PDB Short entry for 3KUC HEADER GTP BINDING PROTEIN/TRANSFERASE 27-NOV-09 3KUC TITLE COMPLEX OF RAP1A(E30D/K31E)GDP WITH RAFRBD(A85K/N71R) COMPND MOL_ID: 1; COMPND 2 MOLECULE: RAS-RELATED PROTEIN RAP-1A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-167; COMPND 5 SYNONYM: GTP-BINDING PROTEIN SMG-P21A, RAS-RELATED PROTEIN KREV-1, COMPND 6 C21KG, G-22K; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: RAF PROTO-ONCOGENE SERINE/THREONINE-PROTEIN KINASE; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: UNP RESIDUES 51-131; COMPND 13 SYNONYM: C-RAF, CRAF, RAF-1; COMPND 14 EC: 2.7.11.1; COMPND 15 ENGINEERED: YES; COMPND 16 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: RAP1A, KREV1; 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 GENE: RAF1, RAF; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RAS-EFFECTOR COMPLEX, GTP-BINDING, NUCLEOTIDE-BINDING, PROTO- KEYWDS 2 ONCOGENE, TRANSFERASE, GTP BINDING PROTEIN-TRANSFERASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.FILCHTINSKI,O.SHARABI,A.RUEPPEL,I.R.VETTER,C.HERRMANN,J.M.SHIFMAN REVDAT 6 06-SEP-23 3KUC 1 REMARK REVDAT 5 13-OCT-21 3KUC 1 REMARK SEQADV REVDAT 4 01-NOV-17 3KUC 1 REMARK REVDAT 3 13-JUL-11 3KUC 1 VERSN REVDAT 2 01-SEP-10 3KUC 1 JRNL REVDAT 1 23-MAR-10 3KUC 0 JRNL AUTH D.FILCHTINSKI,O.SHARABI,A.RUPPEL,I.R.VETTER,C.HERRMANN, JRNL AUTH 2 J.M.SHIFMAN JRNL TITL WHAT MAKES RAS AN EFFICIENT MOLECULAR SWITCH: A JRNL TITL 2 COMPUTATIONAL, BIOPHYSICAL, AND STRUCTURAL STUDY OF RAS-GDP JRNL TITL 3 INTERACTIONS WITH MUTANTS OF RAF. JRNL REF J.MOL.BIOL. V. 399 422 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20361980 JRNL DOI 10.1016/J.JMB.2010.03.046 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 22491 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) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1184 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) : 1.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1654 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE SET COUNT : 87 REMARK 3 BIN FREE R VALUE : 0.2390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1946 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 181 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.12000 REMARK 3 B22 (A**2) : 1.20000 REMARK 3 B33 (A**2) : -1.08000 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): 0.136 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.128 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.082 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.148 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2051 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2779 ; 2.171 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 257 ; 6.664 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 105 ;37.882 ;24.762 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 391 ;15.950 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;16.565 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 312 ; 0.172 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1541 ; 0.011 ; 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): 1228 ; 1.407 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1990 ; 2.345 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 823 ; 3.672 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 781 ; 5.585 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 167 REMARK 3 ORIGIN FOR THE GROUP (A): -8.8037 -14.7357 26.0052 REMARK 3 T TENSOR REMARK 3 T11: 0.0864 T22: 0.0680 REMARK 3 T33: 0.0813 T12: -0.0418 REMARK 3 T13: 0.0453 T23: -0.0524 REMARK 3 L TENSOR REMARK 3 L11: 0.9225 L22: 