PDB Short entry for 1ZVQ HEADER ONCOPROTEIN 02-JUN-05 1ZVQ TITLE STRUCTURE OF THE Q61G MUTANT OF RAS IN THE GDP-BOUND FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSFORMING PROTEIN P21/H-RAS-1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: C-H-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: HRAS, HRAS1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON PLUS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPROEX-HTB KEYWDS GTPASE, GDP, ONCOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.FORD,N.NASSAR REVDAT 6 23-AUG-23 1ZVQ 1 REMARK REVDAT 5 20-OCT-21 1ZVQ 1 REMARK SEQADV LINK REVDAT 4 11-OCT-17 1ZVQ 1 REMARK REVDAT 3 13-JUL-11 1ZVQ 1 VERSN REVDAT 2 24-FEB-09 1ZVQ 1 VERSN REVDAT 1 14-MAR-06 1ZVQ 0 JRNL AUTH B.FORD,V.HORNAK,H.KLEINMAN,N.NASSAR JRNL TITL STRUCTURE OF A TRANSIENT INTERMEDIATE FOR GTP HYDROLYSIS BY JRNL TITL 2 RAS. JRNL REF STRUCTURE V. 14 427 2006 JRNL REFN ISSN 0969-2126 JRNL PMID 16531227 JRNL DOI 10.1016/J.STR.2005.12.010 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.E.HALL,D.BAR-SAGI,N.NASSAR REMARK 1 TITL THE STRUCTURAL BASIS FOR THE TRANSITION FROM RAS-GTP TO REMARK 1 TITL 2 RAS-GDP REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 99 12138 2002 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 12213964 REMARK 1 DOI 10.1073/PNAS.192453199 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 13049 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 690 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 880 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE SET COUNT : 42 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1317 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 79 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 26.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.56000 REMARK 3 B22 (A**2) : -1.56000 REMARK 3 B33 (A**2) : 2.34000 REMARK 3 B12 (A**2) : -0.78000 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): 0.164 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.153 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.108 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.262 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1335 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1808 ; 1.268 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 159 ; 5.638 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 68 ;38.557 ;24.265 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 235 ;14.620 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;18.367 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 203 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1002 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 576 ; 0.205 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 903 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 98 ; 0.138 ; 0.200 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): 27 ; 0.155 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.114 ; 0.200 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): 827 ; 0.672 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1291 ; 1.054 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 586 ; 1.757 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 517 ; 2.758 ; 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 : 5 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 27 REMARK 3 ORIGIN FOR THE GROUP (A): -7.4128 24.8550 24.9675 REMARK 3 T TENSOR REMARK 3 T11: -0.0145 T22: -0.0601 REMARK 3 T33: -0.0900 T12: 0.0315 REMARK 3 T13: -0.0214 T23: 0.0671 REMARK 3 L TENSOR REMARK 3 L11: 2.4256 L22: 5.4032 REMARK 3 L33: 1.5840 L12: -0.1288 REMARK 3 L13: 1.0216 L23: -0.2736 REMARK 3 S TENSOR REMARK 3 S11: 0.0223 S12: 0.3589 S13: 0.1146 REMARK 3 S21: -0.4601 S22: -0.0550 S23: 0.2124 REMARK 3 S31: -0.2249 S32: 0.0319 S33: 0.0327 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 : A 28 A 40 REMARK 3 ORIGIN FOR THE GROUP (A): -11.2465 19.0328 17.6857 REMARK 3 T TENSOR REMARK 3 T11: 0.2342 T22: 0.1436 REMARK 3 T33: -0.0162 T12: 0.0485 REMARK 3 T13: -0.0963 T23: 0.0016 REMARK 3 L TENSOR REMARK 3 L11: 2.0928 L22: 1.5403 REMARK 3 L33: 3.2076 L12: -1.6283 REMARK 3 L13: 2.1028 L23: -1.0890 REMARK 3 S TENSOR REMARK 3 S11: 0.2655 S12: 0.4756 S13: 0.1768 REMARK 3 S21: -1.2902 S22: 0.1620 S23: 0.5817 REMARK 3 S31: 0.7881 S32: -0.1207 S33: -0.4275 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 41 A 56 REMARK 3 ORIGIN FOR THE GROUP (A): -6.9627 35.2420 27.7196 REMARK 3 T TENSOR REMARK 3 T11: -0.0542 T22: -0.0736 REMARK 3 T33: -0.0834 T12: -0.0022 REMARK 3 T13: 0.0027 T23: 0.0762 REMARK 3 L TENSOR REMARK 3 L11: 7.4316 L22: 6.5446 REMARK 