HEADER HYDROLASE 02-OCT-18 6HSX TITLE THROMBIN IN COMPLEX WITH A D-PHE-PRO-DIAMINOPYRIDINE DERIVATIVE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTHROMBIN; COMPND 3 CHAIN: L; COMPND 4 SYNONYM: COAGULATION FACTOR II; COMPND 5 EC: 3.4.21.5; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: PROTHROMBIN; COMPND 8 CHAIN: H; COMPND 9 SYNONYM: COAGULATION FACTOR II; COMPND 10 EC: 3.4.21.5; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: HIRUDIN VARIANT-2; COMPND 14 CHAIN: I; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_COMMON: HUMAN; SOURCE 9 ORGANISM_TAXID: 9606; SOURCE 10 MOL_ID: 3; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS; SOURCE 13 ORGANISM_COMMON: MEDICINAL LEECH; SOURCE 14 ORGANISM_TAXID: 6421 KEYWDS COAGULATION, BLOOD CLOTTING, CONVERTION OF FIBRINOGEN TO FIBRIN, KEYWDS 2 BLOOD CLOTTING INHIBITOR, THROMBIN INHIBITOR, PREORGANIZATION, KEYWDS 3 GLYCOSYLATION, BLOOD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.NGO,A.HEINE,G.KLEBE REVDAT 4 24-JAN-24 6HSX 1 HETSYN REVDAT 3 29-JUL-20 6HSX 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE REVDAT 2 06-MAY-20 6HSX 1 JRNL REVDAT 1 23-OCT-19 6HSX 0 JRNL AUTH K.NGO,C.COLLINS-KAUTZ,S.GERSTENECKER,B.WAGNER,A.HEINE, JRNL AUTH 2 G.KLEBE JRNL TITL PROTEIN-INDUCED CHANGE IN LIGAND PROTONATION DURING TRYPSIN JRNL TITL 2 AND THROMBIN BINDING: HINT ON DIFFERENCES IN SELECTIVITY JRNL TITL 3 DETERMINANTS OF BOTH PROTEINS? JRNL REF J.MED.CHEM. V. 63 3274 2020 JRNL REFN ISSN 0022-2623 JRNL PMID 32011145 JRNL DOI 10.1021/ACS.JMEDCHEM.9B02061 REMARK 2 REMARK 2 RESOLUTION. 1.56 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15.2_3472 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.56 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 49359 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.184 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2469 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 43.5100 - 4.0800 0.98 2681 142 0.1573 0.1849 REMARK 3 2 4.0800 - 3.2400 0.98 2645 139 0.1456 0.1301 REMARK 3 3 3.2400 - 2.8300 0.99 2643 139 0.1614 0.2084 REMARK 3 4 2.8300 - 2.5700 0.99 2650 139 0.1608 0.1808 REMARK 3 5 2.5700 - 2.3900 0.99 2606 138 0.1535 0.1577 REMARK 3 6 2.3900 - 2.2500 0.97 2627 138 0.1553 0.1861 REMARK 3 7 2.2500 - 2.1300 0.99 2621 138 0.1492 0.1791 REMARK 3 8 2.1300 - 2.0400 0.98 2643 139 0.1556 0.2006 REMARK 3 9 2.0400 - 1.9600 0.98 2595 136 0.1546 0.1801 REMARK 3 10 1.9600 - 1.8900 0.98 2621 138 0.1639 0.1829 REMARK 3 11 1.8900 - 1.8300 0.96 2566 135 0.1680 0.2025 REMARK 3 12 1.8300 - 1.7800 0.98 2590 137 0.1781 0.1979 REMARK 3 13 1.7800 - 1.7400 0.98 2585 136 0.1801 0.2202 REMARK 3 14 1.7400 - 1.6900 0.98 2637 139 0.1924 0.2273 REMARK 3 15 1.6900 - 1.6500 0.98 2603 137 0.1956 0.2256 REMARK 3 16 