HEADER ONCOPROTEIN 02-JUN-24 9C3Z TITLE CRYSTAL STRUCTURE OF GDP-BOUND KRAS G12D/G60R: SUPPRESSING G12D TITLE 2 ONCOGENICITY VIA SECOND-SITE G60R MUTATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOFORM 2B OF GTPASE KRAS; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: K-RAS 2,KI-RAS,C-K-RAS,C-KI-RAS; COMPND 5 EC: 3.6.5.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: KRAS, KRAS2, RASK2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS KRAS, RAS, NUCLEOTIDE-BINDING PROTEIN, SIGNALING PROTEIN, G12D, G60R, KEYWDS 2 ONCOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.H.TRAN,S.DHARMAIAH,D.K.SIMANSHU REVDAT 1 08-OCT-25 9C3Z 0 JRNL AUTH J.J.KWON,J.DILLY,S.LIU,E.KIM,Y.BIAN,S.DHARMAIAH,T.H.TRAN, JRNL AUTH 2 K.S.KAPNER,S.H.LY,X.YANG,D.RABARA,T.J.WAYBRIGHT, JRNL AUTH 3 A.O.GIACOMELLI,A.L.HONG,S.MISEK,B.WANG,A.RAVI,J.G.DOENCH, JRNL AUTH 4 R.BEROUKHIM,C.T.LEMKE,K.M.HAIGIS,D.ESPOSITO,D.E.ROOT, JRNL AUTH 5 D.V.NISSLEY,A.G.STEPHEN,F.MCCORMICK,D.K.SIMANSHU,W.C.HAHN, JRNL AUTH 6 A.J.AGUIRRE JRNL TITL COMPREHENSIVE STRUCTURE-FUNCTION ANALYSIS REVEALS GAIN- AND JRNL TITL 2 LOSS-OF-FUNCTION MECHANISMS IMPACTING ONCOGENIC KRAS JRNL TITL 3 ACTIVITY. JRNL REF BIORXIV 2024 JRNL REFN ISSN 2692-8205 JRNL PMID 39484452 JRNL DOI 10.1101/2024.10.22.618529 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 28784 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) : 0.126 REMARK 3 R VALUE (WORKING SET) : 0.123 REMARK 3 FREE R VALUE : 0.174 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.500 REMARK 3 FREE R VALUE TEST SET COUNT : 2004 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2118 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.1900 REMARK 3 BIN FREE R VALUE SET COUNT : 158 REMARK 3 BIN FREE R VALUE : 0.2510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2508 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 45 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.31000 REMARK 3 B22 (A**2) : -2.31000 REMARK 3 B33 (A**2) : 4.62000 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): 0.018 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.020 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.507 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.980 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2606 ; 0.007 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3533 ; 1.626 ; 1.678 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 314 ; 6.757 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;35.798 ;22.587 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 450 ;16.519 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;20.311 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 351 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1938 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1268 ; 1.461 ; 2.750 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1578 ; 1.897 ; 4.124 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1338 ; 1.820 ; 2.904 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): 3908 ; 3.239 ;37.975 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A B 4638 0.11 0.05 REMARK 3 REMARK 3 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 4 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.278 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : -H,-K,L REMARK 3 TWIN FRACTION : 0.266 REMARK 3 TWIN DOMAIN : 3 REMARK 3 TWIN OPERATOR : K, H, -L REMARK 3 TWIN FRACTION : 0.207 REMARK 3 TWIN DOMAIN : 4 REMARK 3 TWIN OPERATOR : -K, -H, -L REMARK 3 TWIN FRACTION : 0.249 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 : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 168 REMARK 3 RESIDUE RANGE : A 201 A 202 REMARK 3 ORIGIN FOR THE GROUP (A): -11.308 30.252 -9.729 REMARK 3 T TENSOR REMARK 3 T11: 0.0134 T22: 0.0041 REMARK 3 T33: 0.0540 T12: 0.0005 REMARK 3 T13: -0.0020 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 0.7416 L22: 0.7567 REMARK 3 L33: 0.6205 L12: 0.0072 REMARK 3 L13: -0.0908 L23: -0.0734 REMARK 3 S TENSOR REMARK 3 S11: 0.0421 S12: 0.0178 S13: -0.0040 REMARK 3 S21: -0.0078 S22: -0.0314 S23: 0.0346 REMARK 3 S31: 0.0460 