HEADER HYDROLASE 27-JUN-16 5LDP TITLE CRYSTAL STRUCTURE OF E.COLI LIGT COMPLEXED WITH ATP COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA 2',3'-CYCLIC PHOSPHODIESTERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: RNA 2',3'-CPDASE; COMPND 5 EC: 3.1.4.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI BL21(DE3); SOURCE 3 ORGANISM_TAXID: 469008; SOURCE 4 GENE: THPR, ECBD_3472; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PTH 27 KEYWDS ENZYME, 2H PHOSPHOESTERASE/LIGASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.MYLLYKOSKI,P.KURSULA REVDAT 4 10-JAN-24 5LDP 1 LINK REVDAT 3 17-JAN-18 5LDP 1 REMARK REVDAT 2 08-FEB-17 5LDP 1 JRNL REVDAT 1 18-JAN-17 5LDP 0 JRNL AUTH M.MYLLYKOSKI,P.KURSULA JRNL TITL STRUCTURAL ASPECTS OF NUCLEOTIDE LIGAND BINDING BY A JRNL TITL 2 BACTERIAL 2H PHOSPHOESTERASE. JRNL REF PLOS ONE V. 12 70355 2017 JRNL REFN ESSN 1932-6203 JRNL PMID 28141848 JRNL DOI 10.1371/JOURNAL.PONE.0170355 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX DEV_1467 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 41615 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.750 REMARK 3 FREE R VALUE TEST SET COUNT : 1975 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 19.7037 - 4.3239 0.99 2865 146 0.1492 0.1765 REMARK 3 2 4.3239 - 3.4380 1.00 2872 138 0.1378 0.1695 REMARK 3 3 3.4380 - 3.0051 1.00 2845 139 0.1650 0.1893 REMARK 3 4 3.0051 - 2.7311 1.00 2830 140 0.1700 0.2195 REMARK 3 5 2.7311 - 2.5358 1.00 2837 142 0.1803 0.2444 REMARK 3 6 2.5358 - 2.3866 1.00 2846 140 0.1762 0.2221 REMARK 3 7 2.3866 - 2.2672 1.00 2842 136 0.1781 0.2279 REMARK 3 8 2.2672 - 2.1687 1.00 2787 147 0.1716 0.2118 REMARK 3 9 2.1687 - 2.0853 1.00 2854 141 0.1830 0.2589 REMARK 3 10 2.0853 - 2.0134 1.00 2826 135 0.1949 0.2347 REMARK 3 11 2.0134 - 1.9505 1.00 2838 146 0.2102 0.2603 REMARK 3 12 1.9505 - 1.8948 1.00 2790 141 0.2322 0.2916 REMARK 3 13 1.8948 - 1.8450 1.00 2798 137 0.2744 0.3155 REMARK 3 14 1.8450 - 1.8000 1.00 2810 147 0.2949 0.3360 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.91 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 : 0.009 3097 REMARK 3 ANGLE : 1.242 4254 REMARK 3 CHIRALITY : 0.052 447 REMARK 3 PLANARITY : 0.005 546 REMARK 3 DIHEDRAL : 16.958 1167 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 17 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 14 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.2022 -0.5714 13.6060 REMARK 3 T TENSOR REMARK 3 T11: 0.2200 T22: 0.3908 REMARK 3 T33: 0.2437 T12: -0.0207 REMARK 3 T13: 0.0024 T23: 0.1239 REMARK 3 L TENSOR REMARK 3 L11: 4.7267 L22: 6.8513 REMARK 3 L33: 3.5918 L12: -3.8580 REMARK 3 L13: -0.6210 L23: 1.6372 REMARK 3 S TENSOR REMARK 3 S11: -0.0704 S12: 0.0047 S13: 0.0485 