HEADER TRANSFERASE 08-JUN-19 6K7S TITLE CRYSTAL STRUCTURE OF THYMIDYLATE SYNTHASE FROM SHRIMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDYLATE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.1.1.45; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PENAEUS VANNAMEI; SOURCE 3 ORGANISM_COMMON: WHITELEG SHRIMP; SOURCE 4 ORGANISM_TAXID: 6689; SOURCE 5 GENE: TS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS THYMIDYLATE SYNTHASE, DUMP, DTMP, SHRIMP, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Q.MA,K.ZANG,C.LIU REVDAT 3 22-NOV-23 6K7S 1 JRNL REVDAT 2 30-JUN-21 6K7S 1 JRNL REVDAT 1 10-JUN-20 6K7S 0 JRNL AUTH C.LIU,K.ZANG,S.LI,F.LI,Q.MA JRNL TITL STRUCTURAL ANALYSIS OF A SHRIMP THYMIDYLATE SYNTHASE REVEALS JRNL TITL 2 SPECIES-SPECIFIC INTERACTIONS WITH DUMP AND RALTITREXED. JRNL REF J OCEANOL LIMNOL V. 38 1891 2020 JRNL REFN ESSN 2523-3521 JRNL DOI 10.1007/S00343-019-9184-8 REMARK 2 REMARK 2 RESOLUTION. 1.56 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 1.56 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 72911 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.870 REMARK 3 FREE R VALUE TEST SET COUNT : 3552 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 42.5025 - 4.5588 0.95 2853 151 0.1646 0.2099 REMARK 3 2 4.5588 - 3.6191 0.92 2725 140 0.1386 0.1857 REMARK 3 3 3.6191 - 3.1618 0.96 2832 149 0.1584 0.2019 REMARK 3 4 3.1618 - 2.8728 0.97 2876 148 0.1677 0.2097 REMARK 3 5 2.8728 - 2.6669 0.92 2678 150 0.1635 0.1843 REMARK 3 6 2.6669 - 2.5097 0.96 2785 145 0.1590 0.2015 REMARK 3 7 2.5097 - 2.3840 0.96 2833 163 0.1544 0.1944 REMARK 3 8 2.3840 - 2.2802 0.97 2832 167 0.1550 0.1927 REMARK 3 9 2.2802 - 2.1925 0.97 2855 156 0.1567 0.1692 REMARK 3 10 2.1925 - 2.1168 0.91 2687 139 0.1545 0.1870 REMARK 3 11 2.1168 - 2.0506 0.95 2790 137 0.1643 0.2103 REMARK 3 12 2.0506 - 1.9920 0.96 2815 161 0.1653 0.1968 REMARK 3 13 1.9920 - 1.9396 0.96 2858 126 0.1610 0.1941 REMARK 3 14 1.9396 - 1.8922 0.96 2814 125 0.1653 0.2132 REMARK 3 15 1.8922 - 1.8492 0.96 2814 174 0.1834 0.1980 REMARK 3 16 1.8492 - 1.8099 0.95 2760 156 0.1693 0.1724 REMARK 3 17 1.8099 - 1.7737 0.93 2740 106 0.1680 0.2045 REMARK 3 18 1.7737 - 1.7402 0.95 2796 146 0.1600 0.2003 REMARK 3 19 1.7402 - 1.7091 0.96 2813 127 0.1715 0.2159 REMARK 3 20 1.7091 - 1.6801 0.95 2820 125 0.1746 0.2370 REMARK 3 21 1.6801 - 1.6530 0.95 2801 139 0.1734 0.2403 REMARK 3 22 1.6530 - 1.6276 0.95 2783 123 0.1786 0.2214 REMARK 3 23 1.6276 - 1.6037 0.95 2805 146 0.1684 0.1998 REMARK 3 24 1.6037 - 1.5811 0.93 2653 145 0.1733 0.2205 REMARK 3 25 1.5811 - 1.5597 0.78 2341 108 0.1868 0.2204 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.130 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 4834 REMARK 3 ANGLE : 1.235 6545 REMARK 3 CHIRALITY : 0.058 666 REMARK 