HEADER SIGNALING PROTEIN 15-SEP-17 6B0V
TITLE CRYSTAL STRUCTURE OF SMALL MOLECULE ARS-107 COVALENTLY BOUND TO K-RAS
TITLE 2 G12C
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: GTPASE KRAS;
COMPND 3 CHAIN: A, B;
COMPND 4 FRAGMENT: UNP RESIDUES 1-169;
COMPND 5 SYNONYM: K-RAS 2,KI-RAS,C-K-RAS,C-KI-RAS;
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: 469008;
SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);
SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PJEXPRESS411
KEYWDS SMALL GTPASE DOMAIN, COVALENT INHIBITOR BOUND, SWITCH II POCKET, GDP
KEYWDS 2 BOUND, SIGNALING PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR R.HANSEN,U.PETERS,A.BABBAR,Y.CHEN,J.FENG,M.R.JANES,L.-S.LI,P.REN,
AUTHOR 2 Y.LIU,P.P.ZARRINKAR
REVDAT 5 13-NOV-24 6B0V 1 REMARK
REVDAT 4 04-OCT-23 6B0V 1 LINK
REVDAT 3 07-NOV-18 6B0V 1 JRNL
REVDAT 2 30-MAY-18 6B0V 1 SOURCE JRNL
REVDAT 1 16-MAY-18 6B0V 0
JRNL AUTH R.HANSEN,U.PETERS,A.BABBAR,Y.CHEN,J.FENG,M.R.JANES,L.S.LI,
JRNL AUTH 2 P.REN,Y.LIU,P.P.ZARRINKAR
JRNL TITL THE REACTIVITY-DRIVEN BIOCHEMICAL MECHANISM OF COVALENT
JRNL TITL 2 KRASG12CINHIBITORS.
JRNL REF NAT. STRUCT. MOL. BIOL. V. 25 454 2018
JRNL REFN ESSN 1545-9985
JRNL PMID 29760531
JRNL DOI 10.1038/S41594-018-0061-5
REMARK 2
REMARK 2 RESOLUTION. 1.29 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.8.0073
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) : 1.29
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.17
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 90.4
REMARK 3 NUMBER OF REFLECTIONS : 65427
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) : 0.184
REMARK 3 R VALUE (WORKING SET) : 0.182
REMARK 3 FREE R VALUE : 0.218
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900
REMARK 3 FREE R VALUE TEST SET COUNT : 3371
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) : 1.29
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.32
REMARK 3 REFLECTION IN BIN (WORKING SET) : 4699
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.55
REMARK 3 BIN R VALUE (WORKING SET) : 0.2720
REMARK 3 BIN FREE R VALUE SET COUNT : 237
REMARK 3 BIN FREE R VALUE : 0.2700
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 2642
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 114
REMARK 3 SOLVENT ATOMS : 402
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.00
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : 0.06000
REMARK 3 B22 (A**2) : 0.92000
REMARK 3 B33 (A**2) : -0.66000
REMARK 3 B12 (A**2) : -0.38000
REMARK 3 B13 (A**2) : 0.38000
REMARK 3 B23 (A**2) : 1.08000
REMARK 3
REMARK 3 ESTIMATED OVERALL COORDINATE ERROR.