REMARK 3 S21: 0.0346 S22: 0.1573 S23: 0.7001 REMARK 3 S31: 0.3717 S32: -0.9056 S33: -0.0994 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 15 THROUGH 38 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.6077 -11.5278 19.8678 REMARK 3 T TENSOR REMARK 3 T11: 0.3997 T22: 0.2129 REMARK 3 T33: 0.3631 T12: 0.0397 REMARK 3 T13: -0.0452 T23: 0.0782 REMARK 3 L TENSOR REMARK 3 L11: 5.6617 L22: 7.8060 REMARK 3 L33: 8.0833 L12: -0.0434 REMARK 3 L13: 1.8105 L23: -3.8028 REMARK 3 S TENSOR REMARK 3 S11: 0.1063 S12: -0.5763 S13: -0.8220 REMARK 3 S21: -0.1342 S22: 0.1382 S23: -0.0311 REMARK 3 S31: 0.8487 S32: 0.0460 S33: -0.1362 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 39 THROUGH 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.5461 4.2460 13.2304 REMARK 3 T TENSOR REMARK 3 T11: 0.2512 T22: 0.3550 REMARK 3 T33: 0.3214 T12: 0.0590 REMARK 3 T13: 0.0378 T23: 0.0481 REMARK 3 L TENSOR REMARK 3 L11: 6.7934 L22: 2.8441 REMARK 3 L33: 5.0959 L12: -1.7895 REMARK 3 L13: 1.4306 L23: -1.2466 REMARK 3 S TENSOR REMARK 3 S11: 0.1395 S12: -0.3724 S13: -0.2498 REMARK 3 S21: 0.0229 S22: 0.2105 S23: 0.6876 REMARK 3 S31: -0.2440 S32: -0.9265 S33: -0.3087 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 67 THROUGH 96 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.9513 4.2104 20.9123 REMARK 3 T TENSOR REMARK 3 T11: 0.2714 T22: 0.2641 REMARK 3 T33: 0.2271 T12: 0.0505 REMARK 3 T13: 0.0107 T23: -0.0289 REMARK 3 L TENSOR REMARK 3 L11: 3.4857 L22: 0.8246 REMARK 3 L33: 0.6354 L12: -0.6076 REMARK 3 L13: 0.4686 L23: 0.1714 REMARK 3 S TENSOR REMARK 3 S11: -0.2064 S12: -0.6986 S13: 0.1096 REMARK 3 S21: 0.2782 S22: 0.1211 S23: 0.0268 REMARK 3 S31: -0.0476 S32: -0.2686 S33: -0.0326 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 97 THROUGH 113 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.3068 13.8411 15.6979 REMARK 3 T TENSOR REMARK 3 T11: 0.4709 T22: 0.2329 REMARK 3 T33: 0.3275 T12: 0.1234 REMARK 3 T13: 0.0303 T23: -0.0107 REMARK 3 L TENSOR REMARK 3 L11: 6.1941 L22: 4.2031 REMARK 3 L33: 8.0805 L12: -3.7903 REMARK 3 L13: -2.8355 L23: 0.7431 REMARK 3 S TENSOR REMARK 3 S11: 0.0282 S12: -0.7638 S13: 1.1374 REMARK 3 S21: 0.3428 S22: 0.2339 S23: 0.1980 REMARK 3 S31: -0.6930 S32: -0.2829 S33: -0.1761 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 114 THROUGH 124 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.9957 10.0035 25.0304 REMARK 3 T TENSOR REMARK 3 T11: 0.9107 T22: 1.0591 REMARK 3 T33: 0.5561 T12: 0.1579 REMARK 3 T13: 0.1265 T23: -0.1291 REMARK 3 L TENSOR REMARK 3 L11: 6.4777 L22: 5.7194 REMARK 3 L33: 4.7120 L12: 3.5884 REMARK 3 L13: 3.9909 L23: 1.1778 REMARK 3 S TENSOR REMARK 3 S11: 0.1408 S12: -3.9466 S13: 2.3827 REMARK 3 S21: 2.1123 S22: 0.4053 S23: 0.5624 REMARK 