S32: -0.0303 S33: -0.0106 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 166 REMARK 3 RESIDUE RANGE : B 201 B 202 REMARK 3 ORIGIN FOR THE GROUP (A): 12.666 17.163 12.048 REMARK 3 T TENSOR REMARK 3 T11: 0.0059 T22: 0.0065 REMARK 3 T33: 0.0582 T12: -0.0036 REMARK 3 T13: -0.0026 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.7708 L22: 0.7764 REMARK 3 L33: 0.7596 L12: 0.1064 REMARK 3 L13: -0.0347 L23: -0.0156 REMARK 3 S TENSOR REMARK 3 S11: 0.0102 S12: 0.0290 S13: 0.0034 REMARK 3 S21: -0.0363 S22: -0.0060 S23: -0.0188 REMARK 3 S31: -0.0522 S32: 0.0618 S33: -0.0041 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: NULL REMARK 4 REMARK 4 9C3Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUN-24. REMARK 100 THE DEPOSITION ID IS D_1000254359. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUL-20 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 : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : .9791 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30789 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.10100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.8700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.81700 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: PHENIX REMARK 200 STARTING MODEL: 5US4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M LITHIUM ACETATE, 2.2 M AMMONIUM REMARK 280 SULFATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 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 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 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: MONOMERIC 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 0 REMARK 465 GLN A 61 REMARK 465 GLU A 62 REMARK 465 GLU A 63 REMARK 465 LYS A 169 REMARK 465 GLY B 0 REMARK 465 ALA B 59 REMARK 465 ARG B 60 REMARK 465 GLN B 61 REMARK 465 GLU B 62 REMARK 465 GLU B 63 REMARK 465 TYR B 64 REMARK 465 SER B 65 REMARK 465 ALA B 66 REMARK 465 MET B 67 REMARK 465 ARG B 68 REMARK 465 ASP B 69 REMARK 465 GLN B 70 REMARK 465 TYR B 71 REMARK 465 LYS B 167 REMARK 465 GLU B 168 REMARK 465 LYS B 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 THR A 2 OG1 CG2 REMARK 470 ILE A 24 CG1 CG2 CD1 REMARK 470 ARG A 60 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 103 CG1 CG2 REMARK 470 LYS A 128 CG CD CE NZ REMARK 470 LYS A 167 CG CD CE NZ REMARK 470 GLU A 168 CG CD OE1 OE2 REMARK 470 GLU B 31 CG CD OE1 OE2 REMARK 470 ARG B 73 CG CD NE CZ NH1 NH2 REMARK 470 THR B 74 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 LYS A 117 33.36 72.05 REMARK 500 SER A 122 49.38 -74.50 REMARK 500 ASP B 108 76.35 -118.79 REMARK 500 SER B 122 49.15 -83.51 REMARK 500 ARG B 149 -2.04 80.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 318 DISTANCE = 6.33 ANGSTROMS 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 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 17 OG REMARK 620 2 GDP A 202 O3B 95.1 REMARK 620 3 HOH A 301 O 93.6 92.8 REMARK 620 4 HOH A 305 O 98.0 90.0 167.8 REMARK 620 5 HOH A 306 O 92.6 170.9 91.5 84.2 REMARK 620 6 HOH A 307 O 170.9 86.5 77.4 90.9 86.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 17 OG REMARK 620 2 GDP B 202 O3B 91.0 REMARK 620 3 HOH B 302 O 94.3 102.3 REMARK 620 4 HOH B 303 O 79.1 81.8 172.4 REMARK 620 5 HOH B 305 O 82.5 166.3 90.3 85.1 REMARK 620 6 HOH B 307 O 165.9 93.5 97.8 88.3 90.1 REMARK 620 N 1 2 3 4 5 DBREF 9C3Z A 1 169 UNP P01116 RASK_HUMAN 1 169 DBREF 9C3Z B 1 169 UNP P01116 RASK_HUMAN 1 169 SEQADV 9C3Z GLY A 0 UNP P01116 EXPRESSION TAG SEQADV 9C3Z ASP A 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQADV 9C3Z ARG A 60 UNP P01116 GLY 60 ENGINEERED MUTATION SEQADV 9C3Z GLY B 0 UNP P01116 EXPRESSION TAG SEQADV 9C3Z ASP B 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQADV 9C3Z ARG B 60 UNP P01116 GLY 60 ENGINEERED MUTATION 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 ARG 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 B 170 GLY MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA ASP SEQRES 2 B 170 GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN SEQRES 3 B 170 ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SEQRES 