48 MG MG B 204 1555 1555 2.07 LINK O6 G B 61 BA BA B 217 1555 1555 2.76 LINK O6 G B 62 BA BA B 217 1555 1555 2.75 LINK O4 U B 68 MG MG B 207 1555 1555 2.34 LINK O6 G B 85 MG MG B 202 1555 1555 2.32 LINK MG MG B 201 O HOH B 306 1555 1555 2.07 LINK MG MG B 201 O HOH B 307 1555 1555 2.07 LINK MG MG B 201 O HOH B 308 1555 1555 2.07 LINK MG MG B 203 O HOH B 309 1555 1555 2.08 LINK MG MG B 203 O HOH B 332 1555 1555 2.06 LINK MG MG B 206 O HOH B 311 1555 1555 2.07 LINK MG MG B 209 O HOH B 322 1555 1555 2.06 LINK BA BA B 218 O HOH B 305 1555 1555 2.76 LINK BA BA B 222 O HOH B 333 1555 1555 3.34 SITE 1 AC1 5 A A 3 C A 101 GTP A 226 C B 101 SITE 2 AC1 5 C B 102 SITE 1 AC2 1 U A 64 SITE 1 AC3 2 A A 3 HOH A 320 SITE 1 AC4 2 C A 31 G A 62 SITE 1 AC5 2 G A 21 A A 22 SITE 1 AC6 6 G A 8 G A 9 A A 10 U A 39 SITE 2 AC6 6 C A 45 HOH A 310 SITE 1 AC7 4 C A 59 C A 60 U B 43 G B 94 SITE 1 AC8 1 C A 45 SITE 1 AC9 1 U A 68 SITE 1 AD1 2 U A 100 GTP A 226 SITE 1 AD2 4 G A 9 U A 43 G A 94 HOH A 319 SITE 1 AD3 4 G A 35 U A 36 G A 61 G A 62 SITE 1 AD4 2 G A 6 HOH A 309 SITE 1 AD5 1 G A 51 SITE 1 AD6 1 G A 21 SITE 1 AD7 2 G A 21 HOH A 321 SITE 1 AD8 1 A A 79 SITE 1 AD9 1 G A 8 SITE 1 AE1 2 U A 39 C A 40 SITE 1 AE2 1 A A 13 SITE 1 AE3 1 G A 46 SITE 1 AE4 6 G A 9 U A 39 C A 40 A A 41 SITE 2 AE4 6 U A 44 C A 45 SITE 1 AE5 2 G A 81 HOH A 314 SITE 1 AE6 6 C A 101 C A 102 GTP A 201 MG A 211 SITE 2 AE6 6 A B 3 C B 101 SITE 1 AE7 4 A B 13 HOH B 306 HOH B 307 HOH B 308 SITE 1 AE8 3 A B 71 U B 84 G B 85 SITE 1 AE9 3 G B 16 HOH B 309 HOH B 332 SITE 1 AF1 1 G B 48 SITE 1 AF2 2 A B 23 A B 24 SITE 1 AF3 6 G B 8 G B 9 A B 10 U B 39 SITE 2 AF3 6 C B 45 HOH B 311 SITE 1 AF4 1 U B 68 SITE 1 AF5 1 A B 33 SITE 1 AF6 1 HOH B 322 SITE 1 AF7 1 HOH B 325 SITE 1 AF8 2 C B 31 G B 62 SITE 1 AF9 1 G B 8 SITE 1 AG1 1 A B 33 SITE 1 AG2 1 U B 43 SITE 1 AG3 1 G B 21 SITE 1 AG4 4 G B 35 U B 36 G B 61 G B 62 SITE 1 AG5 1 HOH B 305 SITE 1 AG6 1 G B 8 SITE 1 AG7 2 G B 19 G B 21 SITE 1 AG8 6 G B 9 U B 39 C B 40 A B 41 SITE 2 AG8 6 U B 44 C B 45 CRYST1 67.285 127.881 115.324 90.00 93.37 90.00 C 1 2 1 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 0.014862 0.000000 0.000874 0.00000 SCALE2 0.000000 0.007820 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008686 0.00000