3 S31: 0.8249 S32: -1.8361 S33: -0.3779 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 125 THROUGH 134 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.3271 -6.1001 27.9298 REMARK 3 T TENSOR REMARK 3 T11: 0.4759 T22: 0.6829 REMARK 3 T33: 0.3629 T12: 0.0518 REMARK 3 T13: 0.0748 T23: 0.2184 REMARK 3 L TENSOR REMARK 3 L11: 0.1931 L22: 3.9452 REMARK 3 L33: 5.1596 L12: 0.6488 REMARK 3 L13: -0.7770 L23: -4.4810 REMARK 3 S TENSOR REMARK 3 S11: 0.0427 S12: -1.5256 S13: -0.6225 REMARK 3 S21: 0.9098 S22: 0.4005 S23: 0.8750 REMARK 3 S31: 0.3045 S32: 0.0035 S33: -0.3787 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 135 THROUGH 150 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.4232 -2.1904 18.5656 REMARK 3 T TENSOR REMARK 3 T11: 0.2478 T22: 0.2422 REMARK 3 T33: 0.2337 T12: 0.0355 REMARK 3 T13: -0.0078 T23: 0.0165 REMARK 3 L TENSOR REMARK 3 L11: 4.6079 L22: 0.5227 REMARK 3 L33: 0.5368 L12: -0.8612 REMARK 3 L13: -0.9229 L23: 0.6047 REMARK 3 S TENSOR REMARK 3 S11: 0.0144 S12: -0.7281 S13: -0.1708 REMARK 3 S21: 0.1003 S22: 0.0986 S23: 0.0029 REMARK 3 S31: 0.4607 S32: 0.1818 S33: -0.1031 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 151 THROUGH 162 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.3511 -5.1089 13.9931 REMARK 3 T TENSOR REMARK 3 T11: 0.3818 T22: 0.3971 REMARK 3 T33: 0.4726 T12: -0.0231 REMARK 3 T13: 0.0749 T23: 0.1382 REMARK 3 L TENSOR REMARK 3 L11: 4.7535 L22: 6.7301 REMARK 3 L33: 6.5754 L12: 0.1137 REMARK 3 L13: -0.0809 L23: -1.2700 REMARK 3 S TENSOR REMARK 3 S11: -0.1644 S12: -0.7245 S13: -1.3651 REMARK 3 S21: 0.5406 S22: -0.0330 S23: 0.2883 REMARK 3 S31: 0.9336 S32: -0.5360 S33: 0.1442 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 163 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.3814 1.3072 7.4776 REMARK 3 T TENSOR REMARK 3 T11: 0.1893 T22: 0.1152 REMARK 3 T33: 0.2072 T12: 0.0518 REMARK 3 T13: 0.0376 T23: 0.0019 REMARK 3 L TENSOR REMARK 3 L11: 5.7418 L22: 7.0032 REMARK 3 L33: 6.7832 L12: 0.5077 REMARK 3 L13: 0.8893 L23: -1.0954 REMARK 3 S TENSOR REMARK 3 S11: -0.2758 S12: 0.0552 S13: -0.3942 REMARK 3 S21: -0.0447 S22: 0.1372 S23: 0.1010 REMARK 3 S31: 0.2766 S32: -0.3199 S33: 0.1147 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 3 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.4901 -6.4941 12.4493 REMARK 3 T TENSOR REMARK 3 T11: 0.2156 T22: 0.1419 REMARK 3 T33: 0.2311 T12: 0.0162 REMARK 3 T13: -0.0200 T23: 0.0214 REMARK 3 L TENSOR REMARK 3 L11: 3.8103 L22: 3.0077 REMARK 3 L33: 6.7300 L12: -0.5789 REMARK 3 L13: -0.5142 L23: 1.9590 REMARK 3 S TENSOR REMARK 3 S11: -0.1994 S12: -0.1861 S13: -0.3482 REMARK 3 S21: 0.1795 S22: 0.0297 S23: -0.0628 REMARK 3 S31: 0.5700 S32: -0.1660 S33: 0.1990 