4 B 170 SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS SEQRES 5 B 170 LEU LEU ASP ILE LEU ASP THR ALA ARG GLN GLU GLU TYR SEQRES 6 B 170 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 B 170 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 B 170 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 B 170 LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN SEQRES 10 B 170 LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN SEQRES 11 B 170 ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE SEQRES 12 B 170 GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP ASP ALA SEQRES 13 B 170 PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS LYS GLU SEQRES 14 B 170 LYS HET MG A 201 1 HET GDP A 202 28 HET MG B 201 1 HET GDP B 202 28 HETNAM MG MAGNESIUM ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 3 MG 2(MG 2+) FORMUL 4 GDP 2(C10 H15 N5 O11 P2) FORMUL 7 HOH *45(H2 O) HELIX 1 AA1 GLY A 15 ASN A 26 1 12 HELIX 2 AA2 SER A 65 GLY A 75 1 11 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 LYS A 167 1 17 HELIX 7 AA7 GLY B 15 ASN B 26 1 12 HELIX 8 AA8 ASN B 86 ASP B 92 1 7 HELIX 9 AA9 ASP B 92 ASP B 105 1 14 HELIX 10 AB1 ASP B 126 GLY B 138 1 13 HELIX 11 AB2 GLY B 151 HIS B 166 1 16 SHEET 1 AA1 6 ASP A 38 ILE A 46 0 SHEET 2 AA1 6 GLU A 49 ASP A 57 -1 O CYS A 51 N VAL A 44 SHEET 3 AA1 6 THR A 2 GLY A 10 1 N TYR A 4 O ASP A 54 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 6 ASP B 38 ILE B 46 0 SHEET 2 AA2 6 GLU B 49 ASP B 57 -1 O CYS B 51 N VAL B 44 SHEET 3 AA2 6 GLU B 3 GLY B 10 1 N TYR B 4 O ASP B 54 SHEET 4 AA2 6 GLY B 77 ALA B 83 1 O LEU B 79 N VAL B 9 SHEET 5 AA2 6 MET B 111 ASN B 116 1 O ASN B 116 N PHE B 82 SHEET 6 AA2 6 PHE B 141 GLU B 143 1 O ILE B 142 N LEU B 113 LINK OG SER A 17 MG MG A 201 1555 1555 2.20 LINK MG MG A 201 O3B GDP A 202 1555 1555 2.11 LINK MG MG A 201 O HOH A 301 1555 1555 2.18 LINK MG MG A 201 O HOH A 305 1555 1555 1.97 LINK MG MG A 201 O HOH A 306 1555 1555 1.99 LINK MG MG A 201 O HOH A 307 1555 1555 2.20 LINK OG SER B 17 MG MG B 201 1555 1555 2.23 LINK MG MG B 201 O3B GDP B 202 1555 1555 2.18 LINK MG MG B 201 O HOH B 302 1555 1555 2.11 LINK MG MG B 201 O HOH B 303 1555 1555 2.50 LINK MG MG B 201 O HOH B 305 1555 1555 2.11 LINK MG MG B 201 O HOH B 307 1555 1555 2.18 CRYST1 84.540 84.540 41.560 90.00 90.00 120.00 P 3 6 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 0.011829 0.006829 0.000000 0.00000 SCALE2 0.000000 0.013659 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024062 0.00000 CONECT 119 2511 CONECT 1422 2540 CONECT 2511 119 2515 2569 2573 CONECT 2511 2574 2575 CONECT 2512 2513 2514 2515 2516 CONECT 2513 2512 CONECT 2514 2512 CONECT 2515 2511 2512 CONECT 2516 2512 2517 CONECT 2517 2516 2518 2519 2520 CONECT 2518 2517 CONECT 2519 2517 CONECT 2520 2517 2521 CONECT 2521 2520 2522 CONECT 2522 2521 2523 2524 CONECT 2523 2522 2528 CONECT 2524 2522 2525 2526 CONECT 2525 2524 CONECT 2526 2524 2527 2528 CONECT 2527 2526 CONECT 2528 2523 2526 2529 CONECT 2529 2528 2530 2539 CONECT 2530 2529 2531 CONECT 2531 2530 2532 CONECT 2532 2531 2533 2539 CONECT 2533 2532 2534 2535 CONECT 2534 2533 CONECT 2535 2533 2536 CONECT 2536 2535 2537 2538 CONECT 2537 2536 CONECT 2538 2536 2539 CONECT 2539 2529 2532 2538 CONECT 2540 1422 2544 2588 2589 CONECT 2540 2591 2593 CONECT 2541 2542 2543 2544 2545 CONECT 2542 2541 CONECT 2543 2541 CONECT 2544 2540 2541 CONECT 2545 2541 2546 CONECT 2546 2545 2547 2548 2549 CONECT 2547 2546 CONECT 2548 2546 CONECT 2549 2546 2550 CONECT 2550 2549 2551 CONECT 2551 2550 2552 2553 CONECT 2552 2551 2557 CONECT 2553 2551 2554 2555 CONECT 2554 2553 CONECT 2555 2553 2556 2557 CONECT 2556 2555 CONECT 2557 2552 2555 2558 CONECT 2558 2557 2559 2568 CONECT 2559 2558 2560 CONECT 2560 2559 2561 CONECT 2561 2560 2562 2568 CONECT 2562 2561 2563 2564 CONECT 2563 2562 CONECT 2564 2562 2565 CONECT 2565 2564 2566 2567 CONECT 2566 2565 CONECT 2567 2565 2568 CONECT 2568 2558 2561 2567 CONECT 2569 2511 CONECT 2573 2511 CONECT 2574 2511 CONECT 2575 2511 CONECT 2588 2540 CONECT 2589 2540 CONECT 2591 2540 CONECT 2593 2540 MASTER 398 0 4 11 12 0 0 6 2611 2 70 28 END