HEADER SIGNALING PROTEIN 18-APR-24 9BGH TITLE CRYSTAL STRUCTURE OF KRAS G12D IN A TRANSITION STATE MIMETIC COMPLEX TITLE 2 WITH CYPA AND RMC-7977 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDYL-PROLYL CIS-TRANS ISOMERASE A; COMPND 3 CHAIN: B, D; COMPND 4 SYNONYM: PPIASE A,CYCLOPHILIN A,CYCLOSPORIN A-BINDING PROTEIN, COMPND 5 ROTAMASE A; COMPND 6 EC: 5.2.1.8; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: GTPASE KRAS; COMPND 10 CHAIN: A, C; COMPND 11 SYNONYM: K-RAS 2,KI-RAS,K-RAS; COMPND 12 EC: 3.6.5.2; COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: PPIA, CYPA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 9 ORGANISM_TAXID: 562; SOURCE 10 GENE: KRAS; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GTPASE ISOMERASE, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.POURFARJAM,Y.GOLDGUR,A.CUEVAS-NAVARRO,P.LITO REVDAT 1 06-NOV-24 9BGH 0 JRNL AUTH Y.POURFARJAM,Y.GOLDGUR,A.CUEVAS-NAVARRO,P.LITO JRNL TITL CRYSTAL STRUCTURE OF KRAS G12D IN A TRANSITION STATE MIMETIC JRNL TITL 2 COMPLEX WITH CYPA AND RMC-7977 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.20.1_4487: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 77261 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 3928 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 33.4800 - 5.0100 1.00 3017 175 0.2042 0.2468 REMARK 3 2 5.0100 - 3.9800 1.00 2915 158 0.1740 0.1893 REMARK 3 3 3.9800 - 3.4800 0.92 2631 136 0.1870 0.2127 REMARK 3 4 3.4700 - 3.1600 0.83 2390 112 0.2031 0.2179 REMARK 3 5 3.1600 - 2.9300 1.00 2840 151 0.2151 0.2467 REMARK 3 6 2.9300 - 2.7600 1.00 2821 146 0.2053 0.2211 REMARK 3 7 2.7600 - 2.6200 1.00 2847 139 0.2204 0.2772 REMARK 3 8 2.6200 - 2.5100 1.00 2824 148 0.2222 0.2718 REMARK 3 9 2.5100 - 2.4100 1.00 2824 144 0.2229 0.2543 REMARK 3 10 2.4100 - 2.3300 1.00 2805 167 0.2234 0.2271 REMARK 3 11 2.3300 - 2.2600 0.99 2706 141 0.2126 0.2558 REMARK 3 12 2.2300 - 2.1900 1.00 1967 112 0.2217 0.2569 REMARK 3 13 2.1900 - 2.1300 1.00 2791 140 0.2224 0.2686 REMARK 3 14 2.1300 - 2.0900 0.99 2397 128 0.2290 0.2953 REMARK 3 15 2.0500 - 2.0300 0.99 1254 60 0.2638 0.2838 REMARK 3 16 2.0300 - 1.9900 1.00 2782 156 0.2524 0.2949 REMARK 3 17 1.9900 - 1.9500 1.00 2797 142 0.2507 0.3355 REMARK 3 18 1.9500 - 1.9300 0.99 1758 93 0.2523 0.2913 REMARK 3 19 1.9000 - 1.8800 1.00 2071 105 0.2450 0.2615 REMARK 3 20 1.8800 - 1.8500 1.00 2803 160 0.2492 0.3219 REMARK 3 21 1.8500 - 1.8200 1.00 2719 184 0.2659 0.3151 REMARK 3 22 1.8200 - 1.7900 1.00 2785 177 0.2769 0.3105 REMARK 3 23 1.7900 - 1.7600 1.00 2807 127 0.2930 0.3426 REMARK 3 24 1.7600 - 1.7400 1.00 2781 147 0.3074 0.3315 REMARK 3 25 1.7400 - 1.7100 0.99 2734 147 0.3411 0.3952 REMARK 3 26 1.7100 - 1.6900 1.00 2801 135 0.3418 0.3601 REMARK 3 27 1.6900 - 1.6700 0.98 2714 160 0.3731 0.4482 REMARK 3 28 1.6700 - 1.6500 0.98 2752 138 0.3955 0.4651 