HEADER HYDROLASE 19-FEB-12 4DSO TITLE SMALL-MOLECULE LIGANDS BIND TO A DISTINCT POCKET IN RAS AND INHIBIT TITLE 2 SOS-MEDIATED NUCLEOTIDE EXCHANGE ACTIVITY COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE KRAS, ISOFORM 2B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: KRAS 4B, K-RAS 2, KI-RAS, C-K-RAS, C-KI-RAS, GTPASE KRAS, N- COMPND 5 TERMINALLY PROCESSED; COMPND 6 EC: 3.6.-.-; COMPND 7 ENGINEERED: YES; COMPND 8 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 SMALL G-PROTEIN, SIGNALING, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.OH,T.MAURER,L.S.GARRENTON,K.PITTS,D.J.ANDERSON,N.J.SKELTON, AUTHOR 2 B.P.FAUBER,B.PAN,S.MALEK,D.STOKOE,M.LUDLAM,K.K.BOWMAN,J.WU, AUTHOR 3 A.M.GIANNETTI,M.A.STAROVASNIK,I.MELLMAN,P.K.JACKSON,J.RULDOLPH, AUTHOR 4 G.FANG,W.WANG REVDAT 4 28-FEB-24 4DSO 1 REMARK SEQADV LINK REVDAT 3 06-JUN-12 4DSO 1 COMPND DBREF SEQADV REMARK REVDAT 2 18-APR-12 4DSO 1 JRNL REVDAT 1 04-APR-12 4DSO 0 JRNL AUTH T.MAURER,L.S.GARRENTON,A.OH,K.PITTS,D.J.ANDERSON, JRNL AUTH 2 N.J.SKELTON,B.P.FAUBER,B.PAN,S.MALEK,D.STOKOE,M.J.LUDLAM, JRNL AUTH 3 K.K.BOWMAN,J.WU,A.M.GIANNETTI,M.A.STAROVASNIK,I.MELLMAN, JRNL AUTH 4 P.K.JACKSON,J.RUDOLPH,W.WANG,G.FANG JRNL TITL SMALL-MOLECULE LIGANDS BIND TO A DISTINCT POCKET IN RAS AND JRNL TITL 2 INHIBIT SOS-MEDIATED NUCLEOTIDE EXCHANGE ACTIVITY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 109 5299 2012 JRNL REFN ISSN 0027-8424 JRNL PMID 22431598 JRNL DOI 10.1073/PNAS.1116510109 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 14782 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 781 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 25 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.89 REMARK 3 REFLECTION IN BIN (WORKING SET) : 887 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.89 REMARK 3 BIN R VALUE (WORKING SET) : 0.2270 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.2850 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1417 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 149 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.41000 REMARK 3 B22 (A**2) : -0.41000 REMARK 3 B33 (A**2) : 0.61000 REMARK 3 B12 (A**2) : -0.20000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.141 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.129 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.887 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1487 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 997 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2011 ; 2.066 ; 1.996 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2428 ; 0.953 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 179 ; 7.500 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 71 ;39.387 ;24.648 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 261 ;14.615 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;20.783 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 222 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1638 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 295 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 329 ; 0.227 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1121 ; 0.214 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 728 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 768 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 134 ; 0.204 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.105 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 25 ; 0.231 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 52 ; 0.308 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.498 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1178 ; 1.200 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 369 ; 0.211 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1443 ; 1.358 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 684 ; 2.084 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 568 ; 2.880 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 448 A 449 REMARK 3 ORIGIN FOR THE GROUP (A): 18.5910 19.1790 4.5500 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 3.3018 L22: 6.4875 REMARK 3 L33: 0.8736 L12: -0.8399 REMARK 3 L13: 0.2515 L23: 2.2513 REMARK 3 S TENSOR REMARK 3 S11: -0.1552 S12: -0.2858 S13: 0.2268 REMARK 3 S21: -0.4001 S22: 0.2020 S23: 0.0300 REMARK 3 S31: -0.3711 S32: 0.0326 