1.6500 - 1.6200 0.97 2556 134 0.2140 0.2461 REMARK 3 17 1.6200 - 1.5900 0.97 2607 138 0.2578 0.3143 REMARK 3 18 1.5900 - 1.5600 0.91 2414 127 0.3188 0.3295 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) : 0.182 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.788 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.05 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 : 0.008 2468 REMARK 3 ANGLE : 0.993 3345 REMARK 3 CHIRALITY : 0.060 348 REMARK 3 PLANARITY : 0.008 446 REMARK 3 DIHEDRAL : 14.444 1491 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 1C THROUGH 7 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.9756 14.8462 18.2119 REMARK 3 T TENSOR REMARK 3 T11: 0.2241 T22: 0.1962 REMARK 3 T33: 0.2025 T12: 0.0783 REMARK 3 T13: 0.0202 T23: 0.0068 REMARK 3 L TENSOR REMARK 3 L11: 0.0087 L22: 0.0057 REMARK 3 L33: 0.0024 L12: 0.0017 REMARK 3 L13: 0.0007 L23: 0.0025 REMARK 3 S TENSOR REMARK 3 S11: 0.0046 S12: 0.0352 S13: -0.0031 REMARK 3 S21: -0.0309 S22: -0.0848 S23: -0.0065 REMARK 3 S31: -0.0625 S32: -0.0437 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 8 THROUGH 14B) REMARK 3 ORIGIN FOR THE GROUP (A): -3.5965 12.2604 20.8168 REMARK 3 T TENSOR REMARK 3 T11: 0.2028 T22: 0.2302 REMARK 3 T33: 0.2494 T12: 0.0905 REMARK 3 T13: 0.0087 T23: -0.0232 REMARK 3 L TENSOR REMARK 3 L11: 0.0008 L22: 0.0030 REMARK 3 L33: 0.0030 L12: 0.0003 REMARK 3 L13: 0.0021 L23: -0.0005 REMARK 3 S TENSOR REMARK 3 S11: 0.0432 S12: -0.0108 S13: 0.0011 REMARK 3 S21: -0.0273 S22: -0.0373 S23: 0.0005 REMARK 3 S31: -0.0685 S32: -0.0721 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 14C THROUGH 14K) REMARK 3 ORIGIN FOR THE GROUP (A): -0.8081 5.7846 32.6041 REMARK 3 T TENSOR REMARK 3 T11: 0.2025 T22: 0.1954 REMARK 3 T33: 0.2597 T12: 0.0345 REMARK 3 T13: 0.0573 T23: -0.0012 REMARK 3 L TENSOR REMARK 3 L11: 0.0025 L22: 0.0011 REMARK 3 L33: 0.0029 L12: 0.0004 REMARK 3 L13: 0.0004 L23: -0.0039 REMARK 3 S TENSOR REMARK 3 S11: -0.0017 S12: -0.0057 S13: -0.0088 REMARK 3 S21: 0.0177 S22: -0.0008 S23: 0.0248 REMARK 3 S31: 0.0163 S32: -0.0303 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 16 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.2189 0.6557 17.2785 REMARK 3 T TENSOR REMARK 3 T11: 0.2139 T22: 0.2111 REMARK 3 T33: 0.2357 T12: 0.0647 REMARK 3 T13: -0.0320 T23: -0.0349 REMARK 3 L TENSOR REMARK 3 L11: 0.0090 L22: 0.0021 REMARK 3 L33: 0.0014 L12: -0.0008 REMARK 3 L13: 0.0033 L23: -0.0021 REMARK 3 S TENSOR REMARK 3 S11: 0.1639 S12: 0.0591 S13: -0.0950 REMARK 3 S21: -0.0722 S22: -0.0718 S23: 0.0669 REMARK 3 S31: -0.0023 S32: -0.0624 S33: 0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 30 THROUGH 50 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.3351 -1.1298 8.4719 REMARK 3 T TENSOR REMARK 3 