HEADER ONCOPROTEIN, HYDROLASE 30-APR-20 6WS4 TITLE CRYSTAL STRUCTURE OF KRAS-G12D/K104Q MUTANT, GDP-BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE KRAS; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: K-RAS 2,KI-RAS,C-K-RAS,C-KI-RAS; COMPND 5 ENGINEERED: YES; COMPND 6 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, MG, K-RAS, SMALL GTPASE, GUANINE NUCLEOTIDE, ONCOPROTEIN, KEYWDS 2 GMPPNP, GPPNHP, K104, G12D, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR T.H.TRAN,D.K.SIMANSHU REVDAT 3 18-OCT-23 6WS4 1 REMARK REVDAT 2 23-AUG-23 6WS4 1 JRNL REVDAT 1 10-NOV-21 6WS4 0 JRNL AUTH M.H.YANG,T.H.TRAN,B.HUNT,R.AGNOR,C.W.JOHNSON,B.SHUI, JRNL AUTH 2 T.J.WAYBRIGHT,J.A.NOWAK,A.G.STEPHEN,D.K.SIMANSHU,K.M.HAIGIS JRNL TITL ALLOSTERIC REGULATION OF SWITCH-II DOMAIN CONTROLS KRAS JRNL TITL 2 ONCOGENICITY. JRNL REF CANCER RES. 2023 JRNL REFN ESSN 1538-7445 JRNL PMID 37556505 JRNL DOI 10.1158/0008-5472.CAN-22-3210 REMARK 2 REMARK 2 RESOLUTION. 1.84 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 1.84 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 59030 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) : 0.135 REMARK 3 R VALUE (WORKING SET) : 0.133 REMARK 3 FREE R VALUE : 0.158 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2995 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.84 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.94 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8165 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.59 REMARK 3 BIN R VALUE (WORKING SET) : 0.1810 REMARK 3 BIN FREE R VALUE SET COUNT : 406 REMARK 3 BIN FREE R VALUE : 0.2270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5340 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 132 REMARK 3 SOLVENT ATOMS : 236 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.23 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -7.66000 REMARK 3 B22 (A**2) : -7.66000 REMARK 3 B33 (A**2) : 15.31000 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): 0.021 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.020 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.059 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.800 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5639 ; 0.009 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 5077 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7657 ; 1.561 ; 1.682 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11790 ; 1.283 ; 1.596 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 692 ; 5.939 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 313 ;34.349 ;22.812 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 976 ;12.572 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;17.247 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 750 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6328 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1170 ; 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 6 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 0 168 B 0 168 5486 0.040 0.050 REMARK 3 2 A 0 168 C 0 168 5207 0.110 0.050 REMARK 3 3 A 0 168 D 0 168 5256 0.100 0.050 REMARK 3 4 B 0 168 C 0 168 5229 0.110 0.050 REMARK 3 5 B 0 168 D 0 168 5287 0.110 0.050 REMARK 3 6 C 0 168 D 0 168 5327 0.080 0.050 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 : 0.552 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : K, H, -L REMARK 3 TWIN FRACTION : 0.056 REMARK 3 TWIN DOMAIN : 3 REMARK 3 TWIN OPERATOR : -H,-K,L REMARK 3 TWIN FRACTION : 0.144 REMARK 3 TWIN DOMAIN : 4 REMARK 3 TWIN OPERATOR : -K, -H, -L REMARK 3 TWIN FRACTION : 0.248 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6WS4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1000248921. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-AUG-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 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) : 0.979180 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62031 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.840 REMARK 200 RESOLUTION RANGE LOW (A) : 44.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.890 REMARK 200 R MERGE (I) : 0.11900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.0900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.84 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.04 REMARK 200 R MERGE FOR SHELL (I) : 0.55500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.690 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: 5US4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.0 % XYLITOL, 0.2 M AMMONIUM ACETATE REMARK 280 AND 2.2 M AMMONIUM SULFATE, PH 7.3, VAPOR DIFFUSION, SITTING REMARK 280 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, 3, 4 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 361 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 369 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 LYS A 169 REMARK 465 LYS B 169 REMARK 465 LYS C 169 REMARK 465 LYS D 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 GLU A 62 CG CD OE1 OE2 REMARK 470 GLU A 63 CG CD OE1 OE2 REMARK 470 LYS A 128 CD CE NZ REMARK 470 GLU A 168 CG CD OE1 OE2 REMARK 470 GLU B 62 CG CD OE1 OE2 REMARK 470 GLU B 63 CG CD OE1 OE2 REMARK 470 GLU B 107 CG CD OE1 OE2 REMARK 470 LYS B 128 CD CE NZ REMARK 470 GLU B 168 CG CD OE1 OE2 REMARK 470 ARG C 41 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 168 CG CD OE1 OE2 REMARK 470 ARG D 41 NE CZ NH1 NH2 REMARK 470 GLU D 107 CG CD OE1 OE2 REMARK 470 GLU D 168 CG CD OE1 OE2 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 36.67 71.88 REMARK 500 LYS A 117 36.58 71.88 REMARK 500 ASP B 33 117.96 -39.61 REMARK 500 LYS B 117 37.35 70.68 REMARK 500 LYS B 117 37.15 70.68 REMARK 500 GLN C 61 31.26 -89.37 REMARK 500 LYS C 117 34.79 71.30 REMARK 500 LYS C 117 35.42 71.30 REMARK 500 ARG C 149 -2.20 82.09 REMARK 500 LYS D 117 35.24 73.20 REMARK 500 LYS D 117 36.58 73.20 REMARK 500 ARG D 149 -3.60 82.34 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 91.5 REMARK 620 3 HOH A 313 O 87.5 96.8 REMARK 620 4 HOH A 318 O 87.7 172.6 90.6 REMARK 620 5 HOH A 328 O 91.5 85.3 177.6 87.3 REMARK 620 6 HOH A 331 O 173.4 91.3 86.2 90.3 94.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 17 OG REMARK 620 2 GDP B 201 O2B 86.9 REMARK 620 3 HOH B 307 O 88.1 83.0 REMARK 620 4 HOH B 315 O 87.4 91.4 173.0 REMARK 620 5 HOH B 331 O 175.3 90.9 95.7 88.5 REMARK 620 6 HOH B 336 O 96.5 170.8 88.5 97.2 86.2 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 O2B 94.6 REMARK 620 3 HOH C 305 O 95.8 82.4 REMARK 620 4 HOH C 310 O 82.3 97.1 178.0 REMARK 620 5 HOH C 317 O 92.4 170.2 90.1 90.6 REMARK 620 6 HOH C 320 O 165.7 92.7 97.4 84.6 81.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER D 17 OG REMARK 620 2 GDP D 201 O2B 89.8 REMARK 620 3 HOH D 304 O 87.3 94.6 REMARK 620 4 HOH D 317 O 91.0 171.5 93.9 REMARK 620 5 HOH D 325 O 89.2 86.7 176.3 84.9 REMARK 620 6 HOH D 335 O 178.9 90.6 91.7 88.8 91.8 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 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TCE B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG D 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6WS2 RELATED DB: PDB REMARK 900 K104Q MUTANT DBREF 6WS4 A 1 169 UNP P01116 RASK_HUMAN 1 169 DBREF 6WS4 B 1 169 UNP P01116 RASK_HUMAN 1 169 DBREF 6WS4 C 1 169 UNP P01116 RASK_HUMAN 1 169 DBREF 6WS4 D 1 169 UNP P01116 RASK_HUMAN 1 169 SEQADV 6WS4 GLY A 0 UNP P01116 EXPRESSION TAG SEQADV 6WS4 ASP A 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQADV 6WS4 GLN A 104 UNP P01116 LYS 104 ENGINEERED MUTATION SEQADV 6WS4 GLY B 0 UNP P01116 EXPRESSION TAG SEQADV 6WS4 ASP B 