HEADER HYDROLASE/HYDROLASE INHIBITOR 21-APR-11 3RMN TITLE HUMAN THROMBIN IN COMPLEX WITH MI341 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, HIRUDIN, KEYWDS 3 GLYCOSYLATION, BLOOD, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.BIELA,A.HEINE,G.KLEBE REVDAT 6 30-OCT-24 3RMN 1 REMARK REVDAT 5 06-DEC-23 3RMN 1 REMARK REVDAT 4 01-NOV-23 3RMN 1 HETSYN REVDAT 3 29-JUL-20 3RMN 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE REVDAT 2 13-JUL-16 3RMN 1 JRNL REVDAT 1 25-APR-12 3RMN 0 JRNL AUTH A.BIELA,F.SIELAFF,F.TERWESTEN,A.HEINE,T.STEINMETZER,G.KLEBE JRNL TITL LIGAND BINDING STEPWISE DISRUPTS WATER NETWORK IN THROMBIN: JRNL TITL 2 ENTHALPIC AND ENTROPIC CHANGES REVEAL CLASSICAL HYDROPHOBIC JRNL TITL 3 EFFECT JRNL REF J.MED.CHEM. V. 55 6094 2012 JRNL REFN ISSN 0022-2623 JRNL PMID 22612268 JRNL DOI 10.1021/JM300337Q REMARK 2 REMARK 2 RESOLUTION. 1.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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) : 1.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 31209 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 1551 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 34.3600 - 3.8333 0.94 3061 155 0.1490 0.1488 REMARK 3 2 3.8333 - 3.0432 0.96 3091 168 0.1449 0.1694 REMARK 3 3 3.0432 - 2.6587 0.95 3064 155 0.1659 0.2368 REMARK 3 4 2.6587 - 2.4157 0.95 3054 140 0.1595 0.1769 REMARK 3 5 2.4157 - 2.2426 0.95 3020 167 0.1386 0.1768 REMARK 3 6 2.2426 - 2.1104 0.94 3013 155 0.1386 0.1561 REMARK 3 7 2.1104 - 2.0047 0.94 3001 154 0.1508 0.2078 REMARK 3 8 2.0047 - 1.9174 0.91 2898 151 0.1595 0.2017 REMARK 3 9 1.9174 - 1.8436 0.87 2764 156 0.1854 0.2398 REMARK 3 10 1.8436 - 1.7800 0.85 2692 150 0.2066 0.2814 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 : 0.34 REMARK 3 B_SOL : 40.01 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.760 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.54 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.91330 REMARK 3 B22 (A**2) : -2.16410 REMARK 3 B33 (A**2) : -1.74920 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -4.25160 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 : 0.008 2533 REMARK 3 ANGLE : 1.055 3436 REMARK 3 CHIRALITY : 0.074 356 REMARK 3 PLANARITY : 0.005 433 REMARK 3 DIHEDRAL : 17.280 1001 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 16:37) REMARK 3 ORIGIN FOR THE GROUP (A): 7.1790 -1.2853 12.5156 REMARK 3 T TENSOR REMARK 3 T11: 0.1062 T22: 0.1095 REMARK 3 T33: 0.0742 T12: 0.0679 REMARK 3 T13: -0.0178 T23: -0.0535 REMARK 3 L TENSOR REMARK 3 L11: 1.0840 L22: 0.7299 REMARK 3 L33: 0.3205 L12: -0.7776 REMARK 3 L13: 0.3112 L23: -0.1163 REMARK 3 S TENSOR REMARK 3 S11: 0.2945 S12: 0.3075 S13: -0.2176 REMARK 3 S21: -0.3162 S22: -0.2010 S23: 0.0918 REMARK 3 S31: 0.1276 S32: -0.0273 S33: -0.0696 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN H AND RESID 38:60E) REMARK 3 ORIGIN FOR THE GROUP (A): 14.287 -1.182 20.708 REMARK 3 T TENSOR REMARK 3 T11: 0.1374 T22: 0.1590 REMARK 3 T33: 0.0912 T12: 0.0958 REMARK 3 T13: 0.0113 T23: -0.0091 REMARK 3 L TENSOR REMARK 3 L11: 0.8028 L22: 0.6932 REMARK 3 L33: 0.3806 L12: -0.6338 REMARK 3 L13: 0.5093 L23: -0.4177 REMARK 3 S TENSOR REMARK 3 S11: 0.3348 S12: 0.3993 S13: -0.0121 REMARK 3 S21: -0.4363 S22: -0.3185 S23: -0.0115 REMARK 3 S31: 0.1005 S32: 0.2404 S33: -0.0018 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN H AND RESID 60F:62) REMARK 3 ORIGIN FOR THE GROUP (A): 16.349 -11.675 24.660 REMARK 3 T TENSOR REMARK 3 T11: 0.2292 T22: 0.2455 REMARK 3 T33: 0.1665 T12: 0.1820 REMARK 3 T13: 0.0801 T23: 0.0365 REMARK 3 L TENSOR REMARK 3 L11: 1.0145 L22: 0.6260 REMARK 3 L33: 0.3502 L12: 0.1137 REMARK 3 L13: -0.5010 L23: -0.0987 REMARK 3 S TENSOR REMARK 3 S11: 0.3506 S12: 0.5117 S13: -0.0582 REMARK 3 S21: -0.1870 S22: -0.2183 S23: -0.2424 REMARK 3 S31: 0.0568 S32: -0.0360 S33: -0.0650 