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.260 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 : 0.018 NULL REMARK 3 ANGLE : 1.531 NULL REMARK 3 CHIRALITY : 0.084 789 REMARK 3 PLANARITY : 0.013 946 REMARK 3 DIHEDRAL : 15.749 782 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN B AND RESSEQ 2:201) REMARK 3 ORIGIN FOR THE GROUP (A): 8.7048 3.4840 10.4528 REMARK 3 T TENSOR REMARK 3 T11: 0.1485 T22: 0.1607 REMARK 3 T33: 0.1459 T12: 0.0113 REMARK 3 T13: -0.0367 T23: 0.0246 REMARK 3 L TENSOR REMARK 3 L11: 1.9492 L22: 1.4621 REMARK 3 L33: 3.0981 L12: -0.2486 REMARK 3 L13: 0.6639 L23: -0.3014 REMARK 3 S TENSOR REMARK 3 S11: 0.1065 S12: -0.0546 S13: -0.1398 REMARK 3 S21: -0.1153 S22: 0.0282 S23: 0.0466 REMARK 3 S31: 0.3355 S32: 0.1082 S33: -0.1293 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN D AND RESSEQ 2:201) REMARK 3 ORIGIN FOR THE GROUP (A): 42.0882 25.7686 25.1303 REMARK 3 T TENSOR REMARK 3 T11: 0.2114 T22: 0.2484 REMARK 3 T33: 0.1763 T12: -0.0878 REMARK 3 T13: -0.0546 T23: 0.0114 REMARK 3 L TENSOR REMARK 3 L11: 3.2519 L22: 1.4140 REMARK 3 L33: 2.3943 L12: -0.3241 REMARK 3 L13: 0.8147 L23: 0.2193 REMARK 3 S TENSOR REMARK 3 S11: 0.2882 S12: -0.2789 S13: -0.2457 REMARK 3 S21: 0.0791 S22: -0.0313 S23: -0.1703 REMARK 3 S31: 0.2412 S32: 0.0827 S33: -0.2271 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 0:202) REMARK 3 ORIGIN FOR THE GROUP (A): 11.4421 35.8161 9.5752 REMARK 3 T TENSOR REMARK 3 T11: 0.1821 T22: 0.2140 REMARK 3 T33: 0.2341 T12: 0.0609 REMARK 3 T13: 0.0770 T23: 0.0343 REMARK 3 L TENSOR REMARK 3 L11: 2.8932 L22: 2.6649 REMARK 3 L33: 2.4061 L12: 0.0542 REMARK 3 L13: -0.3043 L23: -0.5234 REMARK 3 S TENSOR REMARK 3 S11: 0.1784 S12: 0.1523 S13: 0.3277 REMARK 3 S21: 0.1156 S22: 0.0112 S23: 0.3553 REMARK 3 S31: -0.3528 S32: -0.3186 S33: -0.1007 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 0:203) REMARK 3 ORIGIN FOR THE GROUP (A): 16.7285 17.4366 42.5681 REMARK 3 T TENSOR REMARK 3 T11: 0.5630 T22: 0.6222 REMARK 3 T33: 0.4016 T12: -0.2482 REMARK 3 T13: 0.0737 T23: 0.0493 REMARK 3 L TENSOR REMARK 3 L11: 0.9619 L22: 2.1121 REMARK 3 L33: 3.1279 L12: 0.7146 REMARK 3 L13: -0.2899 L23: -0.2088 REMARK 3 S TENSOR REMARK 3 S11: 0.3888 S12: -0.6178 S13: 0.0045 REMARK 3 S21: 0.8479 S22: -0.3011 S23: 0.0324 REMARK 3 S31: -0.1966 S32: 0.2902 S33: -0.0659 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 9BGH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-APR-24. REMARK 100 THE DEPOSITION ID IS D_1000283325. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-23 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 : NSLS-II REMARK 200 BEAMLINE : 17-ID-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77267 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.175 REMARK 200 RESOLUTION RANGE LOW (A) : 34.