3 L33: 12.6483 L12: -5.2186 REMARK 3 L13: -3.2229 L23: 7.5346 REMARK 3 S TENSOR REMARK 3 S11: 0.0302 S12: 0.0261 S13: 0.4127 REMARK 3 S21: -0.2629 S22: -0.2303 S23: -0.1014 REMARK 3 S31: -0.5388 S32: -0.2414 S33: 0.2002 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 57 A 75 REMARK 3 ORIGIN FOR THE GROUP (A): 2.9274 25.3792 16.2011 REMARK 3 T TENSOR REMARK 3 T11: 0.0984 T22: 0.3395 REMARK 3 T33: -0.0054 T12: 0.0866 REMARK 3 T13: 0.1835 T23: 0.1059 REMARK 3 L TENSOR REMARK 3 L11: 19.7308 L22: 8.4253 REMARK 3 L33: 9.5207 L12: 9.3212 REMARK 3 L13: 4.4900 L23: -3.7252 REMARK 3 S TENSOR REMARK 3 S11: -0.3537 S12: 2.7661 S13: 0.3014 REMARK 3 S21: -1.3648 S22: 0.4200 S23: -0.2633 REMARK 3 S31: 0.4551 S32: 1.1053 S33: -0.0663 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 76 A 166 REMARK 3 ORIGIN FOR THE GROUP (A): 0.6272 17.9911 32.4218 REMARK 3 T TENSOR REMARK 3 T11: -0.0713 T22: -0.0677 REMARK 3 T33: -0.1089 T12: 0.0021 REMARK 3 T13: -0.0076 T23: 0.0009 REMARK 3 L TENSOR REMARK 3 L11: 3.7842 L22: 3.3929 REMARK 3 L33: 1.4844 L12: 0.9643 REMARK 3 L13: -0.8376 L23: -0.0516 REMARK 3 S TENSOR REMARK 3 S11: 0.1412 S12: 0.0374 S13: 0.0669 REMARK 3 S21: 0.1024 S22: -0.0544 S23: -0.1613 REMARK 3 S31: -0.0057 S32: 0.0446 S33: -0.0868 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 1ZVQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUN-05. REMARK 100 THE DEPOSITION ID IS D_1000033177. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-DEC-04 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 : NSLS REMARK 200 BEAMLINE : X26C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13739 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 38.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.49700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 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: PDB ENTRY 4Q21 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG4000, 50 MM CA ACETATE, 10 MM REMARK 280 MGCL2, 100 MM TRIS-HCL, 250 MM NACL, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 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 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 46.49600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 26.84448 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 40.33833 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 46.49600 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 26.84448 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 40.33833 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 46.49600 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 26.84448 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 40.33833 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 46.49600 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 26.84448 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 40.33833 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 46.49600 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 26.84448 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 40.33833 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 46.49600 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 26.84448 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 40.33833 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 53.68896 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 80.67667 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 53.68896 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 80.67667 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 53.68896 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 80.67667 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 53.68896 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 80.67667 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 53.68896 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 80.67667 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 53.68896 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 80.67667 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: 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 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 195 LIES ON A SPECIAL POSITION. REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 GLY A 61 REMARK 475 GLU A 62 REMARK 475 GLU A 63 REMARK 475 TYR A 64 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 31 CG CD OE1 OE2 REMARK 480 GLY A 60 CA C O 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 A 31 CB GLU A 31 CG -0.334 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 GLU A 31 CA - CB - CG ANGL. DEV. = 20.8 DEGREES REMARK 500 GLY A 60 CA - C - N ANGL. DEV. = 17.9 DEGREES REMARK 500 GLY A 60 O - C - N ANGL. DEV. = -19.5 DEGREES REMARK 500 GLY A 61 C - N - CA ANGL. DEV. = 15.7 DEGREES REMARK 500 TYR A 64 CA - C - N ANGL. DEV. = 28.0 DEGREES REMARK 500 TYR A 64 O - C - N ANGL. DEV. = -31.5 DEGREES REMARK 500 SER A 65 C - N - CA ANGL. DEV. = 16.4 DEGREES REMARK 500 ARG A 123 NE - CZ - NH2 ANGL. DEV. = -3.0 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 GLU A 31 77.77 -157.88 REMARK 500 ASP A 33 110.48 -30.61 REMARK 500 ALA A 59 -165.41 -111.06 REMARK 500 ASP A 108 79.53 -118.00 REMARK 500 ARG A 149 -5.69 82.