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN H AND RESID 63:143) REMARK 3 ORIGIN FOR THE GROUP (A): 14.8271 2.8450 15.7229 REMARK 3 T TENSOR REMARK 3 T11: 0.0730 T22: 0.1000 REMARK 3 T33: 0.0501 T12: 0.0445 REMARK 3 T13: 0.0144 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 1.4339 L22: 1.2024 REMARK 3 L33: 0.7022 L12: -0.6827 REMARK 3 L13: 0.2970 L23: 0.1561 REMARK 3 S TENSOR REMARK 3 S11: 0.1706 S12: 0.2373 S13: 0.0668 REMARK 3 S21: -0.1133 S22: -0.1562 S23: -0.0942 REMARK 3 S31: -0.0086 S32: 0.1307 S33: -0.0166 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN H AND RESID 144:151) REMARK 3 ORIGIN FOR THE GROUP (A): 4.1163 -16.0677 15.9602 REMARK 3 T TENSOR REMARK 3 T11: 0.2905 T22: 0.1239 REMARK 3 T33: 0.3815 T12: 0.0398 REMARK 3 T13: -0.1599 T23: -0.0583 REMARK 3 L TENSOR REMARK 3 L11: 0.8315 L22: 0.4794 REMARK 3 L33: 1.7177 L12: 0.3160 REMARK 3 L13: -0.8949 L23: 0.1323 REMARK 3 S TENSOR REMARK 3 S11: 0.1075 S12: 0.2474 S13: -0.6510 REMARK 3 S21: -0.0385 S22: -0.1676 S23: 0.0034 REMARK 3 S31: 0.3821 S32: -0.0323 S33: 0.0199 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN H AND RESID 152:232) REMARK 3 ORIGIN FOR THE GROUP (A): 10.1822 -4.5997 28.6294 REMARK 3 T TENSOR REMARK 3 T11: 0.0784 T22: 0.0520 REMARK 3 T33: 0.0718 T12: 0.0102 REMARK 3 T13: -0.0035 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 0.9530 L22: 0.7952 REMARK 3 L33: 0.8365 L12: -0.6493 REMARK 3 L13: -0.0051 L23: -0.3431 REMARK 3 S TENSOR REMARK 3 S11: 0.0481 S12: -0.0797 S13: -0.1226 REMARK 3 S21: 0.0498 S22: -0.0042 S23: 0.0927 REMARK 3 S31: 0.1317 S32: -0.0318 S33: -0.0405 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN H AND RESID 233:246) REMARK 3 ORIGIN FOR THE GROUP (A): 27.2237 9.1670 21.9293 REMARK 3 T TENSOR REMARK 3 T11: 0.1321 T22: 0.1774 REMARK 3 T33: 0.2920 T12: -0.0185 REMARK 3 T13: 0.0376 T23: 0.0128 REMARK 3 L TENSOR REMARK 3 L11: 0.2310 L22: 1.5955 REMARK 3 L33: 2.8295 L12: 0.2419 REMARK 3 L13: -0.6902 L23: -1.2122 REMARK 3 S TENSOR REMARK 3 S11: 0.2822 S12: -0.0581 S13: 0.3362 REMARK 3 S21: 0.1021 S22: -0.1025 S23: -0.3575 REMARK 3 S31: -0.3881 S32: 0.5511 S33: -0.1546 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN I AND RESID 55:64) REMARK 3 ORIGIN FOR THE GROUP (A): 11.4955 -1.1520 -3.1863 REMARK 3 T TENSOR REMARK 3 T11: 0.4958 T22: 0.4741 REMARK 3 T33: 0.0781 T12: 0.2317 REMARK 3 T13: 0.0174 T23: -0.0802 REMARK 3 L TENSOR REMARK 3 L11: 2.2042 L22: 1.0418 REMARK 3 L33: 0.1591 L12: -0.6139 REMARK 3 L13: -0.1900 L23: -0.2705 REMARK 3 S TENSOR REMARK 3 S11: 0.5460 S12: 1.0331 S13: -0.1662 REMARK 3 S21: -0.9194 S22: -0.3793 S23: -0.0711 REMARK 3 S31: 0.0003 S32: 0.0161 S33: -0.1764 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN L AND RESID 1C:3) REMARK 3 ORIGIN FOR THE GROUP (A): 9.5716 17.4173 19.8158 REMARK 3 T TENSOR REMARK 3 T11: 0.1606 T22: 0.1093 REMARK 3 T33: 0.2286 T12: 0.0181 REMARK 3 T13: -0.0280 T23: 0.0160 REMARK 3 L TENSOR REMARK 3 L11: 1.0419 L22: 0.2878 REMARK 3 L33: 2.2065 L12: -0.4089 REMARK 3 L13: -0.1653 L23: 0.5916 REMARK 3 S TENSOR REMARK 3 S11: -0.0896 S12: 0.0619 S13: 0.6392 REMARK 3 S21: 0.0252 S22: 0.0413 S23: -0.5344 REMARK 3 S31: -0.4473 S32: 0.0763 S33: 0.0392 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN L AND RESID 4:13) REMARK 3 ORIGIN FOR THE GROUP (A): -1.7137 14.6579 18.3048 REMARK 3 T TENSOR REMARK 3 T11: 0.1181 T22: 0.0961 REMARK 3 T33: 0.0831 T12: 0.0974 REMARK 3 T13: 0.0033 T23: -0.0199 REMARK 3 L TENSOR REMARK 3 L11: 1.8886 L22: 1.3952 REMARK 3 L33: 0.3914 L12: 0.1870 REMARK 3 L13: -0.5406 L23: 0.0765 REMARK 3 S TENSOR REMARK 3 S11: 0.0790 S12: -0.1084 S13: 0.0401 REMARK 3 S21: -0.1743 S22: -0.2161 S23: -0.0605 REMARK 3 S31: -0.2062 S32: -0.1183 S33: 0.0978 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN L AND RESID 14:14K) REMARK 3 ORIGIN FOR THE GROUP (A): -2.3656 5.6754 30.1532 REMARK 3 T TENSOR REMARK 3 T11: 0.0810 T22: 0.1334 REMARK 3 T33: 0.1122 T12: 0.0276 REMARK 3 T13: 0.0366 T23: -0.0089 REMARK 3 L TENSOR REMARK 3 L11: 0.2913 L22: 0.9268 REMARK 3 L33: 1.8304 L12: -0.1607 REMARK 3 L13: 0.1633 L23: 0.4576 REMARK 3 S TENSOR REMARK 3 S11: 0.0051 S12: -0.2565 S13: -0.0911 REMARK 3 S21: 0.1369 S22: -0.0487 S23: 0.3461 REMARK 3 S31: 0.1155 S32: -0.4193 S33: 0.1515 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 3RMN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000065119. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-09 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 : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : COLLIMATING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32972 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 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 (%) : 97.9 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07800 REMARK 200 FOR THE DATA SET : 14.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.47600 REMARK 200 FOR SHELL : 2.100 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 (%): 50.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 8000, 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 34.95000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.55000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 34.95000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.55000 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: 3370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 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 H1093 LIES ON A SPECIAL POSITION. REMARK 375 HOH H1261 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 ASP H 186A CG OD1 OD2 REMARK 470 LYS H 236 CG CD CE NZ REMARK 470 GLN H 239 CG CD OE1 NE2 REMARK 470 GLU I 58 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 -90.27 -126.54 REMARK 500 SER H 36A 118.38 -161.93 REMARK 500 TYR H 60A 81.33 -155.98 REMARK 500 ASN H 60G 82.50 -156.78 REMARK 500 HIS H 71 -61.96 -128.84 REMARK 500 ILE H 79 -63.44 -126.21 REMARK 500 GLU H 97A -77.63 -112.32 REMARK 500 SER H 214 -67.31 -120.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE THROMBIN INHIBITOR REMARK 630 MOLECULE NAME: N-(BENZYLSULFONYL)-D-VALYL-N-[2-(AMINOMETHYL)-5- REMARK 630 CHLOROBENZYL]-L-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 M41 H 1 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: PMS DVA PRO 00T REMARK 630 DETAILS: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RMM RELATED DB: PDB REMARK 900 RELATED ID: 3RML RELATED DB: PDB REMARK 900 RELATED ID: 3RM2 RELATED DB: PDB REMARK 900 RELATED ID: 3RM0 RELATED DB: PDB REMARK 900 RELATED ID: 3RLY RELATED DB: PDB REMARK 900 RELATED ID: 3RLW RELATED DB: PDB REMARK 900 RELATED ID: 3RMO RELATED DB: PDB DBREF 3RMN L 1H 15 UNP P00734 THRB_HUMAN 328 363 DBREF 3RMN H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 3RMN 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 3RMN ASN H 60G ASN GLYCOSYLATION SITE MODRES 3RMN TYS I 63 TYR O-SULFO-L-TYROSINE HET TYS I 63 16 HET NAG H 260G 14 HET M41 H 1 35 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 M41 N-(BENZYLSULFONYL)-D-VALYL-N-[2-(AMINOMETHYL)-5- HETNAM 2 M41 CHLOROBENZYL]-L-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 M41 C25 H33 CL N4 O4 S FORMUL 6 PO4 O4 P 3- FORMUL 7 GOL 2(C3 H8 O3) FORMUL 9 NA 2(NA 1+) FORMUL 11 HOH *314(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 2.05 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.05 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.04 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.05 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 -1.00 CRYST1 69.900 71.100 72.900 90.00 100.60 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 0.014306 0.000000 0.002677 0.00000 SCALE2 0.000000 0.014065 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013956 0.00000