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 29 THROUGH 46 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.1094 -8.9239 13.0290 REMARK 3 T TENSOR REMARK 3 T11: 0.2884 T22: 0.2491 REMARK 3 T33: 0.3119 T12: 0.0910 REMARK 3 T13: -0.0010 T23: -0.0335 REMARK 3 L TENSOR REMARK 3 L11: 7.4241 L22: 3.0151 REMARK 3 L33: 5.5809 L12: -4.6890 REMARK 3 L13: -5.5895 L23: 3.7863 REMARK 3 S TENSOR REMARK 3 S11: -0.7497 S12: -0.5506 S13: -0.6646 REMARK 3 S21: 0.5652 S22: 0.4554 S23: 0.0714 REMARK 3 S31: 0.6621 S32: 0.4018 S33: 0.2665 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 47 THROUGH 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.7011 6.4813 31.4240 REMARK 3 T TENSOR REMARK 3 T11: 0.6002 T22: 0.7207 REMARK 3 T33: 0.3506 T12: 0.0465 REMARK 3 T13: -0.1313 T23: -0.1552 REMARK 3 L TENSOR REMARK 3 L11: 2.9884 L22: 3.4666 REMARK 3 L33: 7.0124 L12: 1.1651 REMARK 3 L13: 1.6010 L23: -2.8231 REMARK 3 S TENSOR REMARK 3 S11: -0.5228 S12: -1.4540 S13: 0.3416 REMARK 3 S21: 1.5628 S22: 0.1691 S23: -0.3489 REMARK 3 S31: -0.3964 S32: 0.4095 S33: 0.2022 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 67 THROUGH 96 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.8918 4.3565 8.9002 REMARK 3 T TENSOR REMARK 3 T11: 0.2422 T22: 0.2014 REMARK 3 T33: 0.2451 T12: -0.0246 REMARK 3 T13: -0.0329 T23: -0.0406 REMARK 3 L TENSOR REMARK 3 L11: 1.1222 L22: 2.3620 REMARK 3 L33: 2.6693 L12: -0.0331 REMARK 3 L13: -1.3078 L23: 1.3786 REMARK 3 S TENSOR REMARK 3 S11: 0.0024 S12: -0.2415 S13: 0.3070 REMARK 3 S21: 0.2584 S22: 0.1394 S23: -0.3615 REMARK 3 S31: -0.1305 S32: 0.3665 S33: -0.0948 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 97 THROUGH 112 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.6763 13.6961 20.1406 REMARK 3 T TENSOR REMARK 3 T11: 0.5135 T22: 0.4365 REMARK 3 T33: 0.5456 T12: -0.1482 REMARK 3 T13: -0.0021 T23: -0.1915 REMARK 3 L TENSOR REMARK 3 L11: 3.3818 L22: 4.8456 REMARK 3 L33: 2.9907 L12: -0.4322 REMARK 3 L13: 1.4657 L23: -0.2243 REMARK 3 S TENSOR REMARK 3 S11: 0.5810 S12: -1.0709 S13: 1.3440 REMARK 3 S21: 0.8536 S22: -0.1278 S23: -0.3224 REMARK 3 S31: -1.5884 S32: 1.3577 S33: 0.1721 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 113 THROUGH 150 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.4039 -1.7444 8.8066 REMARK 3 T TENSOR REMARK 3 T11: 0.2159 T22: 0.2355 REMARK 3 T33: 0.2668 T12: 0.0245 REMARK 3 T13: -0.0382 T23: -0.0591 REMARK 3 L TENSOR REMARK 3 L11: 3.6363 L22: 2.0627 REMARK 3 L33: 3.8334 L12: -0.5484 REMARK 3 L13: -0.4724 L23: 0.4591 REMARK 3 S TENSOR REMARK 3 S11: -0.0376 S12: -0.2406 S13: 0.1976 REMARK 3 S21: 0.1322 S22: 0.1679 S23: -0.4308 REMARK 3 S31: 0.1335 S32: 0.6446 S33: -0.0646 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 151 