REMARK 3 ESU BASED ON R VALUE (A): 0.062
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.066
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.048
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.292
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2886 ; 0.023 ; 0.019
REMARK 3 BOND LENGTHS OTHERS (A): 2709 ; 0.001 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3932 ; 2.478 ; 2.004
REMARK 3 BOND ANGLES OTHERS (DEGREES): 6242 ; 2.199 ; 3.001
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 355 ; 5.840 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 136 ;34.079 ;24.485
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 501 ;13.735 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;13.681 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 439 ; 0.135 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3264 ; 0.015 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): 653 ; 0.002 ; 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 : 2
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 1 A 167
REMARK 3 RESIDUE RANGE : A 201 A 204
REMARK 3 ORIGIN FOR THE GROUP (A): -18.236 9.863 6.664
REMARK 3 T TENSOR
REMARK 3 T11: 0.0080 T22: 0.0070
REMARK 3 T33: 0.0108 T12: -0.0055
REMARK 3 T13: 0.0031 T23: -0.0003
REMARK 3 L TENSOR
REMARK 3 L11: 0.7404 L22: 0.0953
REMARK 3 L33: 0.8196 L12: -0.0350
REMARK 3 L13: -0.0653 L23: -0.2315
REMARK 3 S TENSOR
REMARK 3 S11: -0.0386 S12: 0.0260 S13: 0.0054
REMARK 3 S21: 0.0033 S22: -0.0073 S23: -0.0251
REMARK 3 S31: 0.0062 S32: -0.0033 S33: 0.0459
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 167
REMARK 3 RESIDUE RANGE : B 201 B 204
REMARK 3 ORIGIN FOR THE GROUP (A): -2.055 -2.517 34.946
REMARK 3 T TENSOR
REMARK 3 T11: 0.0056 T22: 0.0188
REMARK 3 T33: 0.0077 T12: -0.0023
REMARK 3 T13: -0.0009 T23: 0.0055
REMARK 3 L TENSOR
REMARK 3 L11: 0.1792 L22: 0.3481
REMARK 3 L33: 0.6153 L12: -0.0610
REMARK 3 L13: 0.1375 L23: -0.2187
REMARK 3 S TENSOR
REMARK 3 S11: -0.0020 S12: -0.0182 S13: 0.0236
REMARK 3 S21: -0.0192 S22: -0.0082 S23: -0.0061
REMARK 3 S31: 0.0358 S32: -0.0181 S33: 0.0102
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 6B0V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-SEP-17.
REMARK 100 THE DEPOSITION ID IS D_1000229850.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 14-AUG-13
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 8.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : ALS
REMARK 200 BEAMLINE : 8.2.2
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.999995
REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL SI(111)
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM
REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68823
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.290
REMARK 200 RESOLUTION RANGE LOW (A) : 32.171
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 90.4
REMARK 200 DATA REDUNDANCY : 2.800
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : 0.08500
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.1000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.29
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.36
REMARK 200 COMPLETENESS FOR SHELL (%) : 87.5
REMARK 200 DATA REDUNDANCY IN SHELL : 3.00
REMARK 200 R MERGE FOR SHELL (I) : 0.34100
REMARK 200 R SYM FOR SHELL (I) : 0.34100
REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: PHASER 2.5.6
REMARK 200 STARTING MODEL: 5F2E
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 39.00
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 29% PEG 4000, 0.2 M CACL2, 0.1 M TRIS
REMARK 280 PH=8.5, PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,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
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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A
REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000
REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000
REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000
REMARK 350
REMARK 350 BIOMOLECULE: 2
REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 GLU A 168
REMARK 465 LYS A 169
REMARK 465 GLY B 0
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 ASP A 30 CG OD1 OD2
REMARK 470 SER A 122 OG
REMARK 470 ASP A 126 CG OD1 OD2
REMARK 470 MET B 1 CG SD CE
REMARK 470 GLU B 31 CG CD OE1 OE2
REMARK 470 ARG B 41 CG CD NE CZ NH1 NH2
REMARK 470 MET B 67 CG SD CE
REMARK 470 ASP B 126 CG OD1 OD2
REMARK 470 LYS B 167 CG CD CE NZ
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT
REMARK 500
REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT.
