HEADER HYDROLASE/HYDROLASE INHIBITOR 16-JUN-11 3SHA TITLE HUMAN THROMBIN IN COMPLEX WITH UBTHR97 COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 EC: 3.4.21.5; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: THROMBIN HEAVY CHAIN; COMPND 7 CHAIN: H; COMPND 8 EC: 3.4.21.5; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HIRUDIN VARIANT-2; COMPND 11 CHAIN: I; COMPND 12 FRAGMENT: RESIDUES IN UNP 60-72; COMPND 13 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 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS; SOURCE 12 ORGANISM_COMMON: MEDICINAL LEECH; SOURCE 13 ORGANISM_TAXID: 6421; SOURCE 14 OTHER_DETAILS: SYNTHETIC FRAGMENT OF HIRUDIN FROM HIRUDO MEDICINALIS KEYWDS SERINE PROTEASE, KRINGLE, HYDROLASE, BLOOD COAGULATION, BLOOD KEYWDS 2 CLOTTING, CONVERTION OF FIBRINOGEN TO FIBRIN, CLEAVAGE ON PAIRS OF KEYWDS 3 BASIC RESIDUES, THROMBIN INHIBITOR, GLYCOSYLATION, BLOOD, HYDROLASE- KEYWDS 4 HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.BIELA,A.HEINE,G.KLEBE REVDAT 4 06-DEC-23 3SHA 1 REMARK REVDAT 3 01-NOV-23 3SHA 1 HETSYN REVDAT 2 29-JUL-20 3SHA 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE REVDAT 1 20-JUN-12 3SHA 0 JRNL AUTH A.BIELA,M.KHAYAT,H.TAN,J.KONG,A.HEINE,D.HANGAUER,G.KLEBE JRNL TITL IMPACT OF LIGAND AND PROTEIN DESOLVATION ON LIGAND BINDING JRNL TITL 2 TO THE S1 POCKET OF THROMBIN JRNL REF J.MOL.BIOL. V. 418 350 2012 JRNL REFN ISSN 0022-2836 JRNL PMID 22366545 JRNL DOI 10.1016/J.JMB.2012.01.054 REMARK 2 REMARK 2 RESOLUTION. 1.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7_650) 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) : 1.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 48953 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) : 0.161 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 2468 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 31.9114 - 3.9811 0.98 2854 165 0.1513 0.1574 REMARK 3 2 3.9811 - 3.1608 0.98 2813 125 0.1394 0.1578 REMARK 3 3 3.1608 - 2.7615 0.98 2760 153 0.1640 0.2100 REMARK 3 4 2.7615 - 2.5092 0.97 2728 159 0.1749 0.2128 REMARK 3 5 2.5092 - 2.3294 0.97 2751 155 0.1559 0.1848 REMARK 3 6 2.3294 - 2.1921 0.96 2707 143 0.1563 0.1928 REMARK 3 7 2.1921 - 2.0823 0.96 2684 148 0.1545 0.1936 REMARK 3 8 2.0823 - 1.9917 0.95 2696 125 0.1533 0.1873 REMARK 3 9 1.9917 - 1.9150 0.93 2607 139 0.1510 0.1841 REMARK 3 10 1.9150 - 1.8489 0.92 2603 119 0.1579 0.1718 REMARK 3 11 1.8489 - 1.7911 0.91 2551 149 0.1563 0.1818 REMARK 3 12 1.7911 - 1.7399 0.90 2568 122 0.1652 0.2077 REMARK 3 13 1.7399 - 1.6941 0.88 2459 144 0.1755 0.1959 REMARK 3 14 1.6941 - 1.6528 0.87 2407 137 0.1792 0.2056 REMARK 3 15 1.6528 - 1.6152 0.85 2436 112 0.1893 0.2200 REMARK 3 16 1.6152 - 1.5809 0.84 2364 134 0.2237 0.2986 REMARK 3 17 1.5809 - 1.5492 0.82 2294 127 0.2420 0.2790 REMARK 3 18 1.5492 - 1.5200 0.79 2203 112 0.2540 0.2944 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.37 REMARK 3 B_SOL : 43.36 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.230 