2.1707 REMARK 3 L33: 5.6321 L12: 0.1971 REMARK 3 L13: 0.3314 L23: 2.7931 REMARK 3 S TENSOR REMARK 3 S11: -0.0684 S12: -0.0408 S13: 0.0438 REMARK 3 S21: 0.3817 S22: -0.3020 S23: 0.2512 REMARK 3 S31: 0.4332 S32: -0.4007 S33: 0.3703 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 56 B 131 REMARK 3 ORIGIN FOR THE GROUP (A): 3.7496 -22.5269 3.3028 REMARK 3 T TENSOR REMARK 3 T11: 0.0103 T22: 0.0636 REMARK 3 T33: 0.0692 T12: 0.0171 REMARK 3 T13: 0.0063 T23: 0.0131 REMARK 3 L TENSOR REMARK 3 L11: 1.9488 L22: 2.0047 REMARK 3 L33: 3.2962 L12: 0.3503 REMARK 3 L13: -1.4799 L23: -0.5534 REMARK 3 S TENSOR REMARK 3 S11: 0.0080 S12: 0.0833 S13: -0.0423 REMARK 3 S21: -0.0656 S22: -0.0623 S23: -0.0327 REMARK 3 S31: 0.1141 S32: 0.0080 S33: 0.0543 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 REMARK 4 REMARK 4 3KUC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-DEC-09. REMARK 100 THE DEPOSITION ID IS D_1000056457. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00472 REMARK 200 MONOCHROMATOR : FOCUSED SI(111) MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23432 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 40.840 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 7.710 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : 0.07400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 27.2700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 7.66 REMARK 200 R MERGE FOR SHELL (I) : 0.19600 REMARK 200 R SYM FOR SHELL (I) : 0.38400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 7.520 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1GUA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20-25% PEG 8000, 100 MM TRIS OR HEPES REMARK 280 PH 7.2-7.6, 10-200 MM CA ACETATE OR 100 MM AMMONIUM SULFATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K, PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 21.56000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.81500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.27000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.81500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.56000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.27000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 PRO B 51 REMARK 465 SER B 52 REMARK 465 LYS B 53 REMARK 465 THR B 54 REMARK 465 SER B 55 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 O HOH A 268 O HOH A 288 1.92 REMARK 500 O HOH A 300 O HOH A 303 1.95 REMARK 500 N ASN B 56 O HOH B 255 1.96 REMARK 500 NH1 ARG B 71 O HOH B 273 2.14 REMARK 500 O HOH A 300 O HOH A 302 2.15 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 VAL A 126 CB VAL A 126 CG2 0.128 REMARK 500 SER A 146 CB SER A 146 OG 0.102 REMARK 500 CYS B 81 CB CYS B 81 SG -0.106 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 LEU A 56 CB - CG - CD2 ANGL. DEV. = -10.6 DEGREES REMARK 500 ARG A 124 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG B 59 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG B 71 NE - CZ - NH1 ANGL. DEV. = -3.9 DEGREES REMARK 500 MET B 76 CG - SD - CE ANGL. DEV. = -28.4 DEGREES REMARK 500 ARG B 89 NE - CZ - NH2 ANGL. DEV. = -4.3 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 ILE A 36 -62.20 -100.17 REMARK 500 ASP A 47 -98.96 52.96 REMARK 500 LYS A 117 30.65 76.64 REMARK 500 LEU A 120 51.79 -92.14 REMARK 500 HIS B 105 51.46 -101.14 REMARK 500 LYS B 106 28.09 49.27 REMARK 500 LYS B 108 138.38 -36.05 REMARK 500 REMARK 500 REMARK: NULL 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 170 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 171 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 