T11: 0.3056 T22: 0.3381 REMARK 3 T33: 0.1884 T12: 0.2316 REMARK 3 T13: 0.0089 T23: -0.0296 REMARK 3 L TENSOR REMARK 3 L11: 0.0129 L22: 0.0098 REMARK 3 L33: 0.0122 L12: -0.0002 REMARK 3 L13: -0.0078 L23: 0.0146 REMARK 3 S TENSOR REMARK 3 S11: 0.1228 S12: 0.2848 S13: -0.0516 REMARK 3 S21: -0.1497 S22: -0.1323 S23: 0.0014 REMARK 3 S31: 0.1638 S32: 0.1231 S33: -0.0052 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 51 THROUGH 80 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.6251 -2.7641 8.3354 REMARK 3 T TENSOR REMARK 3 T11: 0.2066 T22: 0.2679 REMARK 3 T33: 0.1530 T12: 0.4809 REMARK 3 T13: 0.0145 T23: -0.0801 REMARK 3 L TENSOR REMARK 3 L11: 0.0181 L22: 0.0812 REMARK 3 L33: 0.0827 L12: 0.0210 REMARK 3 L13: 0.0398 L23: -0.0337 REMARK 3 S TENSOR REMARK 3 S11: 0.1559 S12: 0.2567 S13: -0.0154 REMARK 3 S21: -0.2625 S22: -0.1697 S23: 0.0017 REMARK 3 S31: 0.1585 S32: 0.0678 S33: -0.0645 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 81 THROUGH 125 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.0430 2.7474 16.0338 REMARK 3 T TENSOR REMARK 3 T11: 0.2200 T22: 0.3071 REMARK 3 T33: 0.2045 T12: 0.1257 REMARK 3 T13: 0.0400 T23: 0.0492 REMARK 3 L TENSOR REMARK 3 L11: 0.0397 L22: 0.0423 REMARK 3 L33: 0.0118 L12: 0.0159 REMARK 3 L13: 0.0473 L23: 0.0520 REMARK 3 S TENSOR REMARK 3 S11: 0.1748 S12: 0.2573 S13: 0.1347 REMARK 3 S21: -0.1181 S22: -0.2406 S23: -0.1331 REMARK 3 S31: 0.0557 S32: 0.1739 S33: 0.0118 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 126 THROUGH 140 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.6206 5.0501 32.5604 REMARK 3 T TENSOR REMARK 3 T11: 0.1926 T22: 0.1703 REMARK 3 T33: 0.2044 T12: 0.0085 REMARK 3 T13: -0.0009 T23: -0.0150 REMARK 3 L TENSOR REMARK 3 L11: 0.0275 L22: 0.0146 REMARK 3 L33: 0.0082 L12: -0.0214 REMARK 3 L13: -0.0014 L23: 0.0029 REMARK 3 S TENSOR REMARK 3 S11: 0.0310 S12: 0.0036 S13: -0.0249 REMARK 3 S21: 0.0711 S22: 0.0030 S23: 0.0197 REMARK 3 S31: -0.0131 S32: 0.1019 S33: 0.0000 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 141 THROUGH 164 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0619 -7.3627 20.3637 REMARK 3 T TENSOR REMARK 3 T11: 0.2502 T22: 0.1952 REMARK 3 T33: 0.2707 T12: 0.0754 REMARK 3 T13: -0.0730 T23: -0.0595 REMARK 3 L TENSOR REMARK 3 L11: 0.0196 L22: 0.0068 REMARK 3 L33: 0.0057 L12: 0.0113 REMARK 3 L13: -0.0058 L23: -0.0055 REMARK 3 S TENSOR REMARK 3 S11: 0.1814 S12: 0.0404 S13: -0.2342 REMARK 3 S21: -0.0718 S22: -0.0639 S23: 0.2590 REMARK 3 S31: 0.1124 S32: 0.0298 S33: -0.0012 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 165 THROUGH 179 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.6439 -10.6117 35.8798 REMARK 3 T TENSOR REMARK 3 T11: 0.2273 T22: 0.1703 REMARK 3 T33: 0.2313 T12: 0.0231 REMARK 3 T13: -0.0058 