3 PLANARITY : 0.008 867 REMARK 3 DIHEDRAL : 16.787 2884 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:52) REMARK 3 ORIGIN FOR THE GROUP (A): 15.3428 9.1446 20.3084 REMARK 3 T TENSOR REMARK 3 T11: 0.1291 T22: 0.1525 REMARK 3 T33: 0.1429 T12: -0.0039 REMARK 3 T13: 0.0125 T23: -0.0171 REMARK 3 L TENSOR REMARK 3 L11: 0.5829 L22: 0.2067 REMARK 3 L33: 0.2884 L12: -0.0911 REMARK 3 L13: 0.2676 L23: 0.1570 REMARK 3 S TENSOR REMARK 3 S11: 0.0384 S12: -0.1084 S13: 0.0548 REMARK 3 S21: 0.0029 S22: -0.0797 S23: 0.0915 REMARK 3 S31: -0.0554 S32: -0.0556 S33: -0.0003 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 53:130) REMARK 3 ORIGIN FOR THE GROUP (A): 15.4359 0.6427 -4.4052 REMARK 3 T TENSOR REMARK 3 T11: 0.2138 T22: 0.2907 REMARK 3 T33: 0.1392 T12: -0.0117 REMARK 3 T13: -0.0468 T23: 0.0418 REMARK 3 L TENSOR REMARK 3 L11: 0.3940 L22: 0.4247 REMARK 3 L33: 0.3668 L12: 0.3086 REMARK 3 L13: 0.0318 L23: -0.2315 REMARK 3 S TENSOR REMARK 3 S11: -0.1433 S12: 0.3139 S13: 0.2591 REMARK 3 S21: -0.2456 S22: 0.0718 S23: 0.0460 REMARK 3 S31: 0.1518 S32: -0.0364 S33: -0.1213 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 131:245) REMARK 3 ORIGIN FOR THE GROUP (A): 20.9646 -1.3629 10.4453 REMARK 3 T TENSOR REMARK 3 T11: 0.1212 T22: 0.0836 REMARK 3 T33: 0.0828 T12: 0.0080 REMARK 3 T13: -0.0029 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.8742 L22: 0.3745 REMARK 3 L33: 0.3106 L12: 0.0656 REMARK 3 L13: 0.2269 L23: -0.0059 REMARK 3 S TENSOR REMARK 3 S11: 0.0484 S12: 0.0841 S13: -0.0205 REMARK 3 S21: -0.1099 S22: -0.0398 S23: 0.0344 REMARK 3 S31: 0.0616 S32: -0.0299 S33: 0.0012 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 246:282) REMARK 3 ORIGIN FOR THE GROUP (A): 4.2876 -6.1015 12.0144 REMARK 3 T TENSOR REMARK 3 T11: 0.1699 T22: 0.2177 REMARK 3 T33: 0.2462 T12: -0.0142 REMARK 3 T13: -0.0442 T23: -0.0320 REMARK 3 L TENSOR REMARK 3 L11: 0.3131 L22: 0.3062 REMARK 3 L33: 0.2283 L12: 0.2748 REMARK 3 L13: -0.0504 L23: -0.2128 REMARK 3 S TENSOR REMARK 3 S11: 0.1004 S12: -0.0590 S13: -0.1306 REMARK 3 S21: -0.1803 S22: -0.0872 S23: 0.2072 REMARK 3 S31: 0.0247 S32: -0.2053 S33: 0.0085 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 283:289) REMARK 3 ORIGIN FOR THE GROUP (A): 8.5125 17.7228 7.1895 REMARK 3 T TENSOR REMARK 3 T11: 0.3873 T22: 0.3962 REMARK 3 T33: 0.2711 T12: 0.0101 REMARK 3 T13: -0.1016 T23: 0.0526 REMARK 3 L TENSOR REMARK 3 L11: 0.0038 L22: 0.0036 REMARK 3 L33: 0.0059 L12: -0.0034 REMARK 3 L13: 0.0027 L23: 0.0020 REMARK 3 S TENSOR REMARK 3 S11: -0.0452 S12: 0.0914 S13: -0.0368 REMARK 3 S21: 0.0174 S22: 0.0289 S23: -0.0246 REMARK 3 S31: -0.0130 S32: 0.1157 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B AND RESID 1:32) REMARK 3 ORIGIN FOR THE GROUP (A): 33.0333 -4.7403 31.6114 REMARK 3 T TENSOR REMARK 3 T11: 