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQADV 6WS4 GLN B 104 UNP P01116 LYS 104 ENGINEERED MUTATION SEQADV 6WS4 GLY C 0 UNP P01116 EXPRESSION TAG SEQADV 6WS4 ASP C 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQADV 6WS4 GLN C 104 UNP P01116 LYS 104 ENGINEERED MUTATION SEQADV 6WS4 GLY D 0 UNP P01116 EXPRESSION TAG SEQADV 6WS4 ASP D 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQADV 6WS4 GLN D 104 UNP P01116 LYS 104 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 GLY GLN GLU GLU TYR SEQRES 6 A 170 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 A 170 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 A 170 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 A 170 GLN 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 GLY 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 GLN 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 SEQRES 1 C 170 GLY MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA ASP SEQRES 2 C 170 GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN SEQRES 3 C 170 ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SEQRES 4 C 170 SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS SEQRES 5 C 170 LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SEQRES 6 C 170 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 C 170 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 C 170 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 C 170 GLN ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN SEQRES 10 C 170 LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN SEQRES 11 C 170 ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE SEQRES 12 C 170 GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP ASP ALA SEQRES 13 C 170 PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS LYS GLU SEQRES 14 C 170 LYS SEQRES 1 D 170 GLY MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA ASP SEQRES 2 D 170 GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN SEQRES 3 D 170 ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SEQRES 4 D 170 SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS SEQRES 5 D 170 LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SEQRES 6 D 170 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 D 170 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 D 170 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 D 170 GLN ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN SEQRES 10 D 170 LYS CYS ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN SEQRES 11 D 170 ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE SEQRES 12 D 170 GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP ASP ALA SEQRES 13 D 170 PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS LYS GLU SEQRES 14 D 170 LYS HET GDP A 201 28 HET MG A 202 1 HET GDP B 201 28 HET MG B 202 1 HET TCE B 203 16 HET GDP C 201 28 HET MG C 202 1 HET GDP D 201 28 HET MG D 202 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM TCE 3,3',3''-PHOSPHANETRIYLTRIPROPANOIC ACID HETSYN TCE 3-[BIS(2-CARBOXYETHYL)PHOSPHANYL]PROPANOIC ACID FORMUL 5 GDP 4(C10 H15 N5 O11 P2) FORMUL 6 MG 4(MG 2+) FORMUL 9 TCE C9 H15 O6 P FORMUL 14 HOH *236(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 GLU A 168 1 18 HELIX 7 AA7 GLY B 15 ASN B 26 1 12 HELIX 8 AA8 SER B 65 GLY B 75 1 11 HELIX 9 AA9 ASN B 86 ASP B 92 1 7 HELIX 10 AB1 ASP B 92 ASP B 105 1 14 HELIX 11 AB2 ASP B 126 GLY B 138 1 13 HELIX 12 AB3 GLY B 151 GLU B 168 1 18 HELIX 13 AB4 GLY C 15 ASN C 26 1 12 HELIX 14 AB5 SER C 65 GLY C 75 1 11 HELIX 15 AB6 ASN C 86 ASP C 92 1 7 HELIX 16 AB7 ASP C 92 ASP C 105 1 14 HELIX 17 AB8 ASP C 126 GLY C 138 1 13 HELIX 18 AB9 GLY C 151 GLU C 168 1 18 HELIX 19 AC1 GLY D 15 ASN D 26 1 12 HELIX 20 AC2 SER D 65 GLY D 75 1 11 HELIX 21 AC3 ASN D 86 ASP D 92 1 7 HELIX 22 AC4 ASP D 92 ASP D 105 1 14 HELIX 23 AC5 