T23: 0.0065 REMARK 3 L TENSOR REMARK 3 L11: -0.0027 L22: 0.0036 REMARK 3 L33: 0.0025 L12: 0.0011 REMARK 3 L13: -0.0030 L23: -0.0053 REMARK 3 S TENSOR REMARK 3 S11: -0.0261 S12: -0.0064 S13: -0.0211 REMARK 3 S21: 0.1081 S22: 0.0023 S23: 0.0105 REMARK 3 S31: 0.0420 S32: 0.0591 S33: 0.0000 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 180 THROUGH 197 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.7309 -8.8179 28.5656 REMARK 3 T TENSOR REMARK 3 T11: 0.2193 T22: 0.1524 REMARK 3 T33: 0.2818 T12: 0.0195 REMARK 3 T13: -0.0182 T23: -0.0079 REMARK 3 L TENSOR REMARK 3 L11: 0.0332 L22: 0.0241 REMARK 3 L33: 0.0080 L12: -0.0130 REMARK 3 L13: 0.0020 L23: -0.0198 REMARK 3 S TENSOR REMARK 3 S11: 0.1878 S12: 0.0600 S13: -0.2395 REMARK 3 S21: -0.0756 S22: -0.0639 S23: 0.1740 REMARK 3 S31: 0.1652 S32: 0.0584 S33: 0.0007 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 198 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4505 -0.9240 27.4759 REMARK 3 T TENSOR REMARK 3 T11: 0.1733 T22: 0.1618 REMARK 3 T33: 0.2070 T12: 0.0471 REMARK 3 T13: 0.0037 T23: -0.0064 REMARK 3 L TENSOR REMARK 3 L11: 0.0666 L22: 0.0102 REMARK 3 L33: 0.0529 L12: -0.0298 REMARK 3 L13: 0.0485 L23: -0.0166 REMARK 3 S TENSOR REMARK 3 S11: 0.1344 S12: 0.0096 S13: -0.0668 REMARK 3 S21: -0.0495 S22: -0.0745 S23: 0.1492 REMARK 3 S31: 0.0106 S32: 0.0119 S33: 0.0000 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 232 THROUGH 245 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.0699 8.7125 23.6796 REMARK 3 T TENSOR REMARK 3 T11: 0.1490 T22: 0.2409 REMARK 3 T33: 0.3203 T12: 0.0238 REMARK 3 T13: 0.0664 T23: 0.0812 REMARK 3 L TENSOR REMARK 3 L11: 0.0036 L22: 0.0010 REMARK 3 L33: 0.0028 L12: 0.0040 REMARK 3 L13: 0.0001 L23: 0.0026 REMARK 3 S TENSOR REMARK 3 S11: 0.0022 S12: 0.0489 S13: 0.0803 REMARK 3 S21: 0.0155 S22: -0.0342 S23: -0.0466 REMARK 3 S31: -0.0157 S32: 0.0304 S33: 0.0000 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'I' AND (RESID 555 THROUGH 565 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.1159 -1.7239 -2.9464 REMARK 3 T TENSOR REMARK 3 T11: 0.6570 T22: 0.6345 REMARK 3 T33: 0.2336 T12: 0.3258 REMARK 3 T13: 0.0671 T23: -0.1030 REMARK 3 L TENSOR REMARK 3 L11: 0.0027 L22: 0.0029 REMARK 3 L33: 0.0061 L12: -0.0018 REMARK 3 L13: -0.0024 L23: 0.0048 REMARK 3 S TENSOR REMARK 3 S11: 0.0340 S12: 0.0472 S13: 0.0087 REMARK 3 S21: -0.0364 S22: -0.0068 S23: -0.0188 REMARK 3 S31: 0.0011 S32: -0.0096 S33: 0.0047 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 6HSX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-OCT-18. REMARK 100 THE DEPOSITION ID IS D_1200012022. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-17 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 : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49365 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 43.515 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 3.440 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04000 REMARK 200 FOR THE DATA SET : 17.3700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.47 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.49000 REMARK 200 FOR SHELL : 2.480 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: 2ZGB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MM SODIUM DIHYDROGEN PHOSPHATE PH REMARK 280 7.5, 350 MM NACL, 27% PEG 8000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K 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 34.99850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.86300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 34.99850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.86300 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, I 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 HOH H 408 LIES ON A SPECIAL POSITION. 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 THR L -4 REMARK 465 PHE L -3 REMARK 465 GLY L -2 REMARK 465 SER L -1 REMARK 465 GLY L 0 REMARK 465 ASP L 15 REMARK 465 GLY L 16 REMARK 465 ARG L 17 REMARK 465 TRP H 147A REMARK 465 THR H 147B REMARK 465 ALA H 147C REMARK 465 ASN H 147D REMARK 465 VAL H 147E REMARK 465 GLY H 147F REMARK 465 LYS H 147G REMARK 465 GLY H 246 REMARK 465 GLU H 247 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 GLU L 1C CG CD OE1 OE2 REMARK 470 ALA L 1B CB REMARK 470 LYS L 9 NZ REMARK 470 LYS L 14A CE NZ REMARK 470 ARG L 14D CD NE CZ NH1 NH2 REMARK 470 ILE L 14K CD1 REMARK 470 LEU H 33 CD2 REMARK 470 ARG H 50 NE CZ NH1 NH2 REMARK 470 LYS H 87 CE NZ REMARK 470 LYS H 109 NZ REMARK 470 LYS H 110 CD CE NZ REMARK 470 LYS H 145 CE NZ REMARK 470 THR H 147 OG1 CG2 REMARK 470 GLN H 151 OE1 NE2 REMARK 470 ASP H 186A CB CG OD1 OD2 REMARK 470 LYS H 186D CE NZ REMARK 470 ASN H 205 ND2 REMARK 470 LYS H 236 CD CE NZ REMARK 470 LYS H 240 CD CE NZ REMARK 470 GLN H 244 CG CD OE1 NE2 REMARK 470 PHE H 245 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASP I 555 CG OD1 OD2 REMARK 470 GLU I 558 CG CD OE1 OE2 REMARK 470 GLU I 561 CG CD OE1 OE2 REMARK 470 GLU I 562 CG CD OE1 OE2 REMARK 470 LEU I 564 CG CD1 CD2 REMARK 470 GLN I 565 CG CD OE1 NE2 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 H 469 O HOH H 587 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 PHE L 7 -87.94 -131.86 REMARK 500 TYR H 60A 86.67 -154.85 REMARK 500 ASN H 60G 82.82 -155.29 REMARK 500 HIS H 71 -61.95 -130.47 REMARK 500 ILE H 79 -61.87 -126.89 REMARK 500 SER H 195 133.28 -37.10 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 H 600 DISTANCE = 5.83 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 NA H 305 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS H 169 O REMARK 620 2 THR H 172 O 82.9 REMARK 620 3 PHE H 204A O 16.3 87.8 REMARK 620 4 HOH H 435 O 67.2 72.3 53.9 REMARK 620 5 HOH H 473 O 173.7 92.7 159.8 107.2 REMARK 620 6 HOH H 570 O 89.1 171.9 84.2 103.3 95.