0.2015 T22: 0.1762 REMARK 3 T33: 0.1545 T12: -0.0236 REMARK 3 T13: 0.0046 T23: 0.0076 REMARK 3 L TENSOR REMARK 3 L11: 0.1880 L22: 0.0471 REMARK 3 L33: 0.0937 L12: 0.0828 REMARK 3 L13: 0.0000 L23: -0.0229 REMARK 3 S TENSOR REMARK 3 S11: 0.1429 S12: -0.1747 S13: -0.0394 REMARK 3 S21: 0.1350 S22: -0.1773 S23: 0.0409 REMARK 3 S31: 0.0534 S32: -0.0724 S33: -0.0002 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN B AND RESID 33:48) REMARK 3 ORIGIN FOR THE GROUP (A): 34.9575 8.7014 25.7102 REMARK 3 T TENSOR REMARK 3 T11: 0.1245 T22: 0.1220 REMARK 3 T33: 0.1364 T12: -0.0071 REMARK 3 T13: 0.0114 T23: -0.0205 REMARK 3 L TENSOR REMARK 3 L11: 0.0209 L22: 0.0058 REMARK 3 L33: 0.0040 L12: 0.0263 REMARK 3 L13: 0.0032 L23: 0.0098 REMARK 3 S TENSOR REMARK 3 S11: 0.0612 S12: -0.1977 S13: 0.0756 REMARK 3 S21: 0.0411 S22: -0.0978 S23: 0.0130 REMARK 3 S31: 0.0237 S32: -0.0370 S33: -0.0000 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN B AND RESID 49:132) REMARK 3 ORIGIN FOR THE GROUP (A): 50.8520 -2.5694 9.8051 REMARK 3 T TENSOR REMARK 3 T11: 0.1326 T22: 0.2541 REMARK 3 T33: 0.1789 T12: 0.0586 REMARK 3 T13: 0.0169 T23: -0.0192 REMARK 3 L TENSOR REMARK 3 L11: 0.1976 L22: 0.3949 REMARK 3 L33: 0.1322 L12: 0.3010 REMARK 3 L13: 0.0083 L23: 0.0508 REMARK 3 S TENSOR REMARK 3 S11: 0.0157 S12: 0.0869 S13: -0.1039 REMARK 3 S21: -0.0030 S22: -0.0126 S23: -0.1163 REMARK 3 S31: 0.0867 S32: 0.1315 S33: -0.0807 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN B AND RESID 133:238) REMARK 3 ORIGIN FOR THE GROUP (A): 37.5146 6.3620 14.2912 REMARK 3 T TENSOR REMARK 3 T11: 0.1374 T22: 0.1145 REMARK 3 T33: 0.1309 T12: 0.0121 REMARK 3 T13: 0.0198 T23: 0.0114 REMARK 3 L TENSOR REMARK 3 L11: 0.7932 L22: 0.2015 REMARK 3 L33: 0.1315 L12: 0.1746 REMARK 3 L13: 0.1668 L23: 0.0480 REMARK 3 S TENSOR REMARK 3 S11: 0.0178 S12: 0.0699 S13: 0.0407 REMARK 3 S21: -0.0408 S22: -0.0387 S23: -0.0973 REMARK 3 S31: 0.0115 S32: 0.0772 S33: -0.0001 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN B AND RESID 239:288) REMARK 3 ORIGIN FOR THE GROUP (A): 48.6091 7.1599 27.6510 REMARK 3 T TENSOR REMARK 3 T11: 0.1677 T22: 0.1879 REMARK 3 T33: 0.1732 T12: -0.0181 REMARK 3 T13: -0.0239 T23: 0.0080 REMARK 3 L TENSOR REMARK 3 L11: 0.6742 L22: 0.4183 REMARK 3 L33: 0.1916 L12: -0.0962 REMARK 3 L13: 0.3350 L23: 0.1236 REMARK 3 S TENSOR REMARK 3 S11: 0.1124 S12: 0.0008 S13: 0.0606 REMARK 3 S21: 0.1650 S22: -0.1072 S23: -0.1753 REMARK 3 S31: -0.0062 S32: 0.0715 S33: 0.0585 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 6K7S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1300011831. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97853 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS JAN 26, 2018 (BUILT REMARK 200 20180409) REMARK 200 DATA SCALING SOFTWARE : AIMLESS (VERSION 0.5.29), CCP4 REMARK 200 7.0.024 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 72920 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.560 REMARK 200 RESOLUTION RANGE LOW (A) : 43.437 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05600 REMARK 200 FOR THE DATA SET : 18.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.37100 REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.7.17 REMARK 200 STARTING MODEL: 6K7R REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE DROP CONTAINED 1 UL PROTEIN REMARK 280 SOLUTION (10 MG/ML PROTEIN + 5 MM DUMP + 5 MM RALTITREXED REMARK 280 INCUBATED FOR 4 H AT 4 DEGREES) AND 1 UL RESERVOIR SOLUTION (20% REMARK 280 (W/V) PEG 3350, 200 MM AMMONIUM CITRATE, PH 7.0), VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 59.82650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.83700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.82650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 41.83700 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 LYS A 91 REMARK 465 GLU A 92 REMARK 465 PHE A 93 REMARK 465 LEU A 94 REMARK 465 ASN A 95 REMARK 465 LYS A 96 REMARK 465 MET A 97 REMARK 465 GLY A 98 REMARK 465 PHE A 99 REMARK 465 HIS A 100 REMARK 465 ASP A 101 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 REMARK 465 ASP B 24 REMARK 465 ARG B 25 REMARK 465 VAL B 289 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 427 O HOH B 502 2.16 REMARK 500 O HOH B 542 O HOH B 617 2.17 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 HIS A 117 35.12 -145.34 REMARK 500 ALA A 123 -79.22 -110.88 REMARK 500 ASN A 147 67.13 -151.12 REMARK 500 SER B 89 10.59 -142.30 REMARK 500 HIS B 117 35.25 -144.85 REMARK 500 ALA B 123 -78.16 -109.67 REMARK 500 ASN B 147 65.99 -151.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UMP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue D16 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UMP B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue D16 B 302 DBREF 6K7S A 1 289 UNP C6GJB8 C6GJB8_PENVA 1 289 DBREF 6K7S B 1 289 UNP C6GJB8 C6GJB8_PENVA 1 289 SEQADV 6K7S SER A -2 UNP C6GJB8 EXPRESSION TAG SEQADV 6K7S ASN A -1 UNP C6GJB8 EXPRESSION TAG SEQADV 6K7S ALA A 0 UNP C6GJB8 EXPRESSION TAG SEQADV 6K7S SER B -2 UNP C6GJB8 EXPRESSION TAG SEQADV 6K7S ASN B -1 UNP C6GJB8 EXPRESSION TAG SEQADV 6K7S ALA B 0 UNP C6GJB8 EXPRESSION TAG SEQRES 1 A 292 SER ASN ALA MET ARG HIS ASP GLU TYR GLN TYR LEU ASP SEQRES 2 A 292 LEU ILE ARG GLN ILE MET ARG THR GLY ASN ARG LYS GLY SEQRES 3 A 292 ASP ARG THR GLY THR GLY THR ILE SER MET PHE GLY ALA SEQRES 4 A 292 GLN MET ARG TYR SER LEU ARG ASP GLY ILE PHE PRO LEU SEQRES 5 A 292 LEU THR THR LYS ARG VAL PHE TRP ARG GLY VAL ALA GLU SEQRES 6 A 292 GLU LEU LEU TRP PHE VAL ARG GLY SER THR ASN ALA