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.6162 -3.0484 22.5105 REMARK 3 T TENSOR REMARK 3 T11: 0.3621 T22: 0.2821 REMARK 3 T33: 0.3111 T12: 0.0781 REMARK 3 T13: -0.0415 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 4.1192 L22: 2.9477 REMARK 3 L33: 4.2884 L12: -0.5341 REMARK 3 L13: -0.5680 L23: -0.6949 REMARK 3 S TENSOR REMARK 3 S11: -0.1876 S12: -0.5831 S13: -0.4214 REMARK 3 S21: 0.2640 S22: 0.0308 S23: -0.2286 REMARK 3 S31: 0.6152 S32: 0.3133 S33: 0.0741 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 5LDP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000571. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.04 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41617 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.380 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.4700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.33 REMARK 200 R MERGE FOR SHELL (I) : 1.06100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.310 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: PDBID: 5LDI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL PH 7.5, 0.2 M MGCL2, REMARK 280 18% (W/V) PEG 8000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K 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 51.07500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.73500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.07500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.73500 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLY A 0 REMARK 465 MET A 1 REMARK 465 GLY B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 GLY B 114 REMARK 465 CYS B 115 REMARK 465 PHE B 116 REMARK 465 GLN B 117 REMARK 465 SER B 118 REMARK 465 ASN B 119 REMARK 465 ARG B 120 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 LEU A 174 O HOH A 301 2.07 REMARK 500 OE1 GLN A 69 O HOH A 302 2.12 REMARK 500 O HOH A 401 O HOH B 392 2.13 REMARK 500 O HOH B 349 O HOH B 434 2.18 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 O HOH B 310 O HOH B 334 2656 2.14 REMARK 500 O HOH A 402 O HOH B 380 2555 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN B 144 32.60 72.10 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 B 452 DISTANCE = 6.01 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 A 206 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP A 201 O2G REMARK 620 2 ATP A 201 O2B 76.7 REMARK 620 3 ATP A 201 O2A 80.8 74.7 REMARK 620 4 HOH A 407 O 159.8 89.5 110.0 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 ATP B 201 O2G REMARK 620 2 ATP B 201 O2B 78.0 REMARK 620 3 ATP B 201 O1A 93.0 75.4 REMARK 620 4 ATP B 202 O2G 94.2 149.0 75.1 REMARK 620 5 HOH B 359 O 155.7 80.1 91.5 110.