S33: -0.0468 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 5 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 180 REMARK 3 RESIDUE RANGE : A 201 A 201 REMARK 3 RESIDUE RANGE : A 203 A 203 REMARK 3 RESIDUE RANGE : A 204 A 204 REMARK 3 RESIDUE RANGE : A 301 A 422 REMARK 3 ORIGIN FOR THE GROUP (A): 18.6410 9.9230 0.1420 REMARK 3 T TENSOR REMARK 3 T11: -0.1602 T22: -0.1241 REMARK 3 T33: -0.1587 T12: 0.0134 REMARK 3 T13: -0.0318 T23: -0.0184 REMARK 3 L TENSOR REMARK 3 L11: 4.3176 L22: 4.4417 REMARK 3 L33: 2.7320 L12: 0.9070 REMARK 3 L13: 0.6767 L23: 0.7526 REMARK 3 S TENSOR REMARK 3 S11: -0.0434 S12: -0.2859 S13: 0.3336 REMARK 3 S21: 0.2113 S22: -0.0184 S23: -0.0459 REMARK 3 S31: -0.1016 S32: 0.1147 S33: 0.0618 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 423 A 447 REMARK 3 ORIGIN FOR THE GROUP (A): 15.2190 6.2470 -0.5870 REMARK 3 T TENSOR REMARK 3 T11: 0.0846 T22: -0.0692 REMARK 3 T33: 0.0067 T12: 0.0409 REMARK 3 T13: -0.0254 T23: -0.0179 REMARK 3 L TENSOR REMARK 3 L11: 3.8309 L22: 1.8630 REMARK 3 L33: 0.9806 L12: 0.5690 REMARK 3 L13: 1.1152 L23: 0.3902 REMARK 3 S TENSOR REMARK 3 S11: -0.0781 S12: -0.2659 S13: 0.3223 REMARK 3 S21: 0.0436 S22: -0.0957 S23: 0.1188 REMARK 3 S31: -0.0867 S32: 0.0456 S33: 0.1738 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4DSO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070732. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JAN-09 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97945 REMARK 200 MONOCHROMATOR : SIDE SCATTERING BENT CUBE-ROOT I REMARK 200 -BEAM SINGLE CRYSTAL; ASYMMETRIC REMARK 200 CUT 4.965 DEGS REMARK 200 OPTICS : SIDE SCATTERING BENT CUBE-ROOT I REMARK 200 -BEAM SINGLE CRYSTAL; ASYMMETRIC REMARK 200 CUT 4.965 DEGS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14782 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.15800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 7.400 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 (%): 43.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 UL + 0.2 UL DROPS CONTAINING 40 REMARK 280 MG/ML KRAS, 0.1 M TRISCL, 25% POLYETHYLENE GLYCOL 4000, 0.2 M REMARK 280 NAOAC, 2% BENZAMIDINE-HCL, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.68700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.91330 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 25.91633 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 39.68700 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 22.91330 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 25.91633 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 39.68700 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 22.91330 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 25.91633 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 45.82660 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 51.83267 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 45.82660 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 51.83267 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 45.82660 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 51.83267 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 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 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 HOH A 431 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 GLY A 0 REMARK 465 SER A 181 REMARK 465 LYS A 182 REMARK 465 THR A 183 REMARK 465 LYS A 184 REMARK 465 CYS A 185 REMARK 465 VAL A 186 REMARK 465 ILE A 187 REMARK 465 MET A 188 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 LYS A 175 CG CD CE NZ REMARK 470 LYS A 176 CG CD CE NZ REMARK 470 LYS A 177 CG CD CE NZ REMARK 470 LYS A 178 CG CD CE NZ REMARK 470 LYS A 179 CG CD CE NZ REMARK 470 LYS A 180 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 A 30 O HOH A 347 2.00 REMARK 500 O MET A 67 O HOH A 388 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 327 O HOH A 379 3555 1.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 73 NE ARG A 73 CZ 0.150 REMARK 500 ARG A 73 CZ ARG A 73 NH1 0.114 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 ARG A 73 NE - CZ - NH1 ANGL. DEV. = 7.7 DEGREES REMARK 500 ARG A 73 NE - CZ - NH2 ANGL. DEV. = -6.1 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 GLU A 37 108.43 -171.59 REMARK 500 GLU A 62 -144.20 81.50 REMARK 500 GLU A 63 -59.35 61.56 REMARK 500 TYR A 64 178.19 -39.05 REMARK 500 SER A 65 -9.93 106.23 REMARK 500 ALA A 66 -71.29 -96.43 REMARK 500 LYS A 117 33.43 74.55 REMARK 500 ARG A 149 -0.11 75.44 REMARK 500 ASP A 173 -146.62 54.52 REMARK 500 LYS A 175 -158.70 -155.63 REMARK 500 LYS A 176 -61.83 80.32 REMARK 500 LYS A 177 -67.88 -105.38 REMARK 500 LYS A 178 175.70 76.89 REMARK 500 LYS A 179 -89.34 -168.