HEADER HYDROLASE 24-OCT-19 6T8A TITLE THROMBIN IN COMPLEX WITH DIPHENYL ((4-CARBAMIMIDOYLPHENYL)((S)-1-((R)- TITLE 2 3-CYCLOHEXYL 2-((PHENYLMETHYL)SULFONAMIDO)PROPANOYL)PYRROLIDINE-2- TITLE 3 CARBOXAMIDO)METHYL)PHOSPHONATE (MI-492) 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 2 24-JAN-24 6T8A 1 REMARK REVDAT 1 18-NOV-20 6T8A 0 JRNL AUTH S.A.NGAHA,A.SANDNER,S.HUBER,O.PILGRAM,A.HEINE,T.STEINMETZER JRNL TITL THROMBIN IN COMPLEX WITH DIPHENYL JRNL TITL 2 ((4-CARBAMIMIDOYLPHENYL)((S)-1-((R) JRNL TITL 3 -3-CYCLOHEXYL-2-((PHENYLMETHYL)SULFONAMIDO)PROPANOYL) JRNL TITL 4 PYRROLIDINE-2-CARBOXAMIDO)METHYL)PHOSPHONATE (MI-492) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.62 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) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.50 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 43324 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2167 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 38.5000 - 3.9900 0.95 2795 148 0.1484 0.1566 REMARK 3 2 3.9922 - 3.1692 0.94 2713 142 0.1431 0.1898 REMARK 3 3 3.1692 - 2.7687 0.98 2797 148 0.1666 0.1952 REMARK 3 4 2.7687 - 2.5156 0.98 2788 146 0.1691 0.1979 REMARK 3 5 2.5156 - 2.3354 0.98 2829 149 0.1544 0.1768 REMARK 3 6 2.3354 - 2.1977 0.98 2782 147 0.1535 0.1624 REMARK 3 7 2.1977 - 2.0876 0.89 2525 132 0.1519 0.1760 REMARK 3 8 2.0876 - 1.9968 0.96 2740 145 0.1566 0.1680 REMARK 3 9 1.9968 - 1.9199 0.97 2758 145 0.1565 0.2066 REMARK 3 10 1.9199 - 1.8536 0.97 2759 145 0.1671 0.2108 REMARK 3 11 1.8536 - 1.7957 0.97 2744 145 0.1816 0.2052 REMARK 3 12 1.7957 - 1.7444 0.97 2803 147 0.1821 0.2244 REMARK 3 13 1.7444 - 1.6984 0.97 2701 142 0.1976 0.2131 REMARK 3 14 1.6984 - 1.6570 0.97 2776 146 0.2175 0.2431 REMARK 3 15 1.6570 - 1.6200 0.95 2647 140 0.2243 0.2446 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.660 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.72 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 : 13 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 30 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.7347 0.9911 17.4317 REMARK 3 T TENSOR REMARK 3 T11: 0.1372 T22: 0.1693 REMARK 3 T33: 0.1394 T12: 0.0283 REMARK 3 T13: -0.0194 T23: -0.0388 REMARK 3 L TENSOR REMARK 3 L11: 4.6401 L22: 7.0709 REMARK 3 L33: 2.0455 L12: 0.0209 REMARK 3 L13: 1.2916 L23: -0.5421 REMARK 3 S TENSOR REMARK 3 S11: 0.2816 S12: 0.0544 S13: -0.3073 REMARK 3 S21: -0.0135 S22: -0.1418 S23: 0.4498 REMARK 3 S31: 0.1151 S32: -0.2103 S33: -0.1375 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 44 THROUGH 65 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.3277 0.0060 8.7117 REMARK 3 T TENSOR REMARK 3 T11: 0.2998 T22: 0.3519 REMARK 3 T33: 0.1824 T12: 0.1585 REMARK 3 T13: 0.0072 T23: -0.0195 REMARK 3 L TENSOR REMARK 3 L11: 2.6798 L22: 1.2910 REMARK 3 L33: 3.6374 L12: -0.6602 REMARK 3 L13: -0.9623 L23: 1.4692 REMARK 3 S TENSOR REMARK 3 S11: 0.3172 S12: 0.7334 S13: -0.1947 REMARK 3 S21: -0.4955 S22: -0.4460 S23: -0.0667 REMARK 3 S31: 0.3296 S32: 0.2222 S33: 0.0253 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 66 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.5162 -5.8986 14.2774 REMARK 3 T TENSOR REMARK 3 T11: 0.2331 T22: 0.3003 REMARK 3 T33: 0.2032 T12: 0.1270 REMARK 3 T13: 0.0019 T23: -0.0098 REMARK 3 L TENSOR REMARK 3 L11: 0.9427 L22: 3.8825 REMARK 3 L33: 