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.32 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.83420 REMARK 3 B22 (A**2) : -3.09720 REMARK 3 B33 (A**2) : 0.26300 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.43460 REMARK 3 B23 (A**2) : 0.00000 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 2543 REMARK 3 ANGLE : 1.091 3453 REMARK 3 CHIRALITY : 0.074 360 REMARK 3 PLANARITY : 0.005 437 REMARK 3 DIHEDRAL : 16.059 1011 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN H AND RESID 16:41) REMARK 3 ORIGIN FOR THE GROUP (A): -8.2474 -1.4510 -11.5057 REMARK 3 T TENSOR REMARK 3 T11: 0.1295 T22: 0.1600 REMARK 3 T33: 0.0906 T12: -0.1115 REMARK 3 T13: -0.0342 T23: 0.1057 REMARK 3 L TENSOR REMARK 3 L11: 0.5698 L22: 0.5367 REMARK 3 L33: 0.6411 L12: 0.1663 REMARK 3 L13: -0.1158 L23: 0.0114 REMARK 3 S TENSOR REMARK 3 S11: 0.3313 S12: -0.3190 S13: -0.2913 REMARK 3 S21: 0.2222 S22: -0.1240 S23: -0.1210 REMARK 3 S31: 0.3020 S32: -0.0139 S33: 0.3725 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN H AND RESID 42:122) REMARK 3 ORIGIN FOR THE GROUP (A): -18.6087 1.5615 -11.6414 REMARK 3 T TENSOR REMARK 3 T11: 0.1185 T22: 0.2018 REMARK 3 T33: 0.0780 T12: -0.1034 REMARK 3 T13: 0.0116 T23: -0.0040 REMARK 3 L TENSOR REMARK 3 L11: 0.3889 L22: 0.5876 REMARK 3 L33: 0.4731 L12: 0.2538 REMARK 3 L13: 0.1334 L23: 0.0733 REMARK 3 S TENSOR REMARK 3 S11: 0.2227 S12: -0.4011 S13: 0.0466 REMARK 3 S21: 0.1810 S22: -0.2890 S23: 0.1467 REMARK 3 S31: 0.1041 S32: -0.2640 S33: -0.0470 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN H AND RESID 123:138) REMARK 3 ORIGIN FOR THE GROUP (A): -11.0080 7.2228 -32.4469 REMARK 3 T TENSOR REMARK 3 T11: 0.0955 T22: 0.0871 REMARK 3 T33: 0.0750 T12: -0.0250 REMARK 3 T13: -0.0273 T23: 0.0302 REMARK 3 L TENSOR REMARK 3 L11: 0.3845 L22: 0.4209 REMARK 3 L33: 0.1399 L12: -0.0811 REMARK 3 L13: 0.0972 L23: -0.2370 REMARK 3 S TENSOR REMARK 3 S11: -0.1044 S12: 0.1080 S13: 0.0602 REMARK 3 S21: -0.1773 S22: 0.0877 S23: -0.0042 REMARK 3 S31: 0.0062 S32: -0.0374 S33: 0.0181 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN H AND RESID 139:186) REMARK 3 ORIGIN FOR THE GROUP (A): -10.0700 -7.4068 -27.6241 REMARK 3 T TENSOR REMARK 3 T11: 0.1319 T22: 0.0897 REMARK 3 T33: 0.1285 T12: -0.0093 REMARK 3 T13: -0.0079 T23: -0.0048 REMARK 3 L TENSOR REMARK 3 L11: 0.5225 L22: 0.6259 REMARK 3 L33: 0.2150 L12: 0.4981 REMARK 3 L13: -0.0423 L23: 0.1986 REMARK 3 S TENSOR REMARK 3 S11: 0.0517 S12: 0.0472 S13: -0.2382 REMARK 3 S21: -0.0436 S22: 0.0043 S23: -0.1663 REMARK 3 S31: 0.1249 S32: 0.0037 S33: -0.0703 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN H AND RESID 186A:192) REMARK 3 ORIGIN FOR THE GROUP (A): -11.951 -10.328 -23.878 REMARK 3 T TENSOR REMARK 3 T11: 0.2107 T22: 0.1270 REMARK 3 T33: 0.2616 T12: 0.0048 REMARK 3 T13: 0.0385 T23: -0.0265 REMARK 3 L TENSOR REMARK 3 L11: 0.2195 L22: 0.0130 REMARK 3 L33: 1.2514 L12: 0.0208 REMARK 3 L13: 0.2419 L23: 0.0189 REMARK 3 S TENSOR REMARK 