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ATP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ATP B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ATP B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 204 DBREF1 5LDP A 1 176 UNP A0A140NFI1_ECOBD DBREF2 5LDP A A0A140NFI1 1 176 DBREF1 5LDP B 1 176 UNP A0A140NFI1_ECOBD DBREF2 5LDP B A0A140NFI1 1 176 SEQADV 5LDP GLY A 0 UNP A0A140NFI EXPRESSION TAG SEQADV 5LDP GLY B 0 UNP A0A140NFI EXPRESSION TAG SEQRES 1 A 177 GLY MET SER GLU PRO GLN ARG LEU PHE PHE ALA ILE ASP SEQRES 2 A 177 LEU PRO ALA GLU ILE ARG GLU GLN ILE ILE HIS TRP ARG SEQRES 3 A 177 ALA LYS HIS PHE PRO PRO GLU ALA GLY ARG PRO VAL ALA SEQRES 4 A 177 ALA ASP ASN LEU HIS LEU THR LEU ALA PHE LEU GLY GLU SEQRES 5 A 177 VAL SER ALA GLU LYS GLU LYS ALA LEU SER LEU LEU ALA SEQRES 6 A 177 GLY ARG ILE ARG GLN PRO GLY PHE THR LEU THR LEU ASP SEQRES 7 A 177 ASP ALA GLY GLN TRP LEU ARG SER ARG VAL VAL TRP LEU SEQRES 8 A 177 GLY MET ARG GLN PRO PRO ARG GLY LEU ILE GLN LEU ALA SEQRES 9 A 177 ASN MET LEU ARG SER GLN ALA ALA ARG SER GLY CYS PHE SEQRES 10 A 177 GLN SER ASN ARG PRO PHE HIS PRO HIS ILE THR LEU LEU SEQRES 11 A 177 ARG ASP ALA SER GLU ALA VAL THR ILE PRO PRO PRO GLY SEQRES 12 A 177 PHE ASN TRP SER TYR ALA VAL THR GLU PHE THR LEU TYR SEQRES 13 A 177 ALA SER SER PHE ALA ARG GLY ARG THR ARG TYR THR PRO SEQRES 14 A 177 LEU LYS ARG TRP ALA LEU THR GLN SEQRES 1 B 177 GLY MET SER GLU PRO GLN ARG LEU PHE PHE ALA ILE ASP SEQRES 2 B 177 LEU PRO ALA GLU ILE ARG GLU GLN ILE ILE HIS TRP ARG SEQRES 3 B 177 ALA LYS HIS PHE PRO PRO GLU ALA GLY ARG PRO VAL ALA SEQRES 4 B 177 ALA ASP ASN LEU HIS LEU THR LEU ALA PHE LEU GLY GLU SEQRES 5 B 177 VAL SER ALA GLU LYS GLU LYS ALA LEU SER LEU LEU ALA SEQRES 6 B 177 GLY ARG ILE ARG GLN PRO GLY PHE THR LEU THR LEU ASP SEQRES 7 B 177 ASP ALA GLY GLN TRP LEU ARG SER ARG VAL VAL TRP LEU SEQRES 8 B 177 GLY MET ARG GLN PRO PRO ARG GLY LEU ILE GLN LEU ALA SEQRES 9 B 177 ASN MET LEU ARG SER GLN ALA ALA ARG SER GLY CYS PHE SEQRES 10 B 177 GLN SER ASN ARG PRO PHE HIS PRO HIS ILE THR LEU LEU SEQRES 11 B 177 ARG ASP ALA SER GLU ALA VAL THR ILE PRO PRO PRO GLY SEQRES 12 B 177 PHE ASN TRP SER TYR ALA VAL THR GLU PHE THR LEU TYR SEQRES 13 B 177 ALA SER SER PHE ALA ARG GLY ARG THR ARG TYR THR PRO SEQRES 14 B 177 LEU LYS ARG TRP ALA LEU THR GLN HET ATP A 201 31 HET CL A 202 1 HET CL A 203 1 HET CL A 204 1 HET CL A 205 1 HET MG A 206 1 HET ATP B 201 31 HET ATP B 202 43 HET MG B 203 1 HET CL B 204 1 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION FORMUL 3 ATP 3(C10 H16 N5 O13 P3) FORMUL 4 CL 5(CL 1-) FORMUL 8 MG 2(MG 2+) FORMUL 13 HOH *308(H2 O) HELIX 1 AA1 PRO A 14 PHE A 29 1 16 HELIX 2 AA2 PRO A 30 GLY A 34 5 5 HELIX 3 AA3 ALA A 38 LEU A 42 5 5 HELIX 4 AA4 SER A 53 GLY A 65 1 13 HELIX 5 AA5 PRO A 96 