HEADER PROTEIN BINDING 04-MAY-20 6YXW TITLE AFFIMER K3 - KRAS PROTEIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE KRAS; COMPND 3 CHAIN: A, C; 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 K3; COMPND 8 CHAIN: B, D; 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 6YXW 1 JRNL REVDAT 2 14-JUL-21 6YXW 1 JRNL LINK REVDAT 1 08-JUL-20 6YXW 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. 2.06 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.06 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 36784 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) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1946 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) : 2.06 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2651 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.3690 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.3720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4134 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 103 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.99000 REMARK 3 B22 (A**2) : -0.56000 REMARK 3 B33 (A**2) : -2.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.54000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.233 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.199 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.216 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.861 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.896 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4272 ; 0.006 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 3849 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5769 ; 1.020 ; 1.680 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9018 ; 0.759 ; 1.655 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 508 ; 6.270 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 236 ;34.961 ;23.220 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 785 ;15.000 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;21.513 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 549 ; 0.044 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4725 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 795 ; 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 : 4 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 2 A 202 REMARK 3 ORIGIN FOR THE GROUP (A): 11.4544 11.2375 -14.9757 REMARK 3 T TENSOR REMARK 3 T11: 0.0673 T22: 0.2664 REMARK 3 T33: 0.0909 T12: 0.0044 REMARK 3 T13: 0.0616 T23: -0.0141 REMARK 3 L TENSOR REMARK 3 L11: 2.3369 L22: 2.6077 REMARK 3 L33: 3.7750 L12: -0.0518 REMARK 3 L13: 0.8143 L23: -0.0918 REMARK 3 S TENSOR REMARK 3 S11: -0.0256 S12: 0.0264 S13: -0.0194 REMARK 3 S21: 0.2187 S22: 0.0634 S23: 0.3222 REMARK 3 S31: -0.3192 S32: 0.0712 S33: -0.0378 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): 43.5174 -3.8059 -11.9502 REMARK 3 T TENSOR REMARK 3 T11: 0.1579 T22: 0.3927 REMARK 3 T33: 0.0608 T12: -0.0321 REMARK 3 T13: 0.0398 T23: -0.0144 REMARK 3 L TENSOR REMARK 3 L11: 6.9051 L22: 3.0187 REMARK 3 L33: 2.1280 L12: -3.0691 REMARK 3 L13: 1.2035 L23: -0.5349 REMARK 3 S TENSOR REMARK 3 S11: 0.0059 S12: -0.1381 S13: 0.1809 REMARK 3 S21: -0.1583 S22: -0.0180 S23: -0.0561 REMARK 3 S31: 0.1909 S32: 0.0767 S33: 0.0121 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 : C 1 C 202 REMARK 3 ORIGIN FOR THE GROUP (A): 49.9882 -3.3942 -39.2923 REMARK 3 T TENSOR REMARK 3 T11: 0.0077 T22: 0.1390 REMARK 3 T33: 0.0163 T12: 0.0118 REMARK 3 T13: 0.0028 T23: 0.0206 REMARK 3 L TENSOR REMARK 3 L11: 3.0927 L22: 2.2076 REMARK 3 L33: 4.0290 L12: 0.3573 REMARK 3 L13: -0.5450 L23: -0.2734 REMARK 3 S TENSOR REMARK 3 S11: -0.0571 S12: -0.0608 S13: -0.0942 REMARK 3 S21: 0.0197 S22: -0.0230 S23: -0.1633 REMARK 3 S31: 0.1574 S32: 0.0687 S33: 0.0800 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 5 D 92 REMARK 3 ORIGIN FOR THE GROUP (A): 14.4681 -4.8112 -38.3992 REMARK 3 T TENSOR REMARK 3 T11: 0.1359 T22: 0.2937 REMARK 3 T33: 0.1586 T12: 0.0366 REMARK 3 T13: -0.0039 T23: -0.0341 REMARK 3 L TENSOR REMARK 3 L11: 7.6720 L22: 1.5457 REMARK 3 L33: 0.7494 L12: 0.4802 REMARK 3 L13: 0.2518 L23: -0.6292 REMARK 3 S TENSOR REMARK 3 S11: -0.0064 S12: 0.0120 S13: 0.0745 REMARK 3 S21: -0.1311 S22: -0.0177 S23: 0.1973 REMARK 3 S31: -0.0575 S32: -0.0475 S33: 0.0242 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6YXW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1292108432. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUL-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9660 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38740 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.060 REMARK 200 RESOLUTION RANGE LOW (A) : 54.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.39300 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: 4OBE, 4N6T REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM SULFATE, 0.2M POTASSIUM REMARK 280 SODIUM TARTRATE, 0.1M TRI-SODIUM CITRATE, PH 5.6, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 19.74500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 2450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 2470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 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 465 GLY C -2 REMARK 465 SER C -1 REMARK 465 HIS C 0 REMARK 465 MET D 1 REMARK 465 ALA D 2 REMARK 465 SER D 3 REMARK 465 ASN D 4 REMARK 465 GLY D 93 REMARK 465 ASP D 94 REMARK 465 ALA D 95 REMARK 465 ALA D 96 REMARK 465 ALA D 97 REMARK 465 ALA D 98 REMARK 465 HIS D 99 REMARK 465 HIS D 100 REMARK 465 HIS D 101 REMARK 465 HIS D 102 REMARK 465 HIS D 103 REMARK 465 HIS D 104 REMARK 465 HIS D 105 REMARK 465 HIS D 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 LYS A 167 CG CD CE NZ REMARK 470 SER B 77 OG REMARK 470 HIS B 78 CG ND1 CD2 CE1 NE2 REMARK 470 THR B 79 OG1 CG2 REMARK 470 GLN C 43 CG CD OE1 NE2 REMARK 470 SER D 77 OG REMARK 470 HIS D 78 CG ND1 CD2 CE1 NE2 REMARK 470 THR D 79 OG1 CG2 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 33 114.28 -35.66 REMARK 500 ASP A 108 53.01 -97.67 REMARK 500 LYS A 117 35.59 82.83 REMARK 500 LEU B 26 52.65 -145.36 REMARK 500 VAL B 30 -63.06 -106.97 REMARK 500 TRP B 44 -63.49 -126.78 REMARK 500 SER B 77 123.29 -177.53 REMARK 500 THR B 79 -160.67 58.93 REMARK 500 TYR B 80 -62.71 73.58 REMARK 500 ASP C 33 112.97 -39.41 REMARK 500 ASP C 108 69.47 -102.21 REMARK 500 LYS C 117 35.59 74.83 REMARK 500 ARG C 149 -3.50 81.01 REMARK 500 TRP D 44 -58.10 -125.07 REMARK 500 ASN D 76 -41.66 175.34 REMARK 500 THR D 79 -107.23 -63.81 REMARK 500 TYR D 80 -68.83 71.85 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 O2B 98.7 REMARK 620 3 HOH A 301 O 102.7 86.8 REMARK 620 4 HOH A 304 O 167.9 88.8 87.2 REMARK 620 5 HOH A 308 O 