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA H 306 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG H 221A O REMARK 620 2 LYS H 224 O 95.6 REMARK 620 3 HOH H 449 O 87.0 91.3 REMARK 620 4 HOH H 463 O 160.2 71.0 79.0 REMARK 620 5 HOH H 500 O 103.5 159.2 81.8 88.5 REMARK 620 6 HOH H 552 O 104.4 83.8 168.0 89.0 99.0 REMARK 620 N 1 2 3 4 5 DBREF 6HSX L -4 17 UNP P00734 THRB_HUMAN 328 363 DBREF 6HSX H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 6HSX I 555 565 UNP P09945 HIRV2_HIRME 62 72 SEQRES 1 L 36 THR PHE GLY SER GLY GLU ALA ASP CYS GLY LEU ARG PRO SEQRES 2 L 36 LEU PHE GLU LYS LYS SER LEU GLU ASP LYS THR GLU ARG SEQRES 3 L 36 GLU LEU LEU GLU SER TYR ILE ASP GLY ARG SEQRES 1 H 259 ILE VAL GLU GLY SER ASP ALA GLU ILE GLY MET SER PRO SEQRES 2 H 259 TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU LEU SEQRES 3 H 259 LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL LEU SEQRES 4 H 259 THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP LYS SEQRES 5 H 259 ASN PHE THR GLU ASN ASP LEU LEU VAL ARG ILE GLY LYS SEQRES 6 H 259 HIS SER ARG THR ARG TYR GLU ARG ASN ILE GLU LYS ILE SEQRES 7 H 259 SER MET LEU GLU LYS ILE TYR ILE HIS PRO ARG TYR ASN SEQRES 8 H 259 TRP ARG GLU ASN LEU ASP ARG ASP ILE ALA LEU MET LYS SEQRES 9 H 259 LEU LYS LYS PRO VAL ALA PHE SER ASP TYR ILE HIS PRO SEQRES 10 H 259 VAL CYS LEU PRO ASP ARG GLU THR ALA ALA SER LEU LEU SEQRES 11 H 259 GLN ALA GLY TYR LYS GLY ARG VAL THR GLY TRP GLY ASN SEQRES 12 H 259 LEU LYS GLU THR TRP THR ALA ASN VAL GLY LYS GLY GLN SEQRES 13 H 259 PRO SER VAL LEU GLN VAL VAL ASN LEU PRO ILE VAL GLU SEQRES 14 H 259 ARG PRO VAL CYS LYS ASP SER THR ARG ILE ARG ILE THR SEQRES 15 H 259 ASP ASN MET PHE CYS ALA GLY TYR LYS PRO ASP GLU GLY SEQRES 16 H 259 LYS ARG GLY ASP ALA CYS GLU GLY ASP SER GLY GLY PRO SEQRES 17 H 259 PHE VAL MET LYS SER PRO PHE ASN ASN ARG TRP TYR GLN SEQRES 18 H 259 MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG ASP SEQRES 19 H 259 GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU LYS SEQRES 20 H 259 LYS TRP ILE GLN LYS VAL ILE ASP GLN PHE GLY GLU SEQRES 1 I 11 ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU GLN MODRES 6HSX TYS I 563 TYR MODIFIED RESIDUE HET TYS I 563 25 HET DMS H 301 4 HET DMS H 302 4 HET GOL H 303 6 HET GOL H 304 6 HET NA H 305 1 HET NA H 306 1 HET NAG H 307 14 HET PO4 H 308 5 HET GOZ H 309 28 HETNAM TYS O-SULFO-L-TYROSINE HETNAM DMS DIMETHYL SULFOXIDE HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM PO4 PHOSPHATE