HEADER HYDROLASE 24-OCT-19 6T89 TITLE THROMBIN IN COMPLEX WITH (S)-N-(TERT-BUTYL)-4-(3-(3- TITLE 2 CARBAMIMIDOYLPHENYL)-2-((2',4'-DIMETHOXY-[1,1'-BIPHENYL])-3- TITLE 3 SULFONAMIDO)PROPANOYL)PIPERAZINE-1-CARBOXAMIDE (MI-498) 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 MOL_ID: 3; COMPND 12 MOLECULE: HIRUDIN VARIANT-2; COMPND 13 CHAIN: I; COMPND 14 ENGINEERED: YES; COMPND 15 OTHER_DETAILS: HTTPS://SHOP.BACHEM.COM/4014557.HTML CONTAINS SULFATED COMPND 16 TYROSINE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 TISSUE: BLOOD; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_COMMON: HUMAN; SOURCE 9 ORGANISM_TAXID: 9606; SOURCE 10 TISSUE: BLOOD; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS; SOURCE 14 ORGANISM_COMMON: MEDICINAL LEECH; SOURCE 15 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 S.A.NGAHA,A.SANDNER,S.HUBER,A.HEINE,T.STEINMETZER,O.PILGRAM REVDAT 3 24-JAN-24 6T89 1 REMARK REVDAT 2 01-JUN-22 6T89 1 JRNL REVDAT 1 18-NOV-20 6T89 0 JRNL AUTH O.PILGRAM,A.KEILS,G.E.BENARY,J.MULLER,S.MERKL,S.NGAHA, JRNL AUTH 2 S.HUBER,F.CHEVILLARD,A.HARBIG,V.MAGDOLEN,A.HEINE, JRNL AUTH 3 E.BOTTCHER-FRIEBERTSHAUSER,T.STEINMETZER JRNL TITL IMPROVING THE SELECTIVITY OF 3-AMIDINOPHENYLALANINE-DERIVED JRNL TITL 2 MATRIPTASE INHIBITORS JRNL REF EUR.J.MED.CHEM. 14437 2022 JRNL REFN ISSN 0223-5234 JRNL DOI 10.1016/J.EJMECH.2022.114437 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.42 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 24293 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1215 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 35.4200 - 4.1494 0.99 2637 139 0.1537 0.1753 REMARK 3 2 4.1494 - 3.2943 0.99 2578 136 0.1416 0.2115 REMARK 3 3 3.2943 - 2.8781 0.97 2529 133 0.1844 0.2193 REMARK 3 4 2.8781 - 2.6150 0.99 2575 136 0.1872 0.2344 REMARK 3 5 2.6150 - 2.4276 0.99 2534 133 0.1836 0.2244 REMARK 3 6 2.4276 - 2.2845 1.00 2599 137 0.1833 0.2392 REMARK 3 7 2.2845 - 2.1701 1.00 2568 135 0.1974 0.2249 REMARK 3 8 2.1701 - 2.0757 1.00 2592 137 0.2077 0.2575 REMARK 3 9 2.0757 - 2.0000 0.96 2466 129 0.2411 0.2762 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.320 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.00 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 30 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.1229 0.5975 17.3760 REMARK 3 T TENSOR REMARK 3 T11: 0.1936 T22: 0.2234 REMARK 3 T33: 0.2708 T12: 0.0097 REMARK 3 T13: -0.0354 T23: -0.0359 REMARK 3 L TENSOR REMARK 3 L11: 5.0497 L22: 8.4994 REMARK 3 L33: 5.5247 L12: 1.8294 REMARK 3 L13: 0.4729 L23: -2.8074 REMARK 3 S TENSOR REMARK 3 S11: 0.2334 S12: -0.1747 S13: -0.3389 REMARK 3 S21: -0.2181 S22: -0.0207 S23: 0.9282 REMARK 3 S31: 0.2602 S32: -0.4025 S33: -0.1754 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 44 THROUGH 65 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.2368 -1.2101 8.4558 REMARK 3 T TENSOR REMARK 3 T11: 0.2984 T22: 0.3029 REMARK 3 T33: 0.1904 T12: 0.1000 REMARK 3 T13: -0.0446 T23: -0.0148 REMARK 3 L TENSOR REMARK 3 L11: 5.4678 L22: 5.6676 REMARK 3 L33: 5.5028 L12: 2.4151 REMARK 3 L13: -0.2024 L23: 1.6888 REMARK 3 S TENSOR REMARK 3 