ASP D 126 GLY D 138 1 13 HELIX 24 AC6 GLY D 151 GLU D 168 1 18 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 LEU A 6 O ASP A 54 SHEET 4 AA1 6 GLY A 77 ALA A 83 1 O VAL A 81 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 ILE B 55 N TYR B 40 SHEET 3 AA2 6 GLU B 3 VAL B 9 1 N TYR B 4 O ASP B 54 SHEET 4 AA2 6 GLY B 77 ALA B 83 1 O VAL B 81 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 SHEET 1 AA3 6 ASP C 38 ILE C 46 0 SHEET 2 AA3 6 GLU C 49 ASP C 57 -1 O LEU C 53 N LYS C 42 SHEET 3 AA3 6 GLU C 3 VAL C 9 1 N LEU C 6 O ASP C 54 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 6 ASP D 38 ILE D 46 0 SHEET 2 AA4 6 GLU D 49 ASP D 57 -1 O LEU D 53 N LYS D 42 SHEET 3 AA4 6 GLU D 3 VAL D 9 1 N LEU D 6 O ASP D 54 SHEET 4 AA4 6 GLY D 77 ALA D 83 1 O VAL D 81 N VAL D 9 SHEET 5 AA4 6 MET D 111 ASN D 116 1 O ASN D 116 N PHE D 82 SHEET 6 AA4 6 PHE D 141 GLU D 143 1 O ILE D 142 N LEU D 113 LINK OG SER A 17 MG MG A 202 1555 1555 2.09 LINK O2B GDP A 201 MG MG A 202 1555 1555 2.06 LINK MG MG A 202 O HOH A 313 1555 1555 2.08 LINK MG MG A 202 O HOH A 318 1555 1555 2.12 LINK MG MG A 202 O HOH A 328 1555 1555 2.13 LINK MG MG A 202 O HOH A 331 1555 1555 2.13 LINK OG SER B 17 MG MG B 202 1555 1555 2.11 LINK O2B GDP B 201 MG MG B 202 1555 1555 2.15 LINK MG MG B 202 O HOH B 307 1555 1555 2.21 LINK MG MG B 202 O HOH B 315 1555 1555 2.03 LINK MG MG B 202 O HOH B 331 1555 1555 2.14 LINK MG MG B 202 O HOH B 336 1555 1555 2.04 LINK OG SER C 17 MG MG C 202 1555 1555 2.14 LINK O2B GDP C 201 MG MG C 202 1555 1555 2.10 LINK MG MG C 202 O HOH C 305 1555 1555 1.82 LINK MG MG C 202 O HOH C 310 1555 1555 1.79 LINK MG MG C 202 O HOH C 317 1555 1555 2.18 LINK MG MG C 202 O HOH C 320 1555 1555 2.17 LINK OG SER D 17 MG MG D 202 1555 1555 2.13 LINK O2B GDP D 201 MG MG D 202 1555 1555 2.12 LINK MG MG D 202 O HOH D 304 1555 1555 2.13 LINK MG MG D 202 O HOH D 317 1555 1555 2.15 LINK MG MG D 202 O HOH D 325 1555 1555 2.11 LINK MG MG D 202 O HOH D 335 1555 1555 2.12 SITE 1 AC1 23 GLY A 13 VAL A 14 GLY A 15 LYS A 16 SITE 2 AC1 23 SER A 17 ALA A 18 PHE A 28 VAL A 29 SITE 3 AC1 23 ASP A 30 ASN A 116 LYS A 117 ASP A 119 SITE 4 AC1 23 LEU A 120 SER A 145 ALA A 146 LYS A 147 SITE 5 AC1 23 MG A 202 HOH A 312 HOH A 313 HOH A 314 SITE 6 AC1 23 HOH A 328 HOH A 331 HOH A 345 SITE 1 AC2 6 SER A 17 GDP A 201 HOH A 313 HOH A 318 SITE 2 AC2 6 HOH A 328 HOH A 331 SITE 1 AC3 21 GLY B 13 VAL B 14 GLY B 15 LYS B 16 SITE 2 AC3 21 SER B 17 ALA B 18 PHE B 28 VAL B 29 SITE 3 AC3 21 ASP B 30 ASN B 116 LYS B 117 ASP B 119 SITE 4 AC3 21 LEU B 120 SER B 145 ALA B 146 LYS B 147 SITE 5 AC3 21 MG B 202 HOH B 307 HOH B 315 HOH B 322 SITE 6 AC3 21 HOH B 331 SITE 1 AC4 6 SER B 17 GDP B 201 HOH B 307 HOH B 315 SITE 2 AC4 6 HOH B 331 HOH B 336 SITE 1 AC5 6 GLN B 99 ARG B 102 HOH B 320 VAL C 45 SITE 2 AC5 6 ASP C 47 GLY C 48 SITE 1 AC6 24 GLY C 13 VAL C 14 GLY C 15 LYS C 16 SITE 2 AC6 24 SER C 17 ALA C 18 PHE C 28 VAL C 29 SITE 3 AC6 24 ASP C 30 TYR C 32 ASN C 116 LYS C 117 SITE 4 AC6 24 ASP C 119 LEU C 120 SER C 145 ALA C 146 SITE 5 AC6 24 LYS C 147 MG C 202 HOH C 305 HOH C 309 SITE 6 AC6 24 HOH C 310 HOH C 314 HOH C 320 HOH C 333 SITE 1 AC7 6 SER C 17 GDP C 201 HOH C 305 HOH C 310 SITE 2 AC7 6 HOH C 317 HOH C 320 SITE 1 AC8 21 GLY D 13 VAL D 14 GLY D 15 LYS D 16 SITE 2 AC8 21 SER D 17 ALA D 18 PHE D 28 ASP D 30 SITE 3 AC8 21 ASN D 116 LYS D 117 ASP D 119 LEU D 120 SITE 4 AC8 21 SER D 145 ALA D 146 LYS D 147 MG D 202 SITE 5 AC8 21 HOH D 305 HOH D 322 HOH D 325 HOH D 335 SITE 6 AC8 21 HOH D 347 SITE 1 AC9 6 SER D 17 GDP D 201 HOH D 304 HOH D 317 SITE 2 AC9 6 HOH D 325 HOH D 335 CRYST1 84.930 84.930 89.300 90.00 90.00 120.00 P 3 12 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 0.011774 0.006798 0.000000 0.00000 SCALE2 0.000000 0.013596 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011198 0.00000