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 74.7 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.46 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 (%): 46.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM TRIS-HCL PH 8.5, 22% PEG 8K., REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 32.74150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.91600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.89350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.91600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.74150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.89350 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D, A, C 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 GLY B 0 REMARK 465 MET B 1 REMARK 465 GLU B 165 REMARK 465 GLY D 0 REMARK 465 MET D 1 REMARK 465 GLU D 165 REMARK 465 LYS A 169 REMARK 465 GLU C 168 REMARK 465 LYS C 169 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 ARG C 68 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 165 CG CD CE NZ REMARK 470 HIS C 166 CG ND1 CD2 CE1 NE2 REMARK 470 LYS C 167 CG CD CE NZ 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 OD1 ASP C 12 F2 AF3 C 203 1.91 REMARK 500 O HOH C 349 O HOH C 380 1.92 REMARK 500 NE ARG C 41 O HOH C 301 1.95 REMARK 500 O HOH D 404 O HOH D 405 1.96 REMARK 500 AL AF3 C 203 O HOH C 307 1.97 REMARK 500 F3 AF3 C 203 O HOH C 320 1.97 REMARK 500 O HOH B 445 O HOH A 353 2.01 REMARK 500 O HOH D 304 O HOH D 407 2.03 REMARK 500 O3B GDP C 201 AL AF3 C 203 2.03 REMARK 500 O HOH D 395 O HOH D 405 2.05 REMARK 500 NH1 ARG B 144 O HOH B 301 2.07 REMARK 500 O HOH A 312 O HOH A 385 2.08 REMARK 500 O HOH A 394 O HOH A 420 2.09 REMARK 500 OE2 GLU A 37 O HOH A 301 2.10 REMARK 500 O HOH B 420 O HOH B 445 2.10 REMARK 500 NZ LYS C 5 O HOH C 302 2.13 REMARK 500 O HOH D 368 O HOH D 408 2.13 REMARK 500 OE2 GLU C 76 O HOH C 303 2.13 REMARK 500 O HOH B 364 O HOH B 431 2.14 REMARK 500 O HOH C 304 O HOH C 333 2.14 REMARK 500 OE2 GLU C 49 NH2 ARG C 164 2.15 REMARK 500 O HOH D 367 O HOH D 399 2.16 REMARK 500 O HOH B 327 O HOH B 409 2.17 REMARK 500 O HOH A 395 O HOH A 408 2.17 REMARK 500 O1B GDP C 201 F3 AF3 C 203 2.17 REMARK 500 O PRO B 58 O HOH C 301 2.18 REMARK 500 O HOH B 400 O HOH B 431 2.18 REMARK 500 O HOH C 324 O HOH C 379 2.18 REMARK 500 OH TYR A 96 O HOH A 302 2.18 REMARK 500 OE2 GLU B 15 O HOH B 302 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 B 381 O HOH D 397 4455 1.94 REMARK 500 O HOH D 393 O HOH C 375 3655 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 MET D 61 CG - SD - CE ANGL. DEV. = -13.7 DEGREES 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 B 60 -63.65 -130.26 REMARK 500 LYS B 133 -63.49 -101.60 REMARK 500 PHE D 60 -64.56 -132.34 REMARK 500 GLU D 81 -72.82 -56.98 REMARK 500 LYS D 133 -61.62 -98.25 REMARK 500 ILE A 36 -64.42 -91.12 REMARK 500 GLU A 37 131.14 -170.11 REMARK 500 LYS A 117 32.27 71.92 REMARK 500 SER A 122 57.64 -96.94 REMARK 