REMARK 500
REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE
REMARK 500 OE1 GLN B 43 O HOH B 301 2.01
REMARK 500 OE1 GLU A 3 O LEU A 52 2.14
REMARK 500 OE2 GLU A 62 O HOH A 302 2.17
REMARK 500 OG SER B 106 O HOH B 302 2.18
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS
REMARK 500
REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES
REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE
REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN
REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 STANDARD TABLE:
REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3)
REMARK 500
REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999
REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996
REMARK 500
REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION
REMARK 500 GLU B 143 CD GLU B 143 OE1 0.066
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: COVALENT BOND ANGLES
REMARK 500
REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES
REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE
REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN
REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 STANDARD TABLE:
REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1)
REMARK 500
REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999
REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996
REMARK 500
REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3
REMARK 500 ASP A 33 CB - CG - OD1 ANGL. DEV. = 7.9 DEGREES
REMARK 500 ASP A 33 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES
REMARK 500 ARG A 68 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES
REMARK 500 ARG A 97 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES
REMARK 500 ARG A 97 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES
REMARK 500 ARG A 135 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES
REMARK 500 ARG A 161 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES
REMARK 500 ASP B 33 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES
REMARK 500 ARG B 97 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES
REMARK 500 ARG B 97 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES
REMARK 500 ARG B 135 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES
REMARK 500 TYR B 137 CB - CG - CD1 ANGL. DEV. = 3.6 DEGREES
REMARK 500 PHE B 141 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES
REMARK 500 ARG B 161 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: TORSION ANGLES
REMARK 500
REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS:
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 STANDARD TABLE:
REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2)
REMARK 500
REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI-
REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400
REMARK 500
REMARK 500 M RES CSSEQI PSI PHI
REMARK 500 LYS B 117 36.06 72.63
REMARK 500 LYS B 117 35.30 72.63
REMARK 500 PRO B 121 43.46 -91.95
REMARK 500 SER B 122 59.40 -147.77
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 487 DISTANCE = 6.15 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 CA A 201 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 SER A 17 OG
REMARK 620 2 GDP A 204 O1B 83.8
REMARK 620 3 HOH A 313 O 77.9 88.3
REMARK 620 4 HOH A 324 O 161.5 83.3 114.8
REMARK 620 5 HOH A 349 O 85.7 82.0 161.8 79.4
REMARK 620 6 HOH A 354 O 84.3 162.2 102.0 104.8 84.0
REMARK 620 7 HOH A 375 O 133.4 124.5 68.1 65.0 129.9 73.2
REMARK 620 N 1 2 3 4 5 6
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 CA A 202 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 GLU A 63 OE1
