HEADER HYDROLASE 20-MAY-23 8JGD TITLE GDP-BOUND KRAS G12C IN COMPLEX WITH YK-8S COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE KRAS; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: K-RAS 2,KI-RAS,C-K-RAS,C-KI-RAS; COMPND 5 EC: 3.6.5.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: KRAS, KRAS2, RASK2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE/INHIBITOR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.M.ZHANG,R.L.WANG REVDAT 1 31-JAN-24 8JGD 0 JRNL AUTH Z.YU,X.HE,R.WANG,X.XU,Z.ZHANG,K.DING,Z.M.ZHANG,Y.TAN,Z.LI JRNL TITL SIMULTANEOUS COVALENT MODIFICATION OF K-RAS(G12D) AND JRNL TITL 2 K-RAS(G12C) WITH TUNABLE OXIRANE ELECTROPHILES. JRNL REF J.AM.CHEM.SOC. V. 145 20403 2023 JRNL REFN ESSN 1520-5126 JRNL PMID 37534597 JRNL DOI 10.1021/JACS.3C05899 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692+SVN 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.364 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 26244 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.609 REMARK 3 FREE R VALUE TEST SET COUNT : 1997 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 41.1420 - 3.8561 0.97 1867 152 0.1667 0.1845 REMARK 3 2 3.8561 - 3.0610 1.00 1787 147 0.1583 0.2094 REMARK 3 3 3.0610 - 2.6742 1.00 1760 145 0.1723 0.2083 REMARK 3 4 2.6742 - 2.4297 1.00 1731 143 0.1720 0.1997 REMARK 3 5 2.4297 - 2.2556 1.00 1747 145 0.1717 0.2125 REMARK 3 6 2.2556 - 2.1226 1.00 1715 141 0.1678 0.1942 REMARK 3 7 2.1226 - 2.0163 1.00 1719 141 0.1665 0.1754 REMARK 3 8 2.0163 - 1.9285 1.00 1711 142 0.1698 0.2261 REMARK 3 9 1.9285 - 1.8543 1.00 1717 141 0.1739 0.2158 REMARK 3 10 1.8543 - 1.7903 1.00 1701 140 0.1712 0.2009 REMARK 3 11 1.7903 - 1.7343 1.00 1708 141 0.1690 0.1943 REMARK 3 12 1.7343 - 1.6847 1.00 1702 140 0.1677 0.2060 REMARK 3 13 1.6847 - 1.6404 1.00 1691 140 0.1720 0.2029 REMARK 3 14 1.6404 - 1.6004 1.00 1691 139 0.1895 0.2362 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.929 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.90 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 : 0.007 1458 REMARK 3 ANGLE : 1.213 1978 REMARK 3 CHIRALITY : 0.046 218 REMARK 3 PLANARITY : 0.005 244 REMARK 3 DIHEDRAL : 17.654 546 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 25 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.1281 24.6622 1.7899 REMARK 3 T TENSOR REMARK 3 T11: 0.1128 T22: 0.1075 REMARK 3 T33: 0.1274 T12: -0.0465 REMARK 3 T13: -0.0146 T23: 0.0124 REMARK 3 L TENSOR REMARK 3 L11: 1.2875 L22: 2.6866 REMARK 3 L33: 1.5493 L12: -0.1271 REMARK 3 L13: 0.3529 L23: -0.3462 REMARK 3 S TENSOR REMARK 3 S11: -0.1323 S12: 0.1263 S13: 0.0020 REMARK 3 S21: -0.2075 S22: 0.1744 S23: 0.2572 REMARK 3 S31: 0.1197 S32: -0.1635 S33: -0.0354 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 26 THROUGH 37 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.0641 27.2708 -7.8075 REMARK 3 T TENSOR REMARK 3 T11: 0.3250 T22: 0.2915 REMARK 3 T33: 0.2516 T12: -0.0671 REMARK 3 T13: -0.1276 T23: 0.0443 REMARK 3 L TENSOR REMARK 3 L11: 7.1208 L22: 4.8793 REMARK 3 L33: 2.3983 L12: -4.4967 REMARK 3 L13: -3.7767 L23: 3.1505 REMARK 3 S TENSOR REMARK 3 S11: 0.1680 S12: 0.8789 S13: -0.2038 REMARK 3 S21: -0.5641 S22: -0.0942 S23: 0.4379 REMARK 3 S31: 0.2255 S32: -0.4501 S33: -0.0603 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 38 THROUGH 74 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.2656 25.7148 8.1890 REMARK 3 T TENSOR REMARK 3 T11: 0.1028 T22: 0.1306 REMARK 3 T33: 0.1651 T12: -0.0262 REMARK 3 T13: 0.0023 T23: 