2.1165 L12: -1.3619 REMARK 3 L13: -0.2093 L23: 1.0548 REMARK 3 S TENSOR REMARK 3 S11: 0.3264 S12: 0.3482 S13: 0.0351 REMARK 3 S21: -0.2996 S22: -0.2743 S23: -0.2554 REMARK 3 S31: 0.3277 S32: 0.2249 S33: -0.0801 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 85 THROUGH 129 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.2401 -0.5640 11.5365 REMARK 3 T TENSOR REMARK 3 T11: 0.2448 T22: 0.2798 REMARK 3 T33: 0.1768 T12: 0.1128 REMARK 3 T13: 0.0186 T23: -0.0088 REMARK 3 L TENSOR REMARK 3 L11: 1.4805 L22: 1.1127 REMARK 3 L33: 1.3317 L12: -0.7350 REMARK 3 L13: 0.4875 L23: -0.2338 REMARK 3 S TENSOR REMARK 3 S11: 0.3251 S12: 0.4450 S13: -0.0158 REMARK 3 S21: -0.3137 S22: -0.2931 S23: -0.1328 REMARK 3 S31: 0.2227 S32: 0.3571 S33: -0.0410 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 130 THROUGH 151 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.3186 11.3167 13.1720 REMARK 3 T TENSOR REMARK 3 T11: 0.1659 T22: 0.2255 REMARK 3 T33: 0.1710 T12: 0.0711 REMARK 3 T13: 0.0482 T23: 0.0529 REMARK 3 L TENSOR REMARK 3 L11: 1.9053 L22: 1.3802 REMARK 3 L33: 0.8041 L12: -0.8061 REMARK 3 L13: -1.1348 L23: 0.7176 REMARK 3 S TENSOR REMARK 3 S11: 0.1327 S12: 0.3561 S13: 0.3376 REMARK 3 S21: -0.1851 S22: -0.2063 S23: -0.2455 REMARK 3 S31: -0.0178 S32: 0.2461 S33: -0.0308 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 152 THROUGH 169 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.4979 5.8172 32.4898 REMARK 3 T TENSOR REMARK 3 T11: 0.1282 T22: 0.1489 REMARK 3 T33: 0.1519 T12: 0.0352 REMARK 3 T13: 0.0022 T23: -0.0146 REMARK 3 L TENSOR REMARK 3 L11: 2.6206 L22: 3.4766 REMARK 3 L33: 4.7281 L12: -0.7908 REMARK 3 L13: -0.8338 L23: 0.1735 REMARK 3 S TENSOR REMARK 3 S11: -0.0154 S12: -0.3714 S13: 0.1181 REMARK 3 S21: 0.3603 S22: 0.0244 S23: -0.0867 REMARK 3 S31: -0.0514 S32: 0.1139 S33: 0.0141 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 170 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.0464 -7.8614 27.2413 REMARK 3 T TENSOR REMARK 3 T11: 0.1887 T22: 0.1328 REMARK 3 T33: 0.1928 T12: 0.0076 REMARK 3 T13: -0.0009 T23: -0.0040 REMARK 3 L TENSOR REMARK 3 L11: 1.4875 L22: 1.8364 REMARK 3 L33: 1.4804 L12: -1.2430 REMARK 3 L13: 0.6983 L23: -1.0534 REMARK 3 S TENSOR REMARK 3 S11: 0.1083 S12: -0.0291 S13: -0.2546 REMARK 3 S21: -0.1010 S22: 0.0077 S23: 0.2860 REMARK 3 S31: 0.2397 S32: -0.0589 S33: -0.0927 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 232 THROUGH 267 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4312 -0.1533 27.3798 REMARK 3 T TENSOR REMARK 3 T11: 0.1278 T22: 0.1575 REMARK 3 T33: 0.1252 T12: 0.0216 REMARK 3 T13: 0.0013 T23: -0.0048 REMARK 3 L TENSOR REMARK 3 L11: 1.6632 L22: 4.1946 REMARK 3 L33: 1.5037 L12: -1.1305 REMARK 3 L13: 0.1834 L23: -0.2140 REMARK 3 S TENSOR REMARK 3 S11: 0.0918 S12: -0.0598 S13: -0.1121 REMARK 3 S21: -0.0639 S22: -0.0508 S23: 0.1012 REMARK 3 S31: 0.1443 S32: 0.0172 S33: -0.0414 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 268 THROUGH 281 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.3607 9.5801 23.0362 REMARK 3 T TENSOR REMARK 3 T11: 0.1603 T22: 0.2421 REMARK 3 T33: 0.3654 T12: 0.0032 REMARK 3 T13: 0.0464 T23: 0.0070 REMARK 3 L TENSOR REMARK 3 L11: 6.4397 L22: 8.2820 REMARK 3 L33: 9.0504 L12: 3.0607 REMARK 3 L13: -5.5984 L23: -3.7798 REMARK 3 S TENSOR REMARK 3 S11: 0.2223 S12: -0.1545 S13: 0.6318 