3 S11: 0.0318 S12: 0.0698 S13: -0.3186 REMARK 3 S21: 0.0302 S22: 0.1474 S23: -0.3075 REMARK 3 S31: 0.4098 S32: 0.0346 S33: 0.0216 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN H AND RESID 193:238) REMARK 3 ORIGIN FOR THE GROUP (A): -12.9482 0.9850 -26.5917 REMARK 3 T TENSOR REMARK 3 T11: 0.0867 T22: 0.0786 REMARK 3 T33: 0.0904 T12: -0.0225 REMARK 3 T13: 0.0001 T23: 0.0078 REMARK 3 L TENSOR REMARK 3 L11: 0.4907 L22: 0.2744 REMARK 3 L33: 0.3716 L12: 0.3440 REMARK 3 L13: 0.0256 L23: 0.1583 REMARK 3 S TENSOR REMARK 3 S11: 0.0145 S12: 0.0586 S13: -0.0890 REMARK 3 S21: -0.0528 S22: -0.0118 S23: -0.0326 REMARK 3 S31: 0.0606 S32: -0.0042 S33: 0.0166 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN H AND RESID 239:246) REMARK 3 ORIGIN FOR THE GROUP (A): -29.2840 12.6917 -18.0664 REMARK 3 T TENSOR REMARK 3 T11: 0.2111 T22: 0.2179 REMARK 3 T33: 0.3974 T12: 0.0319 REMARK 3 T13: 0.0383 T23: -0.1150 REMARK 3 L TENSOR REMARK 3 L11: 0.0123 L22: 0.7526 REMARK 3 L33: 0.4343 L12: 0.0698 REMARK 3 L13: -0.0023 L23: 0.3504 REMARK 3 S TENSOR REMARK 3 S11: 0.0552 S12: -0.0287 S13: 0.1544 REMARK 3 S21: -0.0454 S22: -0.0177 S23: 0.1879 REMARK 3 S31: -0.1155 S32: -0.1425 S33: 0.0133 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN I AND RESID 55:65) REMARK 3 ORIGIN FOR THE GROUP (A): -12.1916 -0.0356 3.3430 REMARK 3 T TENSOR REMARK 3 T11: 0.4479 T22: 0.5690 REMARK 3 T33: -0.0030 T12: -0.2924 REMARK 3 T13: 0.0632 T23: 0.1548 REMARK 3 L TENSOR REMARK 3 L11: 0.0059 L22: 0.1328 REMARK 3 L33: 0.0350 L12: 0.0251 REMARK 3 L13: -0.0127 L23: -0.0657 REMARK 3 S TENSOR REMARK 3 S11: 0.1054 S12: -0.1650 S13: 0.0167 REMARK 3 S21: 0.1995 S22: -0.0093 S23: 0.0670 REMARK 3 S31: -0.0892 S32: 0.0048 S33: 0.1060 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN L AND RESID 1C:4) REMARK 3 ORIGIN FOR THE GROUP (A): -8.2036 16.8676 -19.3741 REMARK 3 T TENSOR REMARK 3 T11: 0.1360 T22: 0.1068 REMARK 3 T33: 0.1393 T12: -0.0233 REMARK 3 T13: -0.0076 T23: -0.0134 REMARK 3 L TENSOR REMARK 3 L11: 1.3160 L22: 0.9241 REMARK 3 L33: 0.8268 L12: 0.3233 REMARK 3 L13: 0.2382 L23: 0.2679 REMARK 3 S TENSOR REMARK 3 S11: -0.0483 S12: -0.0201 S13: 0.2167 REMARK 3 S21: 0.0493 S22: -0.0696 S23: 0.2373 REMARK 3 S31: -0.2284 S32: -0.0390 S33: 0.0618 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN L AND RESID 5:14B) REMARK 3 ORIGIN FOR THE GROUP (A): 1.996 10.547 -25.005 REMARK 3 T TENSOR REMARK 3 T11: 0.1140 T22: 0.1384 REMARK 3 T33: 0.1129 T12: -0.0602 REMARK 3 T13: 0.0070 T23: 0.0166 REMARK 3 L TENSOR REMARK 3 L11: 0.5193 L22: 0.0485 REMARK 3 L33: 0.1310 L12: -0.1374 REMARK 3 L13: 0.0182 L23: 0.0140 REMARK 3 S TENSOR REMARK 3 S11: 0.0732 S12: -0.0186 S13: -0.0211 REMARK 3 S21: 0.1080 S22: -0.1151 S23: -0.0081 REMARK 3 S31: -0.0758 S32: 0.1236 S33: 0.0218 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN L AND RESID 14C:14K) REMARK 3 ORIGIN FOR THE GROUP (A): 0.9798 6.9938 -32.4295 REMARK 3 T TENSOR REMARK 3 T11: 0.1320 T22: 0.1265 REMARK 3 T33: 