HEADER SIGNALING PROTEIN 04-FEB-03 1NVU TITLE STRUCTURAL EVIDENCE FOR FEEDBACK ACTIVATION BY RASGTP OF THE RAS- TITLE 2 SPECIFIC NUCLEOTIDE EXCHANGE FACTOR SOS COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSFORMING PROTEIN P21/H-RAS-1; COMPND 3 CHAIN: Q, R; COMPND 4 FRAGMENT: RESIDUES 1-166; COMPND 5 SYNONYM: C-H-RAS; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: SON OF SEVENLESS PROTEIN HOMOLOG 1; COMPND 10 CHAIN: S; COMPND 11 FRAGMENT: RESIDUES 566-1046, INCLUDING RAS GUANINE NUCLEOTIDE COMPND 12 EXCHANGE FACTOR DOMAIN; COMPND 13 SYNONYM: SOS-1; COMPND 14 ENGINEERED: 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 OR HRAS1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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: P-PROEXHT; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: SOS1; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: P-PROEXHT KEYWDS PROTO-ONCOGENE, GTP BINDING, GUANINE NUCLEOTIDE RELEASE FACTOR, KEYWDS 2 SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.M.MARGARIT,H.SONDERMANN,B.E.HALL,B.NAGAR,A.HOELZ,M.PIRRUCCELLO, AUTHOR 2 D.BAR-SAGI,J.KURIYAN REVDAT 4 16-AUG-23 1NVU 1 REMARK REVDAT 3 27-OCT-21 1NVU 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1NVU 1 VERSN REVDAT 1 01-APR-03 1NVU 0 JRNL AUTH S.M.MARGARIT,H.SONDERMANN,B.E.HALL,B.NAGAR,A.HOELZ, JRNL AUTH 2 M.PIRRUCCELLO,D.BAR-SAGI,J.KURIYAN JRNL TITL STRUCTURAL EVIDENCE FOR FEEDBACK ACTIVATION BY RASGTP OF THE JRNL TITL 2 RAS-SPECIFIC NUCLEOTIDE EXCHANGE FACTOR SOS JRNL REF CELL(CAMBRIDGE,MASS.) V. 112 685 2003 JRNL REFN ISSN 0092-8674 JRNL PMID 12628188 JRNL DOI 10.1016/S0092-8674(03)00149-1 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.21 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 73293 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 SET) : 0.186 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4399 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.003 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 10556 REMARK 3 BIN R VALUE (WORKING SET) : 0.2140 REMARK 3 BIN FREE R VALUE : 0.2480 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 6.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 680 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6540 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 514 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.59000 REMARK 3 B22 (A**2) : 1.59000 REMARK 3 B33 (A**2) : -3.17000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.16 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.26 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.20 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.970 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.490 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.450 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.820 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.070 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 44.25 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : GTP.PAR REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : GTP.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.PARAM REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1NVU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-MAR-03. REMARK 100 THE DEPOSITION ID IS D_1000018261. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUN-01 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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : SI 220 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75882 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 43.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11000 REMARK 200 FOR THE DATA SET : 18.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 10.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.51200 REMARK 200 FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1BKD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.2-1.5 M PHOSPHATE, 100 MM HEPES, PH REMARK 280 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 91.65600 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 91.65600 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 89.25450 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 91.65600 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 91.65600 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 89.25450 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 91.65600 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 91.65600 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 89.25450 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 91.65600 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 91.65600 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 89.25450 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 91.65600 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 91.65600 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 89.25450 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 91.65600 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 91.65600 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 89.25450 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 91.65600 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 91.65600 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 89.25450 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 91.65600 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 91.65600 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 89.25450 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 300 REMARK: TWO MOLECULES OF RAS BOUND TO ONE MOLECULE OF SOS, ONE AT REMARK 300 THE ACTIVE SITE (CHAINID, R) AND THE OTHER AT A DISTAL SITE REMARK 300 (CHAINID, Q). THE DISTAL RAS HAS GTP BOUND TO IT, WHILE THE ACTIVE REMARK 300 SITE RAS IS NUCLEOTIDE-FREE. 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: Q, R, S 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 43430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 134300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -288.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: Q, R, S 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 ASN S 591 REMARK 465 MET S 592 REMARK 465 GLN S 593 REMARK 465 PRO S 594 REMARK 465 LYS S 595 REMARK 465 ALA S 596 REMARK 465 ARG S 744 REMARK 465 ASP S 745 REMARK 465 ASN S 746 REMARK 465 GLY S 747 REMARK 465 PRO S 748 REMARK 465 GLY S 749 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 PRO S1045 C - N - CA ANGL. DEV. = 19.0 DEGREES REMARK 500 PRO S1045 C - N - CD ANGL. DEV. = -24.2 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 Q 36 -64.51 -103.69 REMARK 500 GLU Q 37 115.71 -168.42 REMARK 500 GLN Q 61 16.21 32.28 REMARK 500 TYR Q 64 60.55 -105.07 REMARK 500 ARG Q 149 -1.70 87.13 REMARK 500 ASP S 620 75.19 -161.90 REMARK 500 TYR S 681 -59.05 -123.23 REMARK 500 HIS S 700 37.99 -141.64 REMARK 500 HIS S 764 -116.46 -121.37 REMARK 500 HIS S 770 54.11 -98.94 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 Q1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER Q 17 OG REMARK 620 2 THR Q 35 OG1 78.3 REMARK 620 3 GTP Q1001 O2G 163.5 92.1 REMARK 620 4 GTP Q1001 O2B 90.3 161.2 95.1 REMARK 620 5 HOH Q1008 O 95.2 105.3 100.4 90.5 REMARK 620 6 HOH Q1011 O 79.9 80.6 85.3 82.7 171.6 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 MG Q 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 R 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 S 1047 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 S 1048 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 S 1049 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 Q 1007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTP Q 1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BDK RELATED DB: PDB REMARK 900 RELATED ID: 1NVV RELATED DB: PDB REMARK 900 RELATED ID: 1NVW RELATED DB: PDB REMARK 900 RELATED ID: 1NVX RELATED DB: PDB DBREF 1NVU Q 1 166 UNP P01112 RASH_HUMAN 1 166 DBREF 1NVU R 1 166 UNP P01112 RASH_HUMAN 1 166 DBREF 1NVU S 566 1046 UNP Q07889 SOS1_HUMAN 566 1046 SEQADV 1NVU GLY Q 59 UNP P01112 ALA 59 ENGINEERED MUTATION SEQADV 1NVU GLY R 59 UNP P01112 ALA 59 ENGINEERED MUTATION SEQRES 1 Q 166 MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA GLY GLY SEQRES 2 Q 166 VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN ASN SEQRES 3 Q 166 HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SER SEQRES 4 