REMARK 3 S21: -0.1749 S22: -0.1422 S23: -0.5499 REMARK 3 S31: -0.3815 S32: 0.8539 S33: -0.0957 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 1 THROUGH 10 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.9603 15.6435 18.3159 REMARK 3 T TENSOR REMARK 3 T11: 0.1901 T22: 0.1363 REMARK 3 T33: 0.1450 T12: 0.0565 REMARK 3 T13: 0.0376 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 7.0014 L22: 7.2446 REMARK 3 L33: 9.7101 L12: 2.3724 REMARK 3 L13: 7.2989 L23: 2.4657 REMARK 3 S TENSOR REMARK 3 S11: -0.0974 S12: 0.4138 S13: 0.1588 REMARK 3 S21: -0.1202 S22: -0.0092 S23: -0.1658 REMARK 3 S31: -0.3866 S32: 0.2124 S33: 0.1339 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 11 THROUGH 19 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.7680 13.1428 21.0546 REMARK 3 T TENSOR REMARK 3 T11: 0.1470 T22: 0.2057 REMARK 3 T33: 0.1747 T12: 0.0709 REMARK 3 T13: 0.0012 T23: -0.0250 REMARK 3 L TENSOR REMARK 3 L11: 4.0212 L22: 3.7457 REMARK 3 L33: 4.4531 L12: 1.6428 REMARK 3 L13: -1.0633 L23: -3.9508 REMARK 3 S TENSOR REMARK 3 S11: 0.1529 S12: 0.0893 S13: 0.1170 REMARK 3 S21: -0.0304 S22: 0.0393 S23: 0.4501 REMARK 3 S31: -0.1263 S32: -0.2833 S33: -0.2389 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 20 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.2827 6.6813 32.4991 REMARK 3 T TENSOR REMARK 3 T11: 0.1536 T22: 0.2039 REMARK 3 T33: 0.2132 T12: 0.0478 REMARK 3 T13: 0.0715 T23: -0.0087 REMARK 3 L TENSOR REMARK 3 L11: 4.1536 L22: 4.0855 REMARK 3 L33: 2.1811 L12: 2.6754 REMARK 3 L13: 1.7498 L23: -0.3301 REMARK 3 S TENSOR REMARK 3 S11: 0.0931 S12: -0.4812 S13: 0.0333 REMARK 3 S21: 0.3345 S22: -0.0023 S23: 0.1784 REMARK 3 S31: -0.0743 S32: -0.1989 S33: -0.0400 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'I' AND (RESID 555 THROUGH 565 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.9361 -0.0689 -3.1099 REMARK 3 T TENSOR REMARK 3 T11: 0.8018 T22: 0.7049 REMARK 3 T33: 0.0548 T12: 0.3689 REMARK 3 T13: 0.0834 T23: -0.1653 REMARK 3 L TENSOR REMARK 3 L11: 0.2425 L22: 1.3888 REMARK 3 L33: 1.2041 L12: 0.1079 REMARK 3 L13: 0.4608 L23: 0.8593 REMARK 3 S TENSOR REMARK 3 S11: 0.2683 S12: 0.7260 S13: -0.0528 REMARK 3 S21: -0.6997 S22: 0.0216 S23: -0.2772 REMARK 3 S31: -0.0966 S32: 0.1082 S33: 0.0667 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 6T8A 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_1292104820. 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 : 43325 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 43.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05200 REMARK 200 FOR THE DATA SET : 14.9100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.49000 REMARK 200 FOR SHELL : 2.430 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 (%): 57.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 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 35.28500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.65100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.28500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.65100 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 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 415 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 ASP L 1A OD2 REMARK 470 LYS L 9 CD CE NZ REMARK 470 LYS L 14A CE NZ REMARK 470 LEU H 33 CD1 REMARK 470 SER H 36A OG REMARK 470 ARG H 50 NH1 