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 62 GLU A 63 -149.81 REMARK 500 TYR A 64 SER A 65 -143.96 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 83.3 REMARK 620 3 GSP A 201 O3G 172.6 90.2 REMARK 620 4 GSP A 201 O2B 89.7 173.0 96.7 REMARK 620 5 HOH A 322 O 86.8 88.0 96.6 91.5 REMARK 620 6 HOH A 366 O 89.0 90.0 87.3 90.0 175.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GSP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEN A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 204 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DSN RELATED DB: PDB REMARK 900 RELATED ID: 4DST RELATED DB: PDB REMARK 900 RELATED ID: 4DSU RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE MATCHES UNIPROT ENTRY P01116, ISOFORM 2B WITH REMARK 999 IDENTIFIER P01116-2. DBREF 4DSO A 2 188 UNP P01116 RASK_HUMAN 2 188 SEQADV 4DSO GLY A 0 UNP P01116 EXPRESSION TAG SEQADV 4DSO SER A 1 UNP P01116 EXPRESSION TAG SEQADV 4DSO ASP A 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQRES 1 A 189 GLY SER THR GLU TYR LYS LEU VAL VAL VAL GLY ALA ASP SEQRES 2 A 189 GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN SEQRES 3 A 189 ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SEQRES 4 A 189 SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS SEQRES 5 A 189 LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SEQRES 6 A 189 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 A 189 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 A 189 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 A 189 LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN SEQRES 10 A 189 LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN SEQRES 11 A 189 ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE SEQRES 12 A 189 GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP ASP ALA SEQRES 13 A 189 PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS LYS GLU SEQRES 14 A 189 LYS MET SER LYS ASP GLY LYS LYS LYS LYS LYS LYS SER SEQRES 15 A 189 LYS THR LYS CYS VAL ILE MET HET GSP A 201 32 HET MG A 202 1 HET BEN A 203 9 HET GOL A 204 6 HETNAM GSP 5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM BEN BENZAMIDINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GSP C10 H16 N5 O13 P3 S FORMUL 3 MG MG 2+ FORMUL 4 BEN C7 H8 N2 FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *149(H2 O) HELIX 1 1 GLY A 15 ASN A 26 1 12 HELIX 2 2 MET A 67 GLY A 75 1 9 HELIX 3 3 ASN A 86 LYS A 104 1 19 HELIX 4 4 ASP A 126 GLY A 138 1 13 HELIX 5 5 GLY A 151 ASP A 173 1 23 SHEET 1 A 6 GLU A 37 ILE A 46 0 SHEET 2 A 6 GLU A 49 THR A 58 -1 O CYS A 51 N VAL A 44 SHEET 3 A 6 THR A 2 VAL A 9 1 N VAL A 8 O LEU A 56 SHEET 4 A 6 GLY A 77 ALA A 83 1 O LEU A 79 N VAL A 9 SHEET 5 A 6 MET A 111 ASN A 116 1 O VAL A 114 N CYS A 80 SHEET 6 A 6 PHE A 141 GLU A 143 1 O ILE A 142 N LEU A 113 LINK OG SER A 17 MG MG A 202 1555 1555 1.96 LINK OG1 THR A 35 MG MG A 202 1555 1555 2.15 LINK O3G GSP A 201 MG MG A 202 1555 1555 1.85 LINK O2B GSP A 201 MG MG A 202 1555 1555 2.13 LINK MG MG A 202 O HOH A 322 1555 1555 2.04 LINK MG MG A 202 O HOH A 366 1555 1555 2.27 SITE 1 AC1 28 ASP A 12 GLY A 13 VAL A 14 GLY A 15 SITE 2 AC1 28 LYS A 16 SER A 17 ALA A 18 PHE A 28 SITE 3 AC1 28 VAL A 29 ASP A 30 GLU A 31 TYR A 32 SITE 4 AC1 28 THR A 35 GLY A 60 ASN A 116 LYS A 117 SITE 5 AC1 28 ASP A 119 LEU A 120 SER A 145 ALA A 146 SITE 6 AC1 28 LYS A 147 MG A 202 HOH A 322 HOH A 347 SITE 7 AC1 28 HOH A 366 HOH A 419 HOH A 429 HOH A 436 SITE 1 AC2 5 SER A 17 THR A 35 GSP A 201 HOH A 322 SITE 2 AC2 5 HOH A 366 SITE 1 AC3 9 LEU A 6 SER A 39 ARG A 41 ASP A 54 SITE 2 AC3 9 LEU A 56 THR A 74 CYS A 118 HOH A 316 SITE 3 AC3 9 HOH A 317 SITE 1 AC4 7 GLU A 62 ARG A 68 ASP A 92 HIS A 95 SITE 2 AC4 7 TYR A 96 GLN A 99 HOH A 384 CRYST1 79.374 79.374 77.749 90.00 90.00 120.00 H 3 9 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 0.012599 0.007274 0.000000 0.00000 SCALE2 0.000000 0.014548 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012862 0.00000