SER A 113 1 18 HELIX 6 AA6 PRO B 14 PHE B 29 1 16 HELIX 7 AA7 PRO B 30 GLY B 34 5 5 HELIX 8 AA8 ALA B 38 ASN B 41 5 4 HELIX 9 AA9 SER B 53 ILE B 67 1 15 HELIX 10 AB1 PRO B 96 ARG B 112 1 17 SHEET 1 AA1 4 LEU A 44 VAL A 52 0 SHEET 2 AA1 4 GLN A 5 ILE A 11 -1 N GLN A 5 O VAL A 52 SHEET 3 AA1 4 GLU A 151 ALA A 160 -1 O TYR A 155 N PHE A 8 SHEET 4 AA1 4 ARG A 163 ALA A 173 -1 O LEU A 169 N LEU A 154 SHEET 1 AA2 4 ARG A 35 PRO A 36 0 SHEET 2 AA2 4 HIS A 125 ARG A 130 -1 O ARG A 130 N ARG A 35 SHEET 3 AA2 4 VAL A 87 GLY A 91 -1 N VAL A 88 O LEU A 128 SHEET 4 AA2 4 ASP A 78 TRP A 82 -1 N TRP A 82 O VAL A 87 SHEET 1 AA3 2 PHE A 72 THR A 75 0 SHEET 2 AA3 2 SER A 146 VAL A 149 -1 O VAL A 149 N PHE A 72 SHEET 1 AA4 4 HIS B 43 VAL B 52 0 SHEET 2 AA4 4 GLN B 5 ASP B 12 -1 N GLN B 5 O VAL B 52 SHEET 3 AA4 4 GLU B 151 ALA B 160 -1 O TYR B 155 N PHE B 8 SHEET 4 AA4 4 ARG B 163 ALA B 173 -1 O LEU B 169 N LEU B 154 SHEET 1 AA5 4 ARG B 35 PRO B 36 0 SHEET 2 AA5 4 ILE B 126 ARG B 130 -1 O ARG B 130 N ARG B 35 SHEET 3 AA5 4 VAL B 87 GLY B 91 -1 N VAL B 88 O LEU B 128 SHEET 4 AA5 4 ASP B 78 TRP B 82 -1 N TRP B 82 O VAL B 87 SHEET 1 AA6 2 PHE B 72 THR B 75 0 SHEET 2 AA6 2 SER B 146 VAL B 149 -1 O VAL B 149 N PHE B 72 LINK O2G ATP A 201 MG MG A 206 1555 1555 2.00 LINK O2B ATP A 201 MG MG A 206 1555 1555 2.37 LINK O2A ATP A 201 MG MG A 206 1555 1555 2.35 LINK MG MG A 206 O HOH A 407 1555 1555 2.03 LINK O2G ATP B 201 MG MG B 203 1555 1555 1.95 LINK O2B ATP B 201 MG MG B 203 1555 1555 2.29 LINK O1A ATP B 201 MG MG B 203 1555 1555 2.39 LINK O2G ATP B 202 MG MG B 203 1555 2656 2.02 LINK MG MG B 203 O HOH B 359 1555 1555 2.07 SITE 1 AC1 16 ARG A 6 PHE A 8 HIS A 43 THR A 45 SITE 2 AC1 16 PHE A 48 ARG A 86 ARG A 130 SER A 157 SITE 3 AC1 16 THR A 164 TYR A 166 CL A 205 MG A 206 SITE 4 AC1 16 HOH A 337 HOH A 373 HOH A 396 HOH A 404 SITE 1 AC2 3 ALA A 38 ASN A 41 HOH A 414 SITE 1 AC3 3 GLY A 80 GLN A 81 HOH A 324 SITE 1 AC4 2 THR A 137 ILE A 138 SITE 1 AC5 4 HIS A 125 THR A 127 ATP A 201 HOH A 304 SITE 1 AC6 2 ATP A 201 HOH A 407 SITE 1 AC7 18 ARG B 6 PHE B 8 HIS B 43 THR B 45 SITE 2 AC7 18 PHE B 48 ARG B 130 SER B 157 PHE B 159 SITE 3 AC7 18 THR B 164 TYR B 166 ATP B 202 MG B 203 SITE 4 AC7 18 CL B 204 HOH B 320 HOH B 326 HOH B 359 SITE 5 AC7 18 HOH B 368 HOH B 381 SITE 1 AC8 10 ARG B 6 GLU B 51 SER B 157 SER B 158 SITE 2 AC8 10 PHE B 159 ATP B 201 MG B 203 HOH B 310 SITE 3 AC8 10 HOH B 334 HOH B 359 SITE 1 AC9 3 ATP B 201 ATP B 202 HOH B 359 SITE 1 AD1 4 HIS B 125 THR B 127 ATP B 201 HOH B 302 CRYST1 102.150 73.470 77.610 90.00 128.34 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 0.009790 0.000000 0.007741 0.00000 SCALE2 0.000000 0.013611 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016427 0.00000