0.0205 REMARK 3 L TENSOR REMARK 3 L11: 1.8192 L22: 3.2141 REMARK 3 L33: 1.2606 L12: 0.6969 REMARK 3 L13: 0.2630 L23: 0.5728 REMARK 3 S TENSOR REMARK 3 S11: 0.0026 S12: -0.0777 S13: 0.1681 REMARK 3 S21: 0.0700 S22: 0.0593 S23: 0.3488 REMARK 3 S31: 0.0904 S32: -0.0957 S33: -0.0656 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 75 THROUGH 116 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.8288 36.0065 7.3021 REMARK 3 T TENSOR REMARK 3 T11: 0.0693 T22: 0.0793 REMARK 3 T33: 0.1280 T12: -0.0228 REMARK 3 T13: -0.0100 T23: -0.0071 REMARK 3 L TENSOR REMARK 3 L11: 2.7815 L22: 2.7821 REMARK 3 L33: 2.8971 L12: 0.2127 REMARK 3 L13: -1.6484 L23: 0.3043 REMARK 3 S TENSOR REMARK 3 S11: 0.0114 S12: -0.0548 S13: 0.3094 REMARK 3 S21: 0.0307 S22: 0.0550 S23: 0.1153 REMARK 3 S31: -0.0306 S32: 0.0009 S33: -0.0548 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 117 THROUGH 151 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.4032 31.6717 -1.9986 REMARK 3 T TENSOR REMARK 3 T11: 0.1565 T22: 0.1367 REMARK 3 T33: 0.0991 T12: -0.0415 REMARK 3 T13: 0.0230 T23: 0.0146 REMARK 3 L TENSOR REMARK 3 L11: 1.6061 L22: 1.4076 REMARK 3 L33: 2.7531 L12: -0.1541 REMARK 3 L13: 0.3063 L23: 0.7955 REMARK 3 S TENSOR REMARK 3 S11: -0.0315 S12: 0.3272 S13: 0.0958 REMARK 3 S21: -0.2615 S22: 0.0686 S23: -0.1104 REMARK 3 S31: 0.0352 S32: 0.1319 S33: -0.0360 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 152 THROUGH 169 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.4731 20.8317 10.8813 REMARK 3 T TENSOR REMARK 3 T11: 0.1034 T22: 0.0961 REMARK 3 T33: 0.1204 T12: -0.0065 REMARK 3 T13: 0.0013 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 3.1096 L22: 2.2039 REMARK 3 L33: 2.2958 L12: -0.3425 REMARK 3 L13: 0.1405 L23: -2.2424 REMARK 3 S TENSOR REMARK 3 S11: -0.0114 S12: -0.1296 S13: -0.0895 REMARK 3 S21: -0.0804 S22: 0.0195 S23: 0.0021 REMARK 3 S31: 0.2937 S32: 0.0409 S33: -0.0210 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 8JGD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC. REMARK 100 THE DEPOSITION ID IS D_1300037773. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CAMD REMARK 200 BEAMLINE : GCPCC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.987 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 300K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26269 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 41.142 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 28.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 40.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200MM CALCIUM ACETATE,100MM MES(PH 5.5 REMARK 280 -6.5),PEG 8000 16%-24%, PH 6.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.98600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 32.49300 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 48.73950 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 16.24650 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 81.23250 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 64.98600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 32.49300 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 16.24650 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 48.73950 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 81.23250 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 MET A 1 SD CE REMARK 470 LYS A 5 NZ REMARK 470 GLU A 31 CG CD OE1 OE2 REMARK 470 GLN A 61 CG CD OE1 NE2 REMARK 470 GLN A 70 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 O HOH A 355 O HOH A 