500 ASN C 26 10.30 59.97 REMARK 500 GLU C 37 130.17 -172.51 REMARK 500 ARG C 102 -70.24 -60.67 REMARK 500 CYS C 118 5.71 -64.37 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 149 0.08 SIDE CHAIN 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 THR A 35 OG1 80.2 REMARK 620 3 GDP A 201 O1B 94.7 174.1 REMARK 620 4 HOH A 313 O 86.7 88.9 93.6 REMARK 620 5 HOH A 326 O 173.4 93.2 92.0 92.4 REMARK 620 6 HOH A 333 O 94.1 87.1 90.5 175.7 86.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER C 17 OG REMARK 620 2 THR C 35 OG1 81.9 REMARK 620 3 GDP C 201 O1B 90.1 167.5 REMARK 620 4 HOH C 310 O 102.4 98.8 92.2 REMARK 620 5 HOH C 320 O 80.8 74.5 94.9 172.2 REMARK 620 6 HOH C 327 O 159.7 90.5 94.0 97.3 79.0 REMARK 620 N 1 2 3 4 5 DBREF 9BGH B 1 165 UNP P62938 PPIA_CHLAE 1 165 DBREF 9BGH D 1 165 UNP P62938 PPIA_CHLAE 1 165 DBREF 9BGH A 1 169 UNP P79800 RASK_MELGA 1 169 DBREF 9BGH C 1 169 UNP P79800 RASK_MELGA 1 169 SEQADV 9BGH GLY B 0 UNP P62938 EXPRESSION TAG SEQADV 9BGH GLY D 0 UNP P62938 EXPRESSION TAG SEQADV 9BGH GLY A 0 UNP P79800 EXPRESSION TAG SEQADV 9BGH ASP A 12 UNP P79800 GLY 12 ENGINEERED MUTATION SEQADV 9BGH GLY C 0 UNP P79800 EXPRESSION TAG SEQADV 9BGH ASP C 12 UNP P79800 GLY 12 ENGINEERED MUTATION SEQRES 1 B 166 GLY MET VAL ASN PRO THR VAL PHE PHE ASP ILE ALA VAL SEQRES 2 B 166 ASP GLY GLU PRO LEU GLY ARG VAL SER PHE GLU LEU PHE SEQRES 3 B 166 ALA ASP LYS VAL PRO LYS THR ALA GLU ASN PHE ARG ALA SEQRES 4 B 166 LEU SER THR GLY GLU LYS GLY PHE GLY TYR LYS GLY SER SEQRES 5 B 166 CYS PHE HIS ARG ILE ILE PRO GLY PHE MET CYS GLN GLY SEQRES 6 B 166 GLY ASP PHE THR ARG HIS ASN GLY THR GLY GLY LYS SER SEQRES 7 B 166 ILE TYR GLY GLU LYS PHE GLU ASP GLU ASN PHE ILE LEU SEQRES 8 B 166 LYS HIS THR GLY PRO GLY ILE LEU SER MET ALA ASN ALA SEQRES 9 B 166 GLY PRO ASN THR ASN GLY SER GLN PHE PHE ILE CYS THR SEQRES 10 B 166 ALA LYS THR GLU TRP LEU ASP GLY LYS HIS VAL VAL PHE SEQRES 11 B 166 GLY LYS VAL LYS GLU GLY MET ASN ILE VAL GLU ALA MET SEQRES 12 B 166 GLU ARG PHE GLY SER ARG ASN GLY LYS THR SER LYS LYS SEQRES 13 B 166 ILE THR ILE ALA ASP CYS GLY GLN LEU GLU SEQRES 1 D 166 GLY MET VAL ASN PRO THR VAL PHE PHE ASP ILE ALA VAL SEQRES 2 D 166 ASP GLY GLU PRO LEU GLY ARG VAL SER PHE GLU LEU PHE SEQRES 3 D 166 ALA ASP LYS VAL PRO LYS THR ALA GLU ASN PHE ARG ALA SEQRES 4 D 166 LEU SER THR GLY GLU LYS GLY PHE GLY TYR LYS GLY SER SEQRES 5 D 166 CYS PHE HIS ARG ILE ILE PRO GLY PHE MET CYS GLN GLY SEQRES 6 D 166 GLY ASP PHE THR ARG HIS ASN GLY THR GLY GLY LYS SER SEQRES 7 D 166 ILE TYR GLY GLU LYS PHE GLU ASP GLU ASN PHE ILE LEU SEQRES 8 D 166 LYS HIS THR GLY PRO GLY ILE LEU SER MET ALA ASN ALA SEQRES 9 D 166 GLY PRO ASN THR ASN GLY SER GLN PHE PHE ILE CYS THR SEQRES 10 D 166 ALA LYS THR GLU TRP LEU ASP GLY LYS HIS VAL VAL PHE SEQRES 11 D 166 GLY LYS VAL LYS GLU GLY MET ASN ILE VAL GLU ALA MET SEQRES 12 D 166 GLU ARG PHE