LYS SEQRES 7 A 292 GLU LEU GLN GLU LYS ASP ILE HIS ILE TRP ASP GLY ASN SEQRES 8 A 292 SER SER LYS GLU PHE LEU ASN LYS MET GLY PHE HIS ASP SEQRES 9 A 292 ARG GLU GLU GLY ASP LEU GLY PRO VAL TYR GLY PHE GLN SEQRES 10 A 292 TRP ARG HIS PHE GLY ALA PRO TYR ALA ASP MET HIS THR SEQRES 11 A 292 ASP TYR THR GLY GLN GLY VAL ASP GLN LEU GLN GLN VAL SEQRES 12 A 292 ILE ASP THR ILE LYS ASN ASN PRO ASP ASP ARG ARG ILE SEQRES 13 A 292 ILE MET CYS ALA TRP ASN PRO VAL ASP VAL PRO LYS MET SEQRES 14 A 292 ALA LEU PRO PRO CYS HIS CYS LEU CYS GLN PHE TYR VAL SEQRES 15 A 292 ALA ASN GLY GLU LEU SER CYS GLN LEU TYR GLN ARG SER SEQRES 16 A 292 ALA ASP MET GLY LEU GLY VAL PRO PHE ASN ILE ALA SER SEQRES 17 A 292 TYR ALA LEU LEU THR TYR MET ILE ALA HIS VAL THR ASP SEQRES 18 A 292 LEU LYS PRO GLY ASP PHE VAL HIS THR LEU GLY ASP ALA SEQRES 19 A 292 HIS VAL TYR SER ASN HIS CYS GLU ALA LEU GLU GLU GLN SEQRES 20 A 292 LEU LYS ARG GLU PRO ARG PRO PHE PRO SER LEU LYS ILE SEQRES 21 A 292 LYS ARG LYS VAL GLU ASN ILE SER ASP PHE LYS PHE GLU SEQRES 22 A 292 ASP PHE GLU LEU ASP GLY TYR LYS PRO HIS PRO LYS ILE SEQRES 23 A 292 LYS MET GLU MET ALA VAL SEQRES 1 B 292 SER ASN ALA MET ARG HIS ASP GLU TYR GLN TYR LEU ASP SEQRES 2 B 292 LEU ILE ARG GLN ILE MET ARG THR GLY ASN ARG LYS GLY SEQRES 3 B 292 ASP ARG THR GLY THR GLY THR ILE SER MET PHE GLY ALA SEQRES 4 B 292 GLN MET ARG TYR SER LEU ARG ASP GLY ILE PHE PRO LEU SEQRES 5 B 292 LEU THR THR LYS ARG VAL PHE TRP ARG GLY VAL ALA GLU SEQRES 6 B 292 GLU LEU LEU TRP PHE VAL ARG GLY SER THR ASN ALA LYS SEQRES 7 B 292 GLU LEU GLN GLU LYS ASP ILE HIS ILE TRP ASP GLY ASN SEQRES 8 B 292 SER SER LYS GLU PHE LEU ASN LYS MET GLY PHE HIS ASP SEQRES 9 B 292 ARG GLU GLU GLY ASP LEU GLY PRO VAL TYR GLY PHE GLN SEQRES 10 B 292 TRP ARG HIS PHE GLY ALA PRO TYR ALA ASP MET HIS THR SEQRES 11 B 292 ASP TYR THR GLY GLN GLY VAL ASP GLN LEU GLN GLN VAL SEQRES 12 B 292 ILE ASP THR ILE LYS ASN ASN PRO ASP ASP ARG ARG ILE SEQRES 13 B 292 ILE MET CYS ALA TRP ASN PRO VAL ASP VAL PRO LYS MET SEQRES 14 B 292 ALA LEU PRO PRO CYS HIS CYS LEU CYS GLN PHE TYR VAL SEQRES 15 B 292 ALA ASN GLY GLU LEU SER CYS GLN LEU TYR GLN ARG SER SEQRES 16 B 292 ALA ASP MET GLY LEU GLY VAL PRO PHE ASN ILE ALA SER SEQRES 17 B 292 TYR ALA LEU LEU THR TYR MET ILE ALA HIS VAL THR ASP SEQRES 18 B 292 LEU LYS PRO GLY ASP PHE VAL HIS THR LEU GLY ASP ALA SEQRES 19 B 292 HIS VAL TYR SER ASN HIS CYS GLU ALA LEU GLU GLU GLN SEQRES 20 B 292 LEU LYS ARG GLU PRO ARG PRO PHE PRO SER LEU LYS ILE SEQRES 21 B 292 LYS ARG LYS VAL GLU ASN ILE SER ASP PHE LYS PHE GLU SEQRES 22 B 292 ASP PHE GLU LEU ASP GLY TYR LYS PRO HIS PRO LYS ILE SEQRES 23 B 292 LYS MET GLU MET ALA VAL HET UMP A 301 20 HET D16 A 302 32 HET UMP B 301 20 HET D16 B 302 32 HETNAM UMP 2'-DEOXYURIDINE 5'-MONOPHOSPHATE HETNAM D16 TOMUDEX