HEADER PROTEIN BINDING 19-APR-20 6YR8 TITLE AFFIMER K6 - KRAS PROTEIN COMPLEX 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 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: AFFIMER K6; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: 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; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN COMPLEX, AFFIMER, KRAS, INHIBITOR, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR C.H.TRINH,K.Z.HAZA,A.RAO,H.L.MARTIN,C.TIEDE,T.A.EDWARDS, AUTHOR 2 M.J.MCPHERSON,D.C.TOMLINSON REVDAT 3 24-JAN-24 6YR8 1 JRNL REVDAT 2 14-JUL-21 6YR8 1 JRNL LINK REVDAT 1 08-JUL-20 6YR8 0 JRNL AUTH K.Z.HAZA,H.L.MARTIN,A.RAO,A.L.TURNER,S.E.SAUNDERS, JRNL AUTH 2 B.PETERSEN,C.TIEDE,K.TIPPING,A.A.TANG,M.AJAYI,T.TAYLOR, JRNL AUTH 3 M.HARVEY,K.M.FISHWICK,T.L.ADAMS,T.G.GAULE,C.H.TRINH, JRNL AUTH 4 M.JOHNSON,A.L.BREEZE,T.A.EDWARDS,M.J.MCPHERSON,D.C.TOMLINSON JRNL TITL RAS-INHIBITING BIOLOGICS IDENTIFY AND PROBE DRUGGABLE JRNL TITL 2 POCKETS INCLUDING AN SII-ALPHA 3 ALLOSTERIC SITE. JRNL REF NAT COMMUN V. 12 4045 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 34193876 JRNL DOI 10.1038/S41467-021-24316-0 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.Z.HAZA,H.L.MARTIN,A.RAO,A.TURNER,S.E.SAUNDERS,B.PETERSEN, REMARK 1 AUTH 2 C.TIEDE,K.TIPPING,M.AJAYI,K.M.FISHWICK,T.L.ADAMS,C.H.TRINH, REMARK 1 AUTH 3 A.L.BREEZE,T.A.EDWARDS,M.J.MCPHERSON,D.C.TOMLINSON REMARK 1 TITL RAS-INHIBITING BIOLOGICS IDENTIFY AND PROBE DRUGGABLE REMARK 1 TITL 2 POCKETS INCLUDING AN SII-ALPHA3 ALLOSTERIC SITE REMARK 1 REF BIORXIV 2020 REMARK 1 REFN ISSN 2692-8205 REMARK 1 DOI 10.1101/2020.06.04.133728 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0230 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 27147 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1387 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2007 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.4660 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.5160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2012 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 124 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.44000 REMARK 3 B22 (A**2) : 3.44000 REMARK 3 B33 (A**2) : -6.88000 REMARK 3 B12 (A**2) : 0.00000 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): 0.139 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.135 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.170 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.377 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2075 ; 0.009 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 1880 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2803 ; 1.290 ; 1.682 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4392 ; 0.819 ; 1.654 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 250 ; 6.381 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 109 ;37.430 ;23.028 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 375 ;16.197 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;20.392 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 273 ; 0.052 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2290 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 382 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 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 -1 A 202 REMARK 3 ORIGIN FOR THE GROUP (A): 16.5775 -12.0011 49.9138 REMARK 3 T TENSOR REMARK 3 T11: 0.1102 T22: 0.1419 REMARK 3 T33: 0.2549 T12: 0.1171 REMARK 3 T13: 0.0568 T23: 0.0305 REMARK 3 L TENSOR REMARK 3 L11: 2.5095 L22: 1.9627 REMARK 3 L33: 3.1459 L12: -0.1352 REMARK 3 L13: -0.8887 L23: -0.3933 REMARK 3 S TENSOR REMARK 3 S11: -0.1220 S12: -0.1515 S13: -0.4151 REMARK 3 S21: -0.1870 S22: -0.0372 S23: -0.4736 REMARK 3 S31: 0.5357 S32: 0.6050 S33: 0.1593 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 4 B 92 REMARK 3 ORIGIN FOR THE GROUP (A): 14.7106 8.1805 24.0545 REMARK 3 T TENSOR REMARK 3 T11: 0.0532 T22: 0.0787 REMARK 3 T33: 0.1170 T12: -0.0094 REMARK 3 T13: 0.0264 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 1.2805 L22: 1.3486 REMARK 3 L33: 5.3590 L12: -0.2188 REMARK 3 L13: -1.1649 L23: -1.0261 REMARK 3 S TENSOR REMARK 3 S11: 0.0401 S12: 0.1168 S13: 0.1558 REMARK 3 S21: -0.0611 S22: 0.0867 S23: 0.1398 REMARK 3 S31: -0.2270 S32: -0.3430 S33: -0.1268 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6YR8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292108143. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9159 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XIA2 0.5.769 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28572 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 64.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.30 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 11.40 REMARK 200 R MERGE FOR SHELL (I) : 2.69000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.600 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: 4OBE, 4N6T REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE, 25% W/V PEG 4000, REMARK 280 0.2M AMMONIUM SULFATE, 5% MPD, PH 5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y,Z REMARK 290 7555 -Y+1/2,X,Z+3/4 REMARK 290 8555 Y,-X+1/2,Z+1/4 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 35.78700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 35.78700 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.19500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.78700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 36.09750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.78700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 108.29250 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 35.78700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.78700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 72.19500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 35.78700 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 108.29250 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 35.78700 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 36.09750 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: 1890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 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 GLY A -2 REMARK 465 GLN A 61 REMARK 465 GLU A 62 REMARK 465 GLU A 63 REMARK 465 TYR A 64 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 SER B 3 REMARK 465 GLY B 93 REMARK 465 ASP B 94 REMARK 465 ALA B 95 REMARK 465 ALA B 96 REMARK 465 ALA B 97 REMARK 465 ALA B 98 REMARK 465 HIS B 99 REMARK 465 HIS B 100 REMARK 465 HIS B 101 REMARK 465 HIS B 102 REMARK 465 HIS B 103 REMARK 465 HIS B 104 REMARK 465 HIS B 105 REMARK 465 HIS B 106 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 SER A -1 OG REMARK 470 HIS A 0 CG ND1 CD2 CE1 NE2 REMARK 470 GLN A 70 CG CD OE1 NE2 REMARK 470 HIS A 94 CG ND1 CD2 CE1 NE2 REMARK 470 HIS A 95 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 98 CG CD OE1 OE2 REMARK 470 ARG A 102 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 135 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 36 CG CD CE NZ REMARK 470 ARG B 81 CG CD NE CZ NH1 NH2 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 ASP A 33 120.38 -38.56 REMARK 500 ALA A 59 -40.36 -130.08 REMARK 500 ARG A 149 -1.65 76.20 REMARK 500 LEU B 26 55.96 -149.92 REMARK 500 VAL B 30 -62.64 -103.52 REMARK 500 THR B 77 -109.60 58.18 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 