ION HETNAM GOZ (2~{S})-1-[(2~{R})-2-AZANYL-3-PHENYL-PROPANOYL]-~{N}- HETNAM 2 GOZ [[2,6-BIS(AZANYL)PYRIDIN-4-YL]METHYL]PYRROLIDINE-2- HETNAM 3 GOZ CARBOXAMIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 DMS 2(C2 H6 O S) FORMUL 6 GOL 2(C3 H8 O3) FORMUL 8 NA 2(NA 1+) FORMUL 10 NAG C8 H15 N O6 FORMUL 11 PO4 O4 P 3- FORMUL 12 GOZ C20 H26 N6 O2 FORMUL 13 HOH *228(H2 O) HELIX 1 AA1 PHE L 7 SER L 11 5 5 HELIX 2 AA2 THR L 14B TYR L 14J 1 9 HELIX 3 AA3 ALA H 55 CYS H 58 5 4 HELIX 4 AA4 PRO H 60B ASP H 60E 5 4 HELIX 5 AA5 THR H 60I ASN H 62 5 3 HELIX 6 AA6 ASP H 125 LEU H 130 1 9 HELIX 7 AA7 GLU H 164 SER H 171 1 8 HELIX 8 AA8 LYS H 185 GLY H 186C 5 5 HELIX 9 AA9 LEU H 234 PHE H 245 1 12 HELIX 10 AB1 PRO I 560 LEU I 564 5 5 SHEET 1 AA1 7 SER H 20 ASP H 21 0 SHEET 2 AA1 7 GLN H 156 PRO H 161 -1 O VAL H 157 N SER H 20 SHEET 3 AA1 7 LYS H 135 GLY H 140 -1 N VAL H 138 O VAL H 158 SHEET 4 AA1 7 PRO H 198 LYS H 202 -1 O VAL H 200 N ARG H 137 SHEET 5 AA1 7 TRP H 207 TRP H 215 -1 O TYR H 208 N MET H 201 SHEET 6 AA1 7 GLY H 226 HIS H 230 -1 O PHE H 227 N TRP H 215 SHEET 7 AA1 7 MET H 180 ALA H 183 -1 N PHE H 181 O TYR H 228 SHEET 1 AA2 7 GLN H 30 ARG H 35 0 SHEET 2 AA2 7 GLU H 39 LEU H 46 -1 O GLU H 39 N ARG H 35 SHEET 3 AA2 7 TRP H 51 THR H 54 -1 O LEU H 53 N SER H 45 SHEET 4 AA2 7 ALA H 104 LEU H 108 -1 O MET H 106 N VAL H 52 SHEET 5 AA2 7 LYS H 81 ILE H 90 -1 N GLU H 86 O LYS H 107 SHEET 6 AA2 7 LEU H 64 ILE H 68 -1 N ILE H 68 O LYS H 81 SHEET 7 AA2 7 GLN H 30 ARG H 35 -1 N PHE H 34 O LEU H 65 SHEET 1 AA3 2 LEU H 60 TYR H 60A 0 SHEET 2 AA3 2 LYS H 60F ASN H 60G-1 O LYS H 60F N TYR H 60A SSBOND 1 CYS L 1 CYS H 122 1555 1555 2.07 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.04 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.01 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.05 LINK ND2 ASN H 60G C1 NAG H 307 1555 1555 1.44 LINK C GLU I 562 N TYS I 563 1555 1555 1.33 LINK C TYS I 563 N LEU I 564 1555 1555 1.33 LINK O LYS H 169 NA NA H 305 1555 1555 2.37 LINK O THR H 172 NA NA H 305 1555 1555 2.37 LINK O PHE H 204A NA NA H 305 1555 4556 2.41 LINK O ARG H 221A NA NA H 306 1555 1555 2.29 LINK O LYS H 224 NA NA H 306 1555 1555 2.33 LINK NA NA H 305 O HOH H 435 1555 1555 2.90 LINK NA NA H 305 O HOH H 473 1555 4546 2.35 LINK NA NA H 305 O HOH H 570 1555 4546 2.39 LINK NA NA H 306 O HOH H 449 1555 1555 2.94 LINK NA NA H 306 O HOH H 463 1555 1555 2.43 LINK NA NA H 306 O HOH H 500 1555 1555 2.43 LINK NA NA H 306 O HOH H 552 1555 1555 2.37 CISPEP 1 SER H 36A PRO H 37 0 -3.47 CRYST1 69.997 71.726 72.634 90.00 100.35 90.00 C 1 2 1 4 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 0.014286 0.000000 0.002610 0.00000 SCALE2 0.000000 0.013942 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013996 0.00000