REMARK 470 ASN H 62 ND2 REMARK 470 MET H 84 CE REMARK 470 LYS H 107 NZ REMARK 470 LYS H 110 CD CE NZ REMARK 470 LEU H 130 CD1 REMARK 470 THR H 147 OG1 CG2 REMARK 470 LYS H 169 CD CE NZ REMARK 470 ASP H 186A 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 GLN H 239 NE2 REMARK 470 LYS H 240 CG CD CE NZ REMARK 470 GLN H 244 NE2 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 LEU I 564 CD1 CD2 REMARK 470 GLN I 565 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 -87.92 -131.50 REMARK 500 TYR H 60A 86.28 -154.61 REMARK 500 ASN H 60G 78.11 -156.24 REMARK 500 HIS H 71 -61.79 -128.43 REMARK 500 ILE H 79 -61.18 -125.39 REMARK 500 GLU H 97A -70.12 -115.20 REMARK 500 GLU H 97A -70.12 -116.86 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 615 DISTANCE = 5.87 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 80.2 REMARK 620 3 PHE H 204A O 18.8 88.5 REMARK 620 4 HOH H 471 O 71.2 78.0 56.3 REMARK 620 5 HOH H 473 O 174.7 95.4 159.7 105.0 REMARK 620 6 HOH H 571 O 85.4 165.6 77.8 97.7 99.0 REMARK 620 N 1 2 3 4 5 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 ARG H 221A O REMARK 620 2 LYS H 224 O 92.8 REMARK 620 3 HOH H 470 O 161.0 70.8 REMARK 620 4 HOH H 472 O 91.0 94.1 81.0 REMARK 620 5 HOH H 496 O 108.2 158.9 88.3 84.6 REMARK 620 6 HOH H 562 O 97.1 80.6 89.7 170.4 97.4 REMARK 620 N 1 2 3 4 5 DBREF 6T8A L -4 17 UNP P00734 THRB_HUMAN 328 363 DBREF 6T8A H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 6T8A 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 6T8A TYS I 563 TYR MODIFIED RESIDUE HET TYS I 563 16 HET MUZ H 301 48 HET NAG H 302 14 HET NA H 303 1 HET PO4 H 304 5 HET NA H 305 1 HET DMS H 306 4 HET DMS H 307 4 HETNAM TYS O-SULFO-L-TYROSINE HETNAM MUZ [(~{R})-(4-CARBAMIMIDOYLPHENYL)-[[(2~{S})-1-[(2~{R})-3- HETNAM 2 MUZ CYCLOHEXYL-2-[(PHENYLMETHYL) HETNAM 3 MUZ SULFONYLAMINO]PROPANOYL]PYRROLIDIN-2- HETNAM 4 MUZ YL]CARBONYLAMINO]METHYL]-PHENOXY-PHOSPHINOUS ACID HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM NA SODIUM ION HETNAM PO4 PHOSPHATE 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 MUZ C35 H44 N5 O6 P S FORMUL 5 NAG C8 H15 N O6 FORMUL 6 NA 2(NA 1+) FORMUL 7 PO4 O4 P 3- FORMUL 9 DMS 2(C2 H6 O S) FORMUL 11 HOH *252(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 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 2.02 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.02 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.03 LINK ND2 ASN H 60G C1 NAG H 302 1555 1555 1.43 LINK OG SER H 195 P MUZ H 301 1555 1555 1.57 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 303 1555 1555 2.43 LINK O THR H 172 NA NA H 303 1555 1555 2.34 LINK O PHE H 204A NA NA H 303 1555 4556 2.39 LINK O ARG H 221A NA NA H 305 1555 1555 2.33 LINK O LYS H 224 NA NA H 305 1555 1555 2.41 LINK NA NA H 303 O HOH H 471 1555 1555 2.61 LINK NA NA H 303 O HOH H 473 1555 4546 2.33 LINK NA NA H 303 O HOH H 571 1555 4546 2.45 LINK NA NA H 305 O HOH H 470 1555 1555 2.48 LINK NA NA H 305 O HOH H 472 1555 1555 2.60 LINK NA NA H 305 O HOH H 496 1555 1555 2.40 LINK NA NA H 305 O HOH H 562 1555 1555 2.35 CISPEP 1 SER H 36A PRO H 37 0 -4.35 CRYST1 70.570 71.302 72.651 90.00 100.61 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 0.014170 0.000000 0.002654 0.00000 SCALE2 0.000000 0.014025 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014004 0.00000