0.1245 T12: -0.0413 REMARK 3 T13: 0.0565 T23: -0.0139 REMARK 3 L TENSOR REMARK 3 L11: 0.4191 L22: 0.4578 REMARK 3 L33: 0.3004 L12: 0.2012 REMARK 3 L13: -0.1954 L23: -0.0896 REMARK 3 S TENSOR REMARK 3 S11: -0.0555 S12: 0.1888 S13: 0.0254 REMARK 3 S21: -0.2126 S22: 0.1013 S23: -0.1508 REMARK 3 S31: -0.0006 S32: 0.1207 S33: -0.0129 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 3SHA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000066200. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 107 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : BARTELS MONOCHROMATOR REMARK 200 OPTICS : COLLIMATING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51764 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04400 REMARK 200 FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.37400 REMARK 200 FOR SHELL : 2.200 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: 1H8D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG8000, 20MM SODIUM PHOSPHATE, REMARK 280 175MM SODIUM CHLORIDE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277.15K 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 34.90000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.70000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 34.90000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.70000 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: 3360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 H1113 LIES ON A SPECIAL POSITION. REMARK 375 HOH H1297 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 1H REMARK 465 PHE L 1G REMARK 465 GLY L 1F REMARK 465 SER L 1E REMARK 465 GLY L 1D REMARK 465 ASP L 14L REMARK 465 GLY L 14M REMARK 465 ARG L 15 REMARK 465 TRP H 148 REMARK 465 THR H 149 REMARK 465 ALA H 149A REMARK 465 ASN H 149B REMARK 465 VAL H 149C REMARK 465 GLY H 149D REMARK 465 LYS H 149E REMARK 465 GLU H 247 REMARK 465 ASN I 53 REMARK 465 GLY I 54 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 SER H 36A OG REMARK 470 ASP H 186A CG OD1 OD2 REMARK 470 LYS H 236 CG CD CE NZ REMARK 470 ASP I 55 CG OD1 OD2 REMARK 470 GLU I 58 CG CD OE1 OE2 REMARK 470 GLU I 61 CG CD OE1 OE2 REMARK 470 GLN I 65 CG CD OE1 NE2 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 -88.68 -130.41 REMARK 500 TYR H 60A 85.61 -154.34 REMARK 500 ASN H 60G 82.64 -157.23 REMARK 500 HIS H 71 -60.61 -130.43 REMARK 500 ILE H 79 -59.98 -126.51 REMARK 500 SER H 195 132.76 -36.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE THROMBIN INHIBITOR REMARK 630 MOLECULE NAME: D-PHENYLALANYL-N-[(4-CHLOROPYRIDIN-3-YL)METHYL]-L- REMARK 630 PROLINAMIDE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 P97 H 1 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: DPN PRO NNU REMARK 630 DETAILS: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3P17 RELATED DB: PDB REMARK 900 RELATED ID: 3QTO RELATED DB: PDB REMARK 900 RELATED ID: 3QTV RELATED DB: PDB REMARK 900 RELATED ID: 3QWC RELATED DB: PDB REMARK 900 RELATED ID: 3QX5 RELATED DB: PDB