REMARK 620 2 GLU A 63 OE2 51.7
REMARK 620 3 GLY A 138 O 48.1 3.9
REMARK 620 4 HOH A 305 O 48.6 7.2 7.8
REMARK 620 5 HOH A 337 O 52.2 1.2 4.8 6.6
REMARK 620 6 HOH A 373 O 45.1 7.0 4.9 5.1 7.3
REMARK 620 7 HOH A 457 O 50.5 3.7 5.4 3.5 3.1 5.4
REMARK 620 N 1 2 3 4 5 6
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 CA B 201 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 SER B 17 OG
REMARK 620 2 GDP B 204 O3B 85.4
REMARK 620 3 HOH B 342 O 163.3 82.7
REMARK 620 4 HOH B 347 O 79.6 85.9 111.1
REMARK 620 5 HOH B 354 O 87.4 84.4 79.8 164.3
REMARK 620 6 HOH B 374 O 84.3 163.9 104.5 104.3 82.8
REMARK 620 7 HOH B 382 O 131.3 123.9 65.4 66.6 129.1 72.1
REMARK 620 N 1 2 3 4 5 6
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 CA B 202 CA
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 GLU B 63 OE1
REMARK 620 2 GLU B 63 OE2 52.3
REMARK 620 3 GLY B 138 O 48.1 4.3
REMARK 620 4 HOH B 337 O 52.5 1.2 4.9
REMARK 620 5 HOH B 356 O 49.6 7.3 7.7 6.3
REMARK 620 6 HOH B 415 O 45.5 7.9 5.4 7.6 4.9
REMARK 620 7 HOH B 468 O 50.7 3.9 5.2 3.0 3.4 5.2
REMARK 620 N 1 2 3 4 5 6
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 201
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 202
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue C8G A 203
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue GDP A 204
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 201
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC6
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 202
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC7
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue GDP B 204
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC8
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide C8G B 203 and CYS B
REMARK 800 12
DBREF 6B0V A 1 169 UNP P01116 RASK_HUMAN 1 169
DBREF 6B0V B 1 169 UNP P01116 RASK_HUMAN 1 169
SEQADV 6B0V GLY A 0 UNP P01116 EXPRESSION TAG
SEQADV 6B0V CYS A 12 UNP P01116 GLY 12 ENGINEERED MUTATION
SEQADV 6B0V SER A 51 UNP P01116 CYS 51 ENGINEERED MUTATION
SEQADV 6B0V LEU A 80 UNP P01116 CYS 80 ENGINEERED MUTATION
SEQADV 6B0V SER A 118 UNP P01116 CYS 118 ENGINEERED MUTATION
SEQADV 6B0V GLY B 0 UNP P01116 EXPRESSION TAG
SEQADV 6B0V CYS B 12 UNP P01116 GLY 12 ENGINEERED MUTATION
SEQADV 6B0V SER B 51 UNP P01116 CYS 51 ENGINEERED MUTATION
SEQADV 6B0V LEU B 80 UNP P01116 CYS 80 ENGINEERED MUTATION
SEQADV 6B0V SER B 118 UNP P01116 CYS 118 ENGINEERED MUTATION
SEQRES 1 A 170 GLY MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA CYS
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 SER
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 LEU 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 SER 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 CYS
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 SER
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 LEU 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 SER 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 CA A 201 1
HET CA A 202 1
HET C8G A 203 27
HET GDP A 204 28
HET CA B 201 1
HET CA B 202 1
HET C8G B 203 27
HET GDP B 204 28
HETNAM CA CALCIUM ION
HETNAM C8G 1-[3-(4-{[(4,5-DICHLORO-2-HYDROXYPHENYL)
HETNAM 2 C8G AMINO]ACETYL}PIPERAZIN-1-YL)AZETIDIN-1-YL]PROPAN-1-ONE
HETNAM GDP GUANOSINE-5'-DIPHOSPHATE
FORMUL 3 CA 4(CA 2+)
FORMUL 5 C8G 2(C18 H24 CL2 N4 O3)
FORMUL 6 GDP 2(C10 H15 N5 O11 P2)
FORMUL 11 HOH *402(H2 O)
HELIX 1 AA1 GLY A 15 ASN A 26 1 12
HELIX 2 AA2 SER A 65 ARG A 73 1 9
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 LYS A 167 1 17