GLY SER ARG ASN GLY LYS THR SER LYS LYS SEQRES 13 D 166 ILE THR ILE ALA ASP CYS GLY GLN LEU GLU SEQRES 1 A 170 GLY MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA ASP SEQRES 2 A 170 GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN SEQRES 3 A 170 ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SEQRES 4 A 170 SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS SEQRES 5 A 170 LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SEQRES 6 A 170 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 A 170 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 A 170 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 A 170 LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN SEQRES 10 A 170 LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN SEQRES 11 A 170 ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE SEQRES 12 A 170 GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP ASP ALA SEQRES 13 A 170 PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS LYS GLU SEQRES 14 A 170 LYS SEQRES 1 C 170 GLY MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA ASP SEQRES 2 C 170 GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN SEQRES 3 C 170 ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SEQRES 4 C 170 SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS SEQRES 5 C 170 LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SEQRES 6 C 170 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 C 170 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 C 170 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 C 170 LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN SEQRES 10 C 170 LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN SEQRES 11 C 170 ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE SEQRES 12 C 170 GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP ASP ALA SEQRES 13 C 170 PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS LYS GLU SEQRES 14 C 170 LYS HET ZNI B 201 62 HET ZNI D 201 62 HET GDP A 201 28 HET MG A 202 1 HET GDP C 201 28 HET MG C 202 1 HET AF3 C 203 4 HETNAM ZNI (1R,5S,6R)-N-[(1P,7S,9S,13S,20M)-20-{5-(4- HETNAM 2 ZNI CYCLOPROPYLPIPERAZIN-1-YL)-2-[(1S)-1- HETNAM 3 ZNI METHOXYETHYL]PYRIDIN-3-YL}-21-ETHYL-17,17-DIMETHYL-8, HETNAM 4 ZNI 14-DIOXO-15-OXA-4-THIA-9,21,27,28- HETNAM 5 ZNI TETRAAZAPENTACYCLO[17.5.2.1~2,5~.1~9,13~.0~22, HETNAM 6 ZNI 26~]OCTACOSA-1(24),2,5(28),19,22,25-HEXAEN-7-YL]-3- HETNAM 7 ZNI OXABICYCLO[3.1.0]HEXANE-6-CARBOXAMIDE HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM AF3 ALUMINUM FLUORIDE HETSYN ZNI RMC-7977 FORMUL 5 ZNI 2(C47 H60 N8 O6 S) FORMUL 7 GDP 2(C10 H15 N5 O11 P2) FORMUL 8 MG 2(MG 2+) FORMUL 11 AF3 AL F3 FORMUL 12 HOH *485(H2 O) HELIX 1 AA1 VAL B 29 GLY B 42 1 14 HELIX 2 AA2 THR B 119 ASP B 123 5 5 HELIX 3 AA3 GLY B 135 GLU B 143 1 9 HELIX 4 AA4 ARG B 144 GLY B 146 5 3 HELIX 5 AA5 VAL D 29 