S11: 0.1987 S12: 0.4194 S13: -0.2579 REMARK 3 S21: -0.5630 S22: -0.2903 S23: 0.0384 REMARK 3 S31: 0.4520 S32: 0.0395 S33: 0.1049 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 66 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.8887 -6.9606 14.1176 REMARK 3 T TENSOR REMARK 3 T11: 0.2628 T22: 0.3127 REMARK 3 T33: 0.2256 T12: 0.0668 REMARK 3 T13: 0.0284 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 2.9253 L22: 2.6516 REMARK 3 L33: 1.8994 L12: -2.7391 REMARK 3 L13: 1.9012 L23: -2.0193 REMARK 3 S TENSOR REMARK 3 S11: 0.3961 S12: 0.2675 S13: -0.0800 REMARK 3 S21: -0.5130 S22: -0.2753 S23: -0.1966 REMARK 3 S31: 0.1285 S32: 0.2247 S33: -0.0746 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 85 THROUGH 105 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.0456 0.6332 3.4746 REMARK 3 T TENSOR REMARK 3 T11: 0.4091 T22: 0.3393 REMARK 3 T33: 0.2281 T12: 0.1216 REMARK 3 T13: -0.0782 T23: -0.0678 REMARK 3 L TENSOR REMARK 3 L11: 1.4095 L22: 2.7940 REMARK 3 L33: 2.1109 L12: -0.2586 REMARK 3 L13: 0.7574 L23: -1.3553 REMARK 3 S TENSOR REMARK 3 S11: 0.3134 S12: 0.3073 S13: -0.2520 REMARK 3 S21: -0.6056 S22: -0.2602 S23: 0.2462 REMARK 3 S31: 0.3100 S32: 0.1583 S33: -0.0632 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 106 THROUGH 169 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.3121 3.2652 19.9286 REMARK 3 T TENSOR REMARK 3 T11: 0.2112 T22: 0.2305 REMARK 3 T33: 0.2224 T12: -0.0066 REMARK 3 T13: -0.0149 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 2.7006 L22: 2.4431 REMARK 3 L33: 1.5909 L12: -1.5023 REMARK 3 L13: 0.5037 L23: -0.0387 REMARK 3 S TENSOR REMARK 3 S11: 0.0541 S12: 0.1329 S13: 0.1588 REMARK 3 S21: 0.0526 S22: -0.0817 S23: -0.1976 REMARK 3 S31: -0.0455 S32: 0.2766 S33: 0.0287 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 170 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.1986 -7.2466 20.3260 REMARK 3 T TENSOR REMARK 3 T11: 0.2471 T22: 0.2023 REMARK 3 T33: 0.3559 T12: -0.0044 REMARK 3 T13: -0.0359 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 2.3574 L22: 4.2065 REMARK 3 L33: 3.5389 L12: -0.2706 REMARK 3 L13: 0.6615 L23: -0.4694 REMARK 3 S TENSOR REMARK 3 S11: 0.0700 S12: -0.0257 S13: -0.5053 REMARK 3 S21: -0.3830 S22: 0.0907 S23: 0.6603 REMARK 3 S31: 0.3362 S32: -0.3374 S33: -0.1110 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 194 THROUGH 208 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.8728 -10.5354 35.6357 REMARK 3 T TENSOR REMARK 3 T11: 0.3630 T22: 0.2956 REMARK 3 T33: 0.2528 T12: 0.0547 REMARK 3 T13: -0.0148 T23: 0.0383 REMARK 3 L TENSOR REMARK 3 L11: 2.5782 L22: 7.6094 REMARK 3 L33: 4.9142 L12: 4.0111 REMARK 3 L13: -2.7214 L23: -5.0454 REMARK 3 S TENSOR REMARK 3 S11: -0.0017 S12: -0.3924 S13: -0.1485 REMARK 3 S21: 0.5527 S22: -0.0661 S23: -0.3840 REMARK 3 S31: 0.0619 S32: 0.3069 S33: 0.0690 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 209 THROUGH 251 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.4641 -0.9221 27.3664 REMARK 3 T TENSOR REMARK 3 T11: 0.2260 T22: 0.2249 REMARK 3 T33: 0.2158 T12: 0.0043 REMARK 3 T13: 0.0169 T23: 0.0233 REMARK 3 L TENSOR REMARK 3 L11: 