HETSYN UMP DUMP HETSYN D16 ZD1694; RALTITREXED FORMUL 3 UMP 2(C9 H13 N2 O8 P) FORMUL 4 D16 2(C21 H22 N4 O6 S) FORMUL 7 HOH *481(H2 O) HELIX 1 AA1 ASP A 4 GLY A 19 1 16 HELIX 2 AA2 ARG A 43 ILE A 46 5 4 HELIX 3 AA3 PHE A 56 GLY A 70 1 15 HELIX 4 AA4 ALA A 74 GLU A 79 1 6 HELIX 5 AA5 VAL A 110 PHE A 118 1 9 HELIX 6 AA6 ASP A 135 ASN A 147 1 13 HELIX 7 AA7 ASP A 162 MET A 166 5 5 HELIX 8 AA8 LEU A 197 THR A 217 1 21 HELIX 9 AA9 HIS A 237 LEU A 245 1 9 HELIX 10 AB1 ASN A 263 PHE A 267 5 5 HELIX 11 AB2 LYS A 268 GLU A 270 5 3 HELIX 12 AB3 ASP B 4 GLY B 19 1 16 HELIX 13 AB4 ARG B 43 ILE B 46 5 4 HELIX 14 AB5 PHE B 56 ARG B 69 1 14 HELIX 15 AB6 ASN B 73 GLU B 79 1 7 HELIX 16 AB7 SER B 90 MET B 97 1 8 HELIX 17 AB8 VAL B 110 PHE B 118 1 9 HELIX 18 AB9 ASP B 135 ASN B 147 1 13 HELIX 19 AC1 ASP B 162 MET B 166 5 5 HELIX 20 AC2 LEU B 197 THR B 217 1 21 HELIX 21 AC3 HIS B 237 LEU B 245 1 9 HELIX 22 AC4 ASN B 263 PHE B 267 5 5 HELIX 23 AC5 LYS B 268 GLU B 270 5 3 SHEET 1 AA1 6 ASN A 20 LYS A 22 0 SHEET 2 AA1 6 THR A 30 SER A 41 -1 O SER A 32 N ASN A 20 SHEET 3 AA1 6 LYS A 220 TYR A 234 -1 O PHE A 224 N TYR A 40 SHEET 4 AA1 6 GLU A 183 ASP A 194 1 N CYS A 186 O VAL A 225 SHEET 5 AA1 6 HIS A 172 ALA A 180 -1 N TYR A 178 O SER A 185 SHEET 6 AA1 6 ILE A 154 CYS A 156 -1 N MET A 155 O CYS A 175 SHEET 1 AA2 2 SER A 254 ILE A 257 0 SHEET 2 AA2 2 PHE A 272 ASP A 275 -1 O GLU A 273 N LYS A 256 SHEET 1 AA3 6 ASN B 20 LYS B 22 0 SHEET 2 AA3 6 THR B 30 SER B 41 -1 O SER B 32 N ASN B 20 SHEET 3 AA3 6 LYS B 220 TYR B 234 -1 O PHE B 224 N TYR B 40 SHEET 4 AA3 6 GLU B 183 ASP B 194 1 N LEU B 184 O GLY B 222 SHEET 5 AA3 6 HIS B 172 ALA B 180 -1 N TYR B 178 O SER B 185 SHEET 6 AA3 6 ILE B 154 CYS B 156 -1 N MET B 155 O CYS B 175 SHEET 1 AA4 2 SER B 254 ILE B 257 0 SHEET 2 AA4 2 PHE B 272 ASP B 275 -1 O GLU B 273 N LYS B 256 SITE 1 AC1 16 ARG A 25 CYS A 171 HIS A 172 GLN A 190 SITE 2 AC1 16 ARG A 191 SER A 192 ALA A 193 ASP A 194 SITE 3 AC1 16 ASN A 202 HIS A 232 TYR A 234 D16 A 302 SITE 4 AC1 16 HOH A 430 HOH A 461 ARG B 151 ARG B 152 SITE 1 AC2 12 PHE A 56 ILE A 84 ASP A 194 LEU A 197 SITE 2 AC2 12 GLY A 198 PHE A 201 TYR A 234 MET A 287 SITE 3 AC2 12 ALA A 288 UMP A 301 HOH A 556 HOH A 562 SITE 1 AC3 16 ARG A 151 ARG A 152 CYS B 171 HIS B 172 SITE 2 AC3 16 GLN B 190 ARG B 191 SER B 192 ASP B 194 SITE 3 AC3 16 ASN B 202 HIS B 232 TYR B 234 D16 B 302 SITE 4 AC3 16 HOH B 416 HOH B 422 HOH B 423 HOH B 569 SITE 1 AC4 9 PHE B 56 ASP B 194 LEU B 197 GLY B 198 SITE 2 AC4 9 PHE B 201 TYR B 234 MET B 287 UMP B 301 SITE 3 AC4 9 HOH B 528 CRYST1 119.653 83.674 55.157 90.00 92.26 90.00 C 1 2 1 8 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 0.008358 0.000000 0.000330 0.00000 SCALE2 0.000000 0.011951 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018144 0.00000