GLY D 42 1 14 HELIX 6 AA6 THR D 119 ASP D 123 5 5 HELIX 7 AA7 GLY D 135 GLU D 143 1 9 HELIX 8 AA8 ARG D 144 GLY D 146 5 3 HELIX 9 AA9 GLY A 15 ASN A 26 1 12 HELIX 10 AB1 GLN A 61 MET A 67 5 7 HELIX 11 AB2 ARG A 68 GLY A 75 1 8 HELIX 12 AB3 ASN A 86 ASP A 105 1 20 HELIX 13 AB4 ASP A 126 GLY A 138 1 13 HELIX 14 AB5 GLY A 151 GLU A 168 1 18 HELIX 15 AB6 GLY C 15 ASN C 26 1 12 HELIX 16 AB7 GLN C 61 ALA C 66 5 6 HELIX 17 AB8 MET C 67 GLY C 75 1 9 HELIX 18 AB9 ASN C 86 ASP C 105 1 20 HELIX 19 AC1 ASP C 126 GLY C 138 1 13 HELIX 20 AC2 GLY C 151 LYS C 167 1 17 SHEET 1 AA1 8 ARG B 55 ILE B 57 0 SHEET 2 AA1 8 MET B 61 GLY B 64 -1 O GLN B 63 N ARG B 55 SHEET 3 AA1 8 PHE B 112 CYS B 115 -1 O ILE B 114 N CYS B 62 SHEET 4 AA1 8 ILE B 97 MET B 100 -1 N SER B 99 O PHE B 113 SHEET 5 AA1 8 VAL B 128 VAL B 132 -1 O GLY B 130 N LEU B 98 SHEET 6 AA1 8 GLU B 15 LEU B 24 -1 N GLU B 23 O LYS B 131 SHEET 7 AA1 8 THR B 5 VAL B 12 -1 N VAL B 6 O PHE B 22 SHEET 8 AA1 8 ILE B 156 GLN B 163 -1 O ASP B 160 N ASP B 9 SHEET 1 AA2 8 PHE D 53 ILE D 57 0 SHEET 2 AA2 8 MET D 61 GLY D 64 -1 O GLN D 63 N ARG D 55 SHEET 3 AA2 8 PHE D 112 CYS D 115 -1 O ILE D 114 N CYS D 62 SHEET 4 AA2 8 ILE D 97 MET D 100 -1 N ILE D 97 O CYS D 115 SHEET 5 AA2 8 VAL D 128 VAL D 132 -1 O GLY D 130 N LEU D 98 SHEET 6 AA2 8 GLU D 15 LEU D 24 -1 N GLU D 23 O LYS D 131 SHEET 7 AA2 8 THR D 5 VAL D 12 -1 N VAL D 6 O PHE D 22 SHEET 8 AA2 8 ILE D 156 LEU D 164 -1 O LEU D 164 N THR D 5 SHEET 1 AA3 6 GLU A 37 ILE A 46 0 SHEET 2 AA3 6 GLU A 49 THR A 58 -1 O ASP A 57 N ASP A 38 SHEET 3 AA3 6 GLU A 3 VAL A 9 1 N LEU A 6 O ASP A 54 SHEET 4 AA3 6 GLY A 77 ALA A 83 1 O VAL A 81 N VAL A 9 SHEET 5 AA3 6 MET A 111 ASN A 116 1 O ASN A 116 N PHE A 82 SHEET 6 AA3 6 PHE A 141 GLU A 143 1 O ILE A 142 N LEU A 113 SHEET 1 AA4 6 GLU C 37 ILE C 46 0 SHEET 2 AA4 6 GLU C 49 THR C 58 -1 O LEU C 53 N LYS C 42 SHEET 3 AA4 6 THR C 2 VAL C 9 1 N TYR C 4 O ASP C 54 SHEET 4 AA4 6 GLY C 77 ALA C 83 1 O GLY C 77 N VAL C 7 SHEET 5 AA4 6 MET C 111 ASN C 116 1 O ASN C 116 N PHE C 82 SHEET 6 AA4 6 PHE C 141 GLU C 143 1 O ILE C 142 N LEU C 113 LINK OG SER A 17 MG MG A 202 1555 1555 2.05 LINK OG1 THR A 35 MG MG A 202 1555 1555 2.12 LINK O1B GDP A 201 MG MG A 202 1555 1555 2.01 LINK MG MG A 202 O HOH A 313 1555 1555 2.16 LINK MG MG A 202 O HOH A 326 1555 1555 2.11 LINK MG MG A 202 O HOH A 333 1555 1555 2.06 LINK OG SER C 17 MG MG C 202 1555 1555 2.05 LINK OG1 THR C 35 MG MG C 202 1555 1555 2.21 LINK O1B GDP C 201 MG MG C 202 1555 1555 2.13 LINK MG MG C 202 O HOH C 310 1555 1555 2.22 LINK MG MG C 202 O HOH C 320 1555 1555 2.01 LINK MG MG C 202 O HOH C 327 1555 1555 2.08 CRYST1 65.483 81.787 127.832 90.00 90.00 90.00 P 21 21 21 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 0.015271 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012227 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007823 0.00000