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 59 GLY A 60 138.59 REMARK 500 GLY A 60 GLY A 61 132.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 60 10.20 REMARK 500 TYR A 64 -17.91 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 181 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 17 OG REMARK 620 2 GDP A 180 O2B 94.7 REMARK 620 3 HOH A 205 O 172.4 87.9 REMARK 620 4 HOH A 207 O 80.5 91.3 92.3 REMARK 620 5 HOH A 217 O 92.9 89.8 94.2 173.4 REMARK 620 6 HOH A 221 O 90.4 172.9 86.4 84.6 94.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 182 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 220 O REMARK 620 2 HOH A 220 O 109.8 REMARK 620 3 HOH A 220 O 97.8 89.3 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 181 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 182 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 180 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Q21 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF WILD-TYPE RAS PROTEIN REMARK 900 RELATED ID: 1LF5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SAME PROTEIN WITH A59G MUTATION IN GDP REMARK 900 BOUND FORM REMARK 900 RELATED ID: 1ZW6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE GTP-BOUND FORM OF Q61G MUTANT OF THE SAME REMARK 900 PROTEIN DBREF 1ZVQ A 1 166 UNP P01112 RASH_HUMAN 1 166 SEQADV 1ZVQ GLY A 61 UNP P01112 GLN 61 ENGINEERED MUTATION SEQRES 1 A 166 MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA GLY GLY SEQRES 2 A 166 VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN ASN SEQRES 3 A 166 HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SER SEQRES 4 A 166 TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS LEU SEQRES 5 A 166 LEU ASP ILE LEU ASP THR ALA GLY GLY GLU GLU TYR SER SEQRES 6 A 166 ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY PHE SEQRES 7 A 166 LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE GLU SEQRES 8 A 166 ASP ILE HIS GLN TYR ARG GLU GLN ILE LYS ARG VAL LYS SEQRES 9 A 166 ASP SER ASP ASP VAL PRO MET VAL LEU VAL GLY ASN LYS SEQRES 10 A 166 CYS ASP LEU ALA ALA ARG THR VAL GLU SER ARG GLN ALA SEQRES 11 A 166 GLN ASP LEU ALA ARG SER TYR GLY ILE PRO TYR ILE GLU SEQRES 12 A 166 THR SER ALA LYS THR ARG GLN GLY VAL GLU ASP ALA PHE SEQRES 13 A 166 TYR THR LEU VAL ARG GLU ILE ARG GLN HIS HET MG A 181 1 HET MG A 182 1 HET GDP A 180 28 HETNAM MG MAGNESIUM ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 2 MG 2(MG 2+) FORMUL 4 GDP C10 H15 N5 O11 P2 FORMUL 5 HOH *79(H2 O) HELIX 1 1 GLY A 15 ASN A 26 1 12 HELIX 2 2 SER A 65 GLY A 75 1 11 HELIX 3 3 ASN A 86 ASP A 92 1 7 HELIX 4 4 ASP A 92 ASP A 105 1 14 HELIX 5 5 GLU A 126 GLY A 138 1 13 HELIX 6 6 GLY A 151 HIS A 166 1 16 SHEET 1 A 6 ASP A 38 ILE A 46 0 SHEET 2 A 6 GLU A 49 ASP A 57 -1 O LEU A 53 N LYS A 42 SHEET 3 A 6 THR A 2 GLY A 10 1 N VAL A 8 O LEU A 56 SHEET 4 A 6 GLY A 77 ALA A 83 1 O VAL A 81 N VAL A 9 SHEET 5 A 6 MET A 111 ASN A 116 1 O ASN A 116 N PHE A 82 SHEET 6 A 6 TYR A 141 GLU A 143 1 O ILE A 142 N LEU A 113 LINK OG SER A 17 MG MG A 181 1555 1555 2.12 LINK O2B GDP A 180 MG MG A 181 1555 1555 2.09 LINK MG MG A 181 O HOH A 205 1555 1555 2.16 LINK MG MG A 181 O HOH A 207 1555 1555 2.06 LINK MG MG A 181 O HOH A 217 1555 1555 2.11 LINK MG MG A 181 O HOH A 221 1555 1555 2.00 LINK MG MG A 182 O HOH A 220 1555 1555 2.08 LINK MG MG A 182 O HOH A 220 1555 2555 2.47 LINK MG MG A 182 O HOH A 220 1555 3555 2.82 SITE 1 AC1 6 SER A 17 GDP A 180 HOH A 205 HOH A 207 SITE 2 AC1 6 HOH A 217 HOH A 221 SITE 1 AC2 1 HOH A 220 SITE 1 AC3 24 GLY A 13 VAL A 14 GLY A 15 LYS A 16 SITE 2 AC3 24 SER A 17 ALA A 18 PHE A 28 VAL A 29 SITE 3 AC3 24 ASP A 30 ASN A 116 LYS A 117 ASP A 119 SITE 4 AC3 24 LEU A 120 SER A 145 ALA A 146 LYS A 147 SITE 5 AC3 24 MG A 181 HOH A 205 HOH A 207 HOH A 212 SITE 6 AC3 24 HOH A 217 HOH A 222 HOH A 234 HOH A 250 CRYST1 92.992 92.992 121.015 90.00 90.00 120.00 H 3 2 18 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 0.010750 0.006210 0.000000 0.00000 SCALE2 0.000000 0.012420 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008260 0.00000