HELIX 6 AA6 GLY B 15 ASN B 26 1 12
HELIX 7 AA7 SER B 65 ARG B 73 1 9
HELIX 8 AA8 ASN B 86 LYS B 104 1 19
HELIX 9 AA9 ASP B 126 GLY B 138 1 13
HELIX 10 AB1 GLY B 151 LYS B 167 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 THR A 2 VAL A 9 1 N VAL A 8 O LEU A 56
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 VAL A 114 N LEU A 80
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 LEU B 6 O LEU B 56
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
LINK SG CYS A 12 C12 C8G A 203 1555 1555 1.68
LINK SG CYS B 12 C12 C8G B 203 1555 1555 1.70
LINK OG SER A 17 CA CA A 201 1555 1555 2.46
LINK OE1 GLU A 63 CA CA A 202 1555 1655 2.52
LINK OE2 GLU A 63 CA CA A 202 1555 1655 2.47
LINK O GLY A 138 CA CA A 202 1555 1555 2.29
LINK CA CA A 201 O1B GDP A 204 1555 1555 2.35
LINK CA CA A 201 O HOH A 313 1555 1555 2.42
LINK CA CA A 201 O HOH A 324 1555 1555 2.44
LINK CA CA A 201 O HOH A 349 1555 1555 2.37
LINK CA CA A 201 O HOH A 354 1555 1555 2.40
LINK CA CA A 201 O HOH A 375 1555 1555 2.51
LINK CA CA A 202 O HOH A 305 1555 1555 2.25
LINK CA CA A 202 O HOH A 337 1555 1555 2.45
LINK CA CA A 202 O HOH A 373 1555 1555 2.49
LINK CA CA A 202 O HOH A 457 1555 1555 2.44
LINK OG SER B 17 CA CA B 201 1555 1555 2.37
LINK OE1 GLU B 63 CA CA B 202 1555 1455 2.49
LINK OE2 GLU B 63 CA CA B 202 1555 1455 2.45
LINK O GLY B 138 CA CA B 202 1555 1555 2.24
LINK CA CA B 201 O3B GDP B 204 1555 1555 2.31
LINK CA CA B 201 O HOH B 342 1555 1555 2.41
LINK CA CA B 201 O HOH B 347 1555 1555 2.38
LINK CA CA B 201 O HOH B 354 1555 1555 2.41
LINK CA CA B 201 O HOH B 374 1555 1555 2.39
LINK CA CA B 201 O HOH B 382 1555 1555 2.58
LINK CA CA B 202 O HOH B 337 1555 1555 2.41
LINK CA CA B 202 O HOH B 356 1555 1555 2.34
LINK CA CA B 202 O HOH B 415 1555 1555 2.44
LINK CA CA B 202 O HOH B 468 1555 1555 2.38
SITE 1 AC1 7 SER A 17 GDP A 204 HOH A 313 HOH A 324
SITE 2 AC1 7 HOH A 349 HOH A 354 HOH A 375
SITE 1 AC2 6 GLU A 63 GLY A 138 HOH A 305 HOH A 337
SITE 2 AC2 6 HOH A 373 HOH A 457
SITE 1 AC3 15 GLY A 10 CYS A 12 LYS A 16 ALA A 59
SITE 2 AC3 15 GLY A 60 GLN A 61 GLU A 63 ARG A 68
SITE 3 AC3 15 ASP A 69 TYR A 96 GLN A 99 VAL A 103
SITE 4 AC3 15 GDP A 204 HOH A 324 HOH A 421
SITE 1 AC4 26 GLY A 13 VAL A 14 GLY A 15 LYS A 16
SITE 2 AC4 26 SER A 17 ALA A 18 PHE A 28 VAL A 29
SITE 3 AC4 26 ASP A 30 ASN A 116 LYS A 117 ASP A 119
SITE 4 AC4 26 LEU A 120 SER A 145 ALA A 146 LYS A 147
SITE 5 AC4 26 CA A 201 C8G A 203 HOH A 306 HOH A 324
SITE 6 AC4 26 HOH A 349 HOH A 364 HOH A 366 HOH A 374
SITE 7 AC4 26 HOH A 388 HOH A 397
SITE 1 AC5 7 SER B 17 GDP B 204 HOH B 342 HOH B 347
SITE 2 AC5 7 HOH B 354 HOH B 374 HOH B 382
SITE 1 AC6 6 GLU B 63 GLY B 138 HOH B 337 HOH B 356
SITE 2 AC6 6 HOH B 415 HOH B 468
SITE 1 AC7 24 GLY B 13 VAL B 14 GLY B 15 LYS B 16
SITE 2 AC7 24 SER B 17 ALA B 18 PHE B 28 VAL B 29
SITE 3 AC7 24 ASP B 30 ASN B 116 LYS B 117 ASP B 119
SITE 4 AC7 24 LEU B 120 SER B 145 ALA B 146 LYS B 147
SITE 5 AC7 24 CA B 201 HOH B 328 HOH B 342 HOH B 354
SITE 6 AC7 24 HOH B 365 HOH B 376 HOH B 385 HOH B 433
SITE 1 AC8 21 GLY B 10 ALA B 11 GLY B 13 VAL B 14
SITE 2 AC8 21 LYS B 16 ALA B 59 GLY B 60 GLN B 61
SITE 3 AC8 21 GLU B 63 TYR B 64 ARG B 68 ASP B 69
SITE 4 AC8 21 MET B 72 TYR B 96 GLN B 99 VAL B 103
SITE 5 AC8 21 HOH B 342 HOH B 377 HOH B 411 HOH B 417
SITE 6 AC8 21 HOH B 458
CRYST1 33.140 39.880 62.430 77.00 81.24 77.58 P 1 2
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 0.030175 -0.006645 -0.003394 0.00000
SCALE2 0.000000 0.025676 -0.005217 0.00000
SCALE3 0.000000 0.000000 0.016538 0.00000