93.6 REMARK 620 3 HOH A 301 O 101.5 99.0 REMARK 620 4 HOH A 316 O 94.0 157.8 99.8 REMARK 620 5 HOH A 320 O 88.0 78.8 170.5 80.7 REMARK 620 6 HOH A 333 O 165.3 84.4 93.2 83.0 77.4 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 GDP 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 DBREF 6YR8 A 1 166 UNP P01116 RASK_HUMAN 1 166 DBREF 6YR8 B 1 106 PDB 6YR8 6YR8 1 106 SEQADV 6YR8 GLY A -2 UNP P01116 EXPRESSION TAG SEQADV 6YR8 SER A -1 UNP P01116 EXPRESSION TAG SEQADV 6YR8 HIS A 0 UNP P01116 EXPRESSION TAG SEQRES 1 A 169 GLY SER HIS MET THR GLU TYR LYS LEU VAL VAL VAL GLY SEQRES 2 A 169 ALA GLY GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU SEQRES 3 A 169 ILE GLN ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE SEQRES 4 A 169 GLU ASP SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU SEQRES 5 A 169 THR CYS LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU SEQRES 6 A 169 GLU TYR SER ALA MET ARG ASP GLN TYR MET ARG THR GLY SEQRES 7 A 169 GLU GLY PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SEQRES 8 A 169 SER PHE GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS SEQRES 9 A 169 ARG VAL LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL SEQRES 10 A 169 GLY ASN LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR SEQRES 11 A 169 LYS GLN ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO SEQRES 12 A 169 PHE ILE GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP SEQRES 13 A 169 ASP ALA PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS SEQRES 1 B 106 MET ALA SER ASN SER LEU GLU ILE GLU GLU LEU ALA ARG SEQRES 2 B 106 PHE ALA VAL ASP GLU HIS ASN LYS LYS GLU ASN ALA LEU SEQRES 3 B 106 LEU GLU PHE VAL ARG VAL VAL LYS ALA LYS GLU GLN HIS SEQRES 4 B 106 PHE THR PRO TRP PHE GLN ARG ASN THR MET TYR TYR LEU SEQRES 5 B 106 THR LEU GLU ALA LYS ASP GLY GLY LYS LYS LYS LEU TYR SEQRES 6 B 106 GLU ALA LYS VAL TRP VAL LYS ARG ILE MET VAL THR ASP SEQRES 7 B 106 LYS MET ARG ASN PHE LYS GLU LEU GLN GLU PHE LYS PRO SEQRES 8 B 106 VAL GLY ASP ALA ALA ALA ALA HIS HIS HIS HIS HIS HIS SEQRES 9 B 106 HIS HIS HET GDP A 201 28 HET MG A 202 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 GDP C10 H15 N5 O11 P2 FORMUL 4 MG MG 2+ FORMUL 5 HOH *124(H2 O) HELIX 1 AA1 GLY A 15 ASN A 26 1 12 HELIX 2 AA2 ALA A 66 GLY A 75 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 GLY A 151 HIS A 166 1 16 HELIX 7 AA7 SER B 5 GLU B 23 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 ASP A 57 N ASP A 38 SHEET 3 AA1 6 THR A 2 VAL A 9 1 N LEU A 6 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 VAL A 114 N CYS A 80 SHEET 6 AA1 6 PHE A 141 GLU A 143 1 O ILE A 142 N LEU A 113 SHEET 1 AA2 4 GLU B 28 PHE B 40 0 SHEET 2 AA2 4 ASN B 47 ASP B 58 -1 O GLU B 55 N ARG B 31 SHEET 3 AA2 4 LYS B 61 VAL B 76 -1 O VAL B 69 N TYR B 50 SHEET 4 AA2 4 LYS B 79 PRO B 91 -1 O GLN B 87 N LYS B 68 LINK OG SER A 17 MG MG A 202 1555 1555 1.98 LINK O3B GDP A 201 MG MG A 202 1555 1555 2.14 LINK MG MG A 202 O HOH A 301 1555 1555 2.01 LINK MG MG A 202 O HOH A 316 1555 1555 2.11 LINK MG MG A 202 O HOH A 320 1555 1555 2.20 LINK MG MG A 202 O HOH A 333 1555 1555 2.05 SITE 1 AC1 20 GLY A 13 VAL A 14 GLY A 15 LYS A 16 SITE 2 AC1 20 SER A 17 ALA A 18 PHE A 28 ASP A 30 SITE 3 AC1 20 ASN A 116 LYS A 117 ASP A 119 SER A 145 SITE 4 AC1 20 ALA A 146 LYS A 147 MG A 202 HOH A 306 SITE 5 AC1 20 HOH A 320 HOH A 321 HOH A 325 HOH A 333 SITE 1 AC2 6 SER A 17 GDP A 201 HOH A 301 HOH A 316 SITE 2 AC2 6 HOH A 320 HOH A 333 CRYST1 71.574 71.574 144.390 90.00 90.00 90.00 I 41 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 0.013972 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013972 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006926 0.00000