REMARK 900 RELATED ID: 3RLW RELATED DB: PDB REMARK 900 RELATED ID: 3RLY RELATED DB: PDB REMARK 900 RELATED ID: 3RM0 RELATED DB: PDB REMARK 900 RELATED ID: 3RM2 RELATED DB: PDB REMARK 900 RELATED ID: 3RML RELATED DB: PDB REMARK 900 RELATED ID: 3RMM RELATED DB: PDB DBREF 3SHA L 1H 15 UNP P00734 THRB_HUMAN 328 363 DBREF 3SHA H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 3SHA I 53 65 UNP P09945 HIRV2_HIRME 60 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 13 ASN GLY ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU GLN MODRES 3SHA ASN H 60G ASN GLYCOSYLATION SITE MODRES 3SHA TYS I 63 TYR O-SULFO-L-TYROSINE HET TYS I 63 16 HET NAG H 260G 14 HET P97 H 1 27 HET PO4 H 2 5 HET GOL H 3 6 HET GOL H 4 6 HET NA H 5 1 HET NA H 6 1 HETNAM TYS O-SULFO-L-TYROSINE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM P97 D-PHENYLALANYL-N-[(4-CHLOROPYRIDIN-3-YL)METHYL]-L- HETNAM 2 P97 PROLINAMIDE HETNAM PO4 PHOSPHATE ION HETNAM GOL GLYCEROL HETNAM NA SODIUM ION 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 HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 NAG C8 H15 N O6 FORMUL 5 P97 C20 H23 CL N4 O2 FORMUL 6 PO4 O4 P 3- FORMUL 7 GOL 2(C3 H8 O3) FORMUL 9 NA 2(NA 1+) FORMUL 11 HOH *328(H2 O) HELIX 1 1 PHE L 7 SER L 11 5 5 HELIX 2 2 THR L 14B TYR L 14J 1 9 HELIX 3 3 ALA H 55 CYS H 58 5 4 HELIX 4 4 PRO H 60B ASP H 60E 5 4 HELIX 5 5 THR H 60I ASN H 62 5 3 HELIX 6 6 ASP H 125 LEU H 130 1 9 HELIX 7 7 GLU H 164 SER H 171 1 8 HELIX 8 8 LYS H 185 GLY H 186C 5 5 HELIX 9 9 LEU H 234 GLY H 246 1 13 HELIX 10 10 PRO I 60 LEU I 64 5 5 SHEET 1 A 7 SER H 20 ASP H 21 0 SHEET 2 A 7 GLN H 156 PRO H 161 -1 O VAL H 157 N SER H 20 SHEET 3 A 7 LYS H 135 GLY H 140 -1 N VAL H 138 O VAL H 158 SHEET 4 A 7 PRO H 198 LYS H 202 -1 O VAL H 200 N ARG H 137 SHEET 5 A 7 TRP H 207 TRP H 215 -1 O TYR H 208 N MET H 201 SHEET 6 A 7 GLY H 226 HIS H 230 -1 O PHE H 227 N TRP H 215 SHEET 7 A 7 MET H 180 ALA H 183 -1 N PHE H 181 O TYR H 228 SHEET 1 B 7 GLN H 30 ARG H 35 0 SHEET 2 B 7 GLU H 39 LEU H 46 -1 O LEU H 41 N LEU H 33 SHEET 3 B 7 TRP H 51 THR H 54 -1 O LEU H 53 N SER H 45 SHEET 4 B 7 ALA H 104 LEU H 108 -1 O ALA H 104 N THR H 54 SHEET 5 B 7 LYS H 81 ILE H 90 -1 N GLU H 86 O LYS H 107 SHEET 6 B 7 LEU H 64 ILE H 68 -1 N ILE H 68 O LYS H 81 SHEET 7 B 7 GLN H 30 ARG H 35 -1 N PHE H 34 O LEU H 65 SHEET 1 C 2 LEU H 60 TYR H 60A 0 SHEET 2 C 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 2.03 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.04 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.04 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.04 LINK ND2 ASN H 60G C1 NAG H 260G 1555 1555 1.43 LINK C GLU I 62 N TYS I 63 1555 1555 1.33 LINK C TYS I 63 N LEU I 64 1555 1555 1.33 CISPEP 1 SER H 36A PRO H 37 0 -3.16 CRYST1 69.800 71.400 72.200 90.00 100.00 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 0.014327 0.000000 0.002526 0.00000 SCALE2 0.000000 0.014006 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014064 0.00000