365 1.81 REMARK 500 NH1 ARG A 164 O HOH A 301 1.87 REMARK 500 O HOH A 471 O HOH A 521 1.97 REMARK 500 O HOH A 488 O HOH A 490 2.09 REMARK 500 O HOH A 318 O HOH A 490 2.10 REMARK 500 O HOH A 470 O HOH A 515 2.12 REMARK 500 O HOH A 490 O HOH A 516 2.13 REMARK 500 O HOH A 400 O HOH A 504 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 320 O HOH A 516 6554 2.01 REMARK 500 O HOH A 396 O HOH A 396 9555 2.18 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 ARG A 151 17.33 56.13 REMARK 500 REMARK 500 REMARK: NULL 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 MG A 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 17 OG REMARK 620 2 GDP A 201 O3B 90.0 REMARK 620 3 HOH A 324 O 81.4 90.0 REMARK 620 4 HOH A 330 O 88.2 170.4 99.1 REMARK 620 5 HOH A 334 O 172.0 86.0 91.7 96.9 REMARK 620 6 HOH A 346 O 96.3 85.0 174.5 85.8 90.2 REMARK 620 N 1 2 3 4 5 DBREF 8JGD A 1 169 UNP P01116 RASK_HUMAN 1 169 SEQADV 8JGD CYS A 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQRES 1 A 169 MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA CYS GLY SEQRES 2 A 169 VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN ASN SEQRES 3 A 169 HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SER SEQRES 4 A 169 TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS LEU SEQRES 5 A 169 LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SER SEQRES 6 A 169 ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY PHE SEQRES 7 A 169 LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE GLU SEQRES 8 A 169 ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL LYS SEQRES 9 A 169 ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN LYS SEQRES 10 A 169 CYS ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN ALA SEQRES 11 A 169 GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE GLU SEQRES 12 A 169 THR SER ALA LYS THR ARG GLN ARG VAL GLU ASP ALA PHE SEQRES 13 A 169 TYR THR LEU VAL ARG GLU ILE ARG GLN TYR ARG LEU LYS HET GDP A 201 28 HET MG A 202 1 HET DWI A 203 46 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM DWI (2~{S})-1-[4-[7-(8-ETHYNYL-7-FLUORANYL-NAPHTHALEN-1- HETNAM 2 DWI YL)-8-FLUORANYL-2-[[(2~{R},8~{S})-2-FLUORANYL-1,2,3,5, HETNAM 3 DWI 6,7-HEXAHYDROPYRROLIZIN-8-YL]METHOXY]PYRIDO[4,3- HETNAM 4 DWI D]PYRIMIDIN-4-YL]PIPERAZIN-1-YL]-2-OXIDANYL-PROPAN-1- HETNAM 5 DWI ONE FORMUL 2 GDP C10 H15 N5 O11 P2 FORMUL 3 MG MG 2+ FORMUL 4 DWI C34 H33 F3 N6 O3 FORMUL 5 HOH *258(H2 O) HELIX 1 AA1 GLY A 15 ASN A 26 1 12 HELIX 2 AA2 SER A 65 THR A 74 1 10 HELIX 3 AA3 ASN A 86 ASP A 92 1 7 HELIX 4 AA4 ASP A 92 ASP A 105 1 14 HELIX 5 AA5 ASP A 126 GLY A 138 1 13 HELIX 6 AA6 ARG A 151 LYS A 169 1 19 SHEET 1 AA1 6 ASP A 38 ILE A 46 0 SHEET 2 AA1 6 GLU A 49 ASP A 57 -1 O CYS A 51 N VAL A 44 SHEET 3 AA1 6 THR A 2 VAL A 9 1 N VAL A 8 O LEU A 56 SHEET 4 AA1 6 GLY A 77 ALA A 83 1 O LEU A 79 N VAL A 9 SHEET 5 AA1 6 MET A 111 ASN A 116 1 O ASN A 116 N PHE A 82 SHEET 6 AA1 6 PHE A 141 GLU A 143 1 O ILE A 142 N LEU A 113 LINK SG CYS A 12 CBH DWI A 203 1555 1555 1.80 LINK OG SER A 17 MG MG A 202 1555 1555 2.27 LINK O3B GDP A 201 MG MG A 202 1555 1555 2.25 LINK MG MG A 202 O HOH A 324 1555 1555 2.29 LINK MG MG A 202 O HOH A 330 1555 1555 2.34 LINK MG MG A 202 O HOH A 334 1555 1555 2.40 LINK MG MG A 202 O HOH A 346 1555 1555 2.33 CRYST1 82.284 82.284 97.479 90.00 90.00 120.00 P 65 2 2 12 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 0.012153 0.007017 0.000000 0.00000 SCALE2 0.000000 0.014033 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010259 0.00000