2.1120 L22: 2.7774 REMARK 3 L33: 2.2097 L12: -1.4301 REMARK 3 L13: 0.2366 L23: 0.1358 REMARK 3 S TENSOR REMARK 3 S11: -0.0561 S12: -0.1686 S13: -0.2094 REMARK 3 S21: 0.1727 S22: 0.0656 S23: 0.2665 REMARK 3 S31: 0.1099 S32: -0.0784 S33: -0.0091 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 252 THROUGH 267 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.5250 -10.4902 28.5652 REMARK 3 T TENSOR REMARK 3 T11: 0.2692 T22: 0.1952 REMARK 3 T33: 0.3043 T12: 0.0539 REMARK 3 T13: -0.0032 T23: 0.0558 REMARK 3 L TENSOR REMARK 3 L11: 5.3498 L22: 6.7254 REMARK 3 L33: 4.2919 L12: 3.5444 REMARK 3 L13: 0.0663 L23: -0.8227 REMARK 3 S TENSOR REMARK 3 S11: 0.0081 S12: -0.0942 S13: -0.3837 REMARK 3 S21: 0.3364 S22: 0.3110 S23: 0.5023 REMARK 3 S31: 0.6267 S32: -0.0709 S33: -0.2974 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 268 THROUGH 281 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.6147 8.4486 22.7849 REMARK 3 T TENSOR REMARK 3 T11: 0.2504 T22: 0.2759 REMARK 3 T33: 0.4596 T12: -0.0548 REMARK 3 T13: -0.0134 T23: 0.0241 REMARK 3 L TENSOR REMARK 3 L11: 8.9325 L22: 5.2893 REMARK 3 L33: 6.4507 L12: 2.4927 REMARK 3 L13: -4.0481 L23: -1.9396 REMARK 3 S TENSOR REMARK 3 S11: -0.0466 S12: 0.0074 S13: 0.4832 REMARK 3 S21: 0.1129 S22: -0.1185 S23: -1.0199 REMARK 3 S31: -0.5950 S32: 0.6691 S33: 0.0959 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 1 THROUGH 10 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.2576 14.8203 18.2388 REMARK 3 T TENSOR REMARK 3 T11: 0.3174 T22: 0.2064 REMARK 3 T33: 0.2354 T12: 0.0396 REMARK 3 T13: 0.0148 T23: 0.0330 REMARK 3 L TENSOR REMARK 3 L11: 8.4767 L22: 7.2148 REMARK 3 L33: 7.6943 L12: 6.1646 REMARK 3 L13: 7.0721 L23: 6.2298 REMARK 3 S TENSOR REMARK 3 S11: -0.0493 S12: 0.3107 S13: -0.0178 REMARK 3 S21: -0.1951 S22: 0.2015 S23: -0.1319 REMARK 3 S31: -0.4673 S32: 0.2206 S33: -0.0687 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 11 THROUGH 19 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.3943 12.2797 20.8927 REMARK 3 T TENSOR REMARK 3 T11: 0.1786 T22: 0.2737 REMARK 3 T33: 0.2540 T12: 0.0596 REMARK 3 T13: 0.0463 T23: -0.0337 REMARK 3 L TENSOR REMARK 3 L11: 6.3968 L22: 3.0296 REMARK 3 L33: 3.6234 L12: -0.3684 REMARK 3 L13: 2.4557 L23: -2.9046 REMARK 3 S TENSOR REMARK 3 S11: 0.0752 S12: -0.3561 S13: 0.1094 REMARK 3 S21: 0.3192 S22: -0.0165 S23: 0.7632 REMARK 3 S31: -0.3482 S32: -0.5131 S33: -0.1449 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 20 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.6933 5.7562 32.3488 REMARK 3 T TENSOR REMARK 3 T11: 0.3324 T22: 0.3401 REMARK 3 T33: 0.3372 T12: 0.0709 REMARK 3 T13: 0.1333 T23: 0.0398 REMARK 3 L TENSOR REMARK 3 L11: 7.9783 L22: 2.1430 REMARK 3 L33: 7.4801 L12: 0.3711 REMARK 3 L13: 7.2843 L23: -0.0768 REMARK 3 S TENSOR REMARK 3 S11: -0.4904 S12: -1.0552 S13: 0.1185 REMARK 3 S21: 0.4195 S22: -0.0177 S23: 0.4890 REMARK 3 S31: 0.2071 S32: -0.6611 S33: 0.5187 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'I' AND (RESID 555 THROUGH 565 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.4837 -1.5572 -2.8453 REMARK 3 T TENSOR REMARK 3 T11: 0.6857 T22: 