91.0 169.2 95.7 80.8 REMARK 620 6 HOH A 314 O 80.7 96.7 174.7 89.0 80.1 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 GDP C 201 O1B 90.2 REMARK 620 3 HOH C 302 O 77.5 93.5 REMARK 620 4 HOH C 303 O 97.4 85.5 174.8 REMARK 620 5 HOH C 309 O 170.7 90.4 93.2 91.9 REMARK 620 6 HOH C 322 O 92.0 173.3 93.1 87.9 88.4 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 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 202 DBREF 6YXW A 1 167 UNP P01116 RASK_HUMAN 1 167 DBREF 6YXW B 1 106 PDB 6YXW 6YXW 1 106 DBREF 6YXW C 1 167 UNP P01116 RASK_HUMAN 1 167 DBREF 6YXW D 1 106 PDB 6YXW 6YXW 1 106 SEQADV 6YXW GLY A -2 UNP P01116 EXPRESSION TAG SEQADV 6YXW SER A -1 UNP P01116 EXPRESSION TAG SEQADV 6YXW HIS A 0 UNP P01116 EXPRESSION TAG SEQADV 6YXW GLY C -2 UNP P01116 EXPRESSION TAG SEQADV 6YXW SER C -1 UNP P01116 EXPRESSION TAG SEQADV 6YXW HIS C 0 UNP P01116 EXPRESSION TAG SEQRES 1 A 170 GLY SER HIS MET THR GLU TYR LYS LEU VAL VAL VAL GLY SEQRES 2 A 170 ALA GLY GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU SEQRES 3 A 170 ILE GLN ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE SEQRES 4 A 170 GLU ASP SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU SEQRES 5 A 170 THR CYS LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU SEQRES 6 A 170 GLU TYR SER ALA MET ARG ASP GLN TYR MET ARG THR GLY SEQRES 7 A 170 GLU GLY PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SEQRES 8 A 170 SER PHE GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS SEQRES 9 A 170 ARG VAL LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL SEQRES 10 A 170 GLY ASN LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR SEQRES 11 A 170 LYS GLN ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO SEQRES 12 A 170 PHE ILE GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP SEQRES 13 A 170 ASP ALA PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS SEQRES 14 A 170 LYS 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 SER ILE ASP ILE TRP TYR ASP PHE 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 LYS LEU ASN ASN SER HIS SEQRES 7 B 106 THR TYR LYS 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 SEQRES 1 C 170 GLY SER HIS MET THR GLU TYR LYS LEU VAL VAL VAL GLY SEQRES 2 C 170 ALA GLY GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU SEQRES 3 C 170 ILE GLN ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE SEQRES 4 C 170 GLU ASP SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU SEQRES 5 C 170 THR CYS LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU SEQRES 6 C 170 GLU TYR SER ALA MET ARG ASP GLN TYR MET ARG THR GLY SEQRES 7 C 170 GLU GLY PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SEQRES 8 C 170 SER PHE GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS SEQRES 9 C 170 ARG VAL LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL SEQRES 10 C 170 GLY ASN LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR SEQRES 11 C 170 LYS GLN ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO SEQRES 12 C 170 PHE ILE GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP SEQRES 13 C 170 ASP ALA PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS SEQRES 14 C 170 LYS SEQRES 1 D 106 MET ALA SER ASN SER LEU GLU ILE GLU GLU LEU ALA ARG SEQRES 2 D 106 PHE ALA VAL ASP GLU HIS ASN LYS LYS GLU ASN ALA LEU SEQRES 3 D 106 LEU GLU PHE VAL ARG VAL VAL LYS