172 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3KUD RELATED DB: PDB DBREF 3KUC A 1 167 UNP P62834 RAP1A_HUMAN 1 167 DBREF 3KUC B 51 131 UNP P04049 RAF1_HUMAN 51 131 SEQADV 3KUC ASP A 30 UNP P62834 GLU 30 ENGINEERED MUTATION SEQADV 3KUC GLU A 31 UNP P62834 LYS 31 ENGINEERED MUTATION SEQADV 3KUC ARG B 71 UNP P04049 ASN 71 ENGINEERED MUTATION SEQADV 3KUC LYS B 85 UNP P04049 ALA 85 ENGINEERED MUTATION SEQRES 1 A 167 MET ARG GLU TYR LYS LEU VAL VAL LEU GLY SER GLY GLY SEQRES 2 A 167 VAL GLY LYS SER ALA LEU THR VAL GLN PHE VAL GLN GLY SEQRES 3 A 167 ILE PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SER SEQRES 4 A 167 TYR ARG LYS GLN VAL GLU VAL ASP CYS GLN GLN CYS MET SEQRES 5 A 167 LEU GLU ILE LEU ASP THR ALA GLY THR GLU GLN PHE THR SEQRES 6 A 167 ALA MET ARG ASP LEU TYR MET LYS ASN GLY GLN GLY PHE SEQRES 7 A 167 ALA LEU VAL TYR SER ILE THR ALA GLN SER THR PHE ASN SEQRES 8 A 167 ASP LEU GLN ASP LEU ARG GLU GLN ILE LEU ARG VAL LYS SEQRES 9 A 167 ASP THR GLU ASP VAL PRO MET ILE LEU VAL GLY ASN LYS SEQRES 10 A 167 CYS ASP LEU GLU ASP GLU ARG VAL VAL GLY LYS GLU GLN SEQRES 11 A 167 GLY GLN ASN LEU ALA ARG GLN TRP CYS ASN CYS ALA PHE SEQRES 12 A 167 LEU GLU SER SER ALA LYS SER LYS ILE ASN VAL ASN GLU SEQRES 13 A 167 ILE PHE TYR ASP LEU VAL ARG GLN ILE ASN ARG SEQRES 1 B 81 PRO SER LYS THR SER ASN THR ILE ARG VAL PHE LEU PRO SEQRES 2 B 81 ASN LYS GLN ARG THR VAL VAL ARG VAL ARG ASN GLY MET SEQRES 3 B 81 SER LEU HIS ASP CYS LEU MET LYS LYS LEU LYS VAL ARG SEQRES 4 B 81 GLY LEU GLN PRO GLU CYS CYS ALA VAL PHE ARG LEU LEU SEQRES 5 B 81 HIS GLU HIS LYS GLY LYS LYS ALA ARG LEU ASP TRP ASN SEQRES 6 B 81 THR ASP ALA ALA SER LEU ILE GLY GLU GLU LEU GLN VAL SEQRES 7 B 81 ASP PHE LEU HET GDP A 170 28 HET MG A 171 1 HET CA B 172 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM CA CALCIUM ION FORMUL 3 GDP C10 H15 N5 O11 P2 FORMUL 4 MG MG 2+ FORMUL 5 CA CA 2+ FORMUL 6 HOH *181(H2 O) HELIX 1 1 GLY A 15 GLY A 26 1 12 HELIX 2 2 THR A 61 GLY A 75 1 15 HELIX 3 3 ALA A 86 ASP A 92 1 7 HELIX 4 4 ASP A 92 ASP A 105 1 14 HELIX 5 5 LEU A 120 ARG A 124 5 5 HELIX 6 6 GLY A 127 TRP A 138 1 12 HELIX 7 7 ASN A 153 ARG A 167 1 15 HELIX 8 8 SER B 77 VAL B 88 1 12 HELIX 9 9 GLN B 92 GLU B 94 5 3 HELIX 10 10 HIS B 103 LYS B 106 5 4 HELIX 11 11 ALA B 118 ILE B 122 5 5 SHEET 1 A11 ALA A 142 GLU A 145 0 SHEET 2 A11 MET A 111 ASN A 116 1 N LEU A 113 O LEU A 144 SHEET 3 A11 GLY A 77 SER A 83 1 N LEU A 80 O ILE A 112 SHEET 4 A11 ARG A 2 LEU A 9 1 N LEU A 9 O ALA A 79 SHEET 5 A11 GLN A 49 ASP A 57 1 O GLU A 54 N LEU A 6 SHEET 6 A11 GLU A 37 VAL A 46 -1 N LYS A 42 O LEU A 53 SHEET 7 A11 GLN B 66 ARG B 71 -1 O ARG B 67 N SER A 39 SHEET 8 A11 THR B 57 LEU B 62 -1 N VAL B 60 O THR B 68 SHEET 9 A11 GLU B 125 PHE B 130 1 O VAL B 128 N PHE B 61 SHEET 10 A11 CYS B 96 LEU B 101 -1 N ALA B 97 O ASP B 129 SHEET 11 A11 LYS B 109 LEU B 112 -1 O LEU B 112 N VAL B 98 SITE 1 AC1 24 GLY A 13 VAL A 14 GLY A 15 LYS A 16 SITE 2 AC1 24 SER A 17 ALA A 18 PHE A 28 VAL A 29 SITE 3 AC1 24 ASP A 30 TYR A 32 ASN A 116 LYS A 117 SITE 4 AC1 24 ASP A 119 LEU A 120 SER A 147 ALA A 148 SITE 5 AC1 24 LYS A 149 MG A 171 HOH A 202 HOH A 204 SITE 6 AC1 24 HOH A 206 HOH A 227 HOH A 231 HOH A 237 SITE 1 AC2 6 SER A 17 THR A 35 GDP A 170 HOH A 202 SITE 2 AC2 6 HOH A 204 HOH A 231 SITE 1 AC3 6 ASP B 80 GLY B 123 GLU B 125 HOH B 238 SITE 2 AC3 6 HOH B 242 HOH B 249 CRYST1 43.120 68.540 101.630 90.00 90.00 90.00 P 21 21 21 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 0.023191 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014590 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009840 0.00000