0.6542 REMARK 3 T33: 0.2650 T12: 0.2047 REMARK 3 T13: -0.0676 T23: -0.1219 REMARK 3 L TENSOR REMARK 3 L11: 0.3418 L22: 2.2919 REMARK 3 L33: 3.4701 L12: -0.4364 REMARK 3 L13: 0.5979 L23: 1.2866 REMARK 3 S TENSOR REMARK 3 S11: 0.3458 S12: 0.5957 S13: -0.1674 REMARK 3 S21: -0.6960 S22: -0.0914 S23: -0.0443 REMARK 3 S31: -0.0817 S32: 0.2917 S33: 0.1592 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: PHENIX REFINEMENT REMARK 4 REMARK 4 6T89 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1292104819. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAY-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 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) : 0.9184 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : SAGITALLY BENDED SI111 CRYSTAL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24300 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 43.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10000 REMARK 200 FOR THE DATA SET : 8.2400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.54000 REMARK 200 FOR SHELL : 2.090 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 (%): 57.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 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 35.95700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.91450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.95700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.91450 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: 3980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 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 CZ ARG H 75 LIES ON A SPECIAL POSITION. REMARK 375 HOH H 413 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 465 GLY I 517 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 ASP L 1A OD2 REMARK 470 LYS L 9 CD CE NZ REMARK 470 GLU L 13 OE2 REMARK 470 LYS L 14A CD CE NZ REMARK 470 ARG L 14D CD NE CZ NH1 NH2 REMARK 470 LEU L 14G CD1 REMARK 470 ILE L 14K CG1 CG2 CD1 REMARK 470 LEU H 33 CD1 CD2 REMARK 470 LEU H 40 CD1 REMARK 470 ARG H 50 CD NE CZ NH1 NH2 REMARK 470 THR H 60I CG2 REMARK 470 MET H 84 CE REMARK 470 LYS H 87 NZ REMARK 470 LYS H 107 NZ REMARK 470 LYS H 110 CD CE NZ REMARK 470 ARG H 126 CZ NH1 NH2 REMARK 470 LEU H 130 CD1 REMARK 470 LYS H 145 CD CE NZ REMARK 470 THR H 147 OG1 CG2 REMARK 470 GLN H 151 OE1 NE2 REMARK 470 LYS H 169 NZ REMARK 470 ASP H 186A OD2 REMARK 470 LYS H 186D CE NZ REMARK 470 GLU H 192 OE1 OE2 REMARK 470 ASN H 205 ND2 REMARK 470 ARG H 221A NH2 REMARK 470 ARG H 233 NH2 REMARK 470 LYS H 236 CG CD CE NZ REMARK 470 GLN H 239 CG CD OE1 NE2 REMARK 470 LYS H 240 CG CD CE NZ REMARK 470 ILE H 242 CG2 REMARK 470 GLN H 244 CD OE1 NE2 REMARK 470 ASP I 518 OD1 REMARK 470 GLU I 521 CG CD OE1 OE2 REMARK 470 GLU I 524 CG CD OE1 OE2 REMARK 470 GLU I 525 CG CD OE1 OE2 REMARK 470 LEU I 527 O CD1 REMARK 470 GLN I 528 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 ND2 ASN H 60G O5 NAG H 302 1.98 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 -87.44 -129.92 REMARK 500 TYR H 60A 87.43 -155.55 REMARK 500 ASN H 60G 77.15 -157.36 REMARK 500 HIS H 71 -64.80 -127.66 REMARK 500 ILE H 79 -58.45 -125.62 REMARK 500 GLU H 97A -70.93 -121.05 REMARK 500 GLU H 97A -88.51 -117.43 REMARK 500 SER H 195 132.78 -33.25 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 557 DISTANCE = 5.93 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 303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS H 169 O REMARK 620 2 THR H 172 O 80.6 REMARK 620 3 PHE H 204A O 17.1 88.1 REMARK 620 4 HOH H 423 O 73.7 76.1 60.4 REMARK 620 5 HOH H 484 O 172.2 93.0 160.1 100.6 REMARK 620 6 HOH H 503 O 83.6 164.2 76.7 99.7 102.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA H 304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG H 221A O REMARK 620 2 LYS H 224 O 90.4 REMARK 620 3 HOH H 406 O 154.7 67.6 REMARK 620 4 HOH H 431 O 114.9 154.6 87.1 REMARK 620 5 HOH H 486 O 90.9 93.5 78.8 83.9 REMARK 620 6 HOH H 516 O 96.7 80.3 91.7 98.4 170.2 REMARK 620 N 1 2 3 4 5 DBREF 6T89 L -4 17 UNP P00734 THRB_HUMAN 328 363 DBREF 6T89 H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 6T89 I 517 528 UNP P09945 HIRV2_HIRME 61 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 12 GLY ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU GLN MODRES 6T89 TYS I 526 TYR MODIFIED RESIDUE HET TYS I 526 16 HET MUQ H 301 42 HET NAG H 302 14 HET NA H 303 1 HET NA H 304 1 HET DMS H 305 4 HETNAM TYS O-SULFO-L-TYROSINE HETNAM MUQ 4-[(2~{S})-3-(3-CARBAMIMIDOYLPHENYL)-2-[[3-(4-METHOXY- HETNAM 2 MUQ 2-OXIDANYL-PHENYL)PHENYL]SULFONYLAMINO]PROPANOYL]- HETNAM 3 MUQ ~{N}-METHYL-PIPERAZINE-1-CARBOXAMIDE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM NA SODIUM ION HETNAM DMS DIMETHYL SULFOXIDE 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 MUQ C29 H34 N6 O6 S FORMUL 5 NAG C8 H15 N O6 FORMUL 6 NA 2(NA 1+) FORMUL 8 DMS C2 H6 O S FORMUL 9 HOH *175(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 523 LEU I 527 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 LEU H 41 N LEU H 33 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 ALA H 104 N THR H 54 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 2.05 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.04 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.02 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.05 LINK ND2 ASN H 60G C1 NAG H 302 1555 1555 1.44 LINK C GLU I 525 N TYS I 526 1555 1555 1.33 LINK C TYS I 526 N LEU I 527 1555 1555 1.33 LINK O LYS H 169 NA NA H 303 1555 1555 2.40 LINK O THR H 172 NA NA H 303 1555 1555 2.33 LINK O PHE H 204A NA NA H 303 1555 4556 2.34 LINK O ARG H 221A NA NA H 304 1555 1555 2.28 LINK O LYS H 224 NA NA H 304 1555 1555 2.49 LINK NA NA H 303 O HOH H 423 1555 1555 2.74 LINK NA NA H 303 O HOH H 484 1555 4546 2.31 LINK NA NA H 303 O HOH H 503 1555 1555 2.38 LINK NA NA H 304 O HOH H 406 1555 1555 2.68 LINK NA NA H 304 O HOH H 431 1555 1555 2.45 LINK NA NA H 304 O HOH H 486 1555 1555 2.69 LINK NA NA H 304 O HOH H 516 1555 1555 2.32 CISPEP 1 SER H 36A PRO H 37 0 -3.43 CRYST1 71.914 71.829 72.158 90.00 100.95 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 0.013905 0.000000 0.002690 0.00000 SCALE2 0.000000 0.013922 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014115 0.00000