ALA LYS GLU GLN HIS SEQRES 4 D 106 SER ILE ASP ILE TRP TYR ASP PHE THR MET TYR TYR LEU SEQRES 5 D 106 THR LEU GLU ALA LYS ASP GLY GLY LYS LYS LYS LEU TYR SEQRES 6 D 106 GLU ALA LYS VAL TRP VAL LYS LYS LEU ASN ASN SER HIS SEQRES 7 D 106 THR TYR LYS ASN PHE LYS GLU LEU GLN GLU PHE LYS PRO SEQRES 8 D 106 VAL GLY ASP ALA ALA ALA ALA HIS HIS HIS HIS HIS HIS SEQRES 9 D 106 HIS HIS HET GDP A 201 28 HET MG A 202 1 HET GDP C 201 28 HET MG C 202 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 5 GDP 2(C10 H15 N5 O11 P2) FORMUL 6 MG 2(MG 2+) FORMUL 9 HOH *103(H2 O) HELIX 1 AA1 GLY A 15 GLN A 25 1 11 HELIX 2 AA2 SER A 65 GLY A 75 1 11 HELIX 3 AA3 ASN A 86 ASP A 105 1 20 HELIX 4 AA4 ASP A 126 GLY A 138 1 13 HELIX 5 AA5 GLY A 151 HIS A 166 1 16 HELIX 6 AA6 GLU B 7 ASN B 24 1 18 HELIX 7 AA7 GLY C 15 ASN C 26 1 12 HELIX 8 AA8 SER C 65 GLY C 75 1 11 HELIX 9 AA9 ASN C 86 ASP C 105 1 20 HELIX 10 AB1 ASP C 126 GLY C 138 1 13 HELIX 11 AB2 GLY C 151 LYS C 167 1 17 HELIX 12 AB3 GLU D 7 GLU D 23 1 17 SHEET 1 AA1 6 ASP A 38 ILE A 46 0 SHEET 2 AA1 6 GLU A 49 ASP A 57 -1 O ILE A 55 N TYR A 40 SHEET 3 AA1 6 GLU A 3 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 SHEET 1 AA2 4 LEU B 27 ILE B 41 0 SHEET 2 AA2 4 ASP B 46 ASP B 58 -1 O PHE B 47 N SER B 40 SHEET 3 AA2 4 LYS B 61 LYS B 73 -1 O LYS B 63 N ALA B 56 SHEET 4 AA2 4 PHE B 83 PRO B 91 -1 O GLU B 85 N TRP B 70 SHEET 1 AA3 6 ASP C 38 ILE C 46 0 SHEET 2 AA3 6 GLU C 49 ASP C 57 -1 O ILE C 55 N TYR C 40 SHEET 3 AA3 6 THR C 2 VAL C 9 1 N TYR C 4 O LEU C 52 SHEET 4 AA3 6 GLY C 77 ALA C 83 1 O VAL C 81 N VAL C 9 SHEET 5 AA3 6 MET C 111 ASN C 116 1 O ASN C 116 N PHE C 82 SHEET 6 AA3 6 PHE C 141 GLU C 143 1 O ILE C 142 N LEU C 113 SHEET 1 AA4 4 GLU D 28 ILE D 41 0 SHEET 2 AA4 4 ASP D 46 LYS D 57 -1 O PHE D 47 N SER D 40 SHEET 3 AA4 4 LYS D 62 LYS D 73 -1 O ALA D 67 N LEU D 52 SHEET 4 AA4 4 PHE D 83 PRO D 91 -1 O GLU D 85 N TRP D 70 LINK OG SER A 17 MG MG A 202 1555 1555 2.11 LINK O2B GDP A 201 MG MG A 202 1555 1555 2.05 LINK MG MG A 202 O HOH A 301 1555 1555 1.95 LINK MG MG A 202 O HOH A 304 1555 1555 2.21 LINK MG MG A 202 O HOH A 308 1555 1555 2.26 LINK MG MG A 202 O HOH A 314 1555 1555 1.98 LINK OG SER C 17 MG MG C 202 1555 1555 2.25 LINK O1B GDP C 201 MG MG C 202 1555 1555 2.12 LINK MG MG C 202 O HOH C 302 1555 1555 2.21 LINK MG MG C 202 O HOH C 303 1555 1555 2.20 LINK MG MG C 202 O HOH C 309 1555 1555 2.20 LINK MG MG C 202 O HOH C 322 1555 1555 2.02 SITE 1 AC1 20 GLY A 12 GLY A 13 VAL A 14 GLY A 15 SITE 2 AC1 20 LYS A 16 SER A 17 ALA A 18 PHE A 28 SITE 3 AC1 20 ASP A 30 TYR A 32 ASN A 116 LYS A 117 SITE 4 AC1 20 ASP A 119 SER A 145 ALA A 146 LYS A 147 SITE 5 AC1 20 MG A 202 HOH A 301 HOH A 304 HOH A 314 SITE 1 AC2 6 SER A 17 GDP A 201 HOH A 301 HOH A 304 SITE 2 AC2 6 HOH A 308 HOH A 314 SITE 1 AC3 20 GLY C 13 VAL C 14 GLY C 15 LYS C 16 SITE 2 AC3 20 SER C 17 ALA C 18 PHE C 28 VAL C 29 SITE 3 AC3 20 ASP C 30 ASN C 116 LYS C 117 ASP C 119 SITE 4 AC3 20 SER C 145 ALA C 146 LYS C 147 MG C 202 SITE 5 AC3 20 HOH C 303 HOH C 309 HOH C 310 HOH C 318 SITE 1 AC4 6 SER C 17 GDP C 201 HOH C 302 HOH C 303 SITE 2 AC4 6 HOH C 309 HOH C 322 CRYST1 73.126 39.490 113.212 90.00 106.91 90.00 P 1 21 1 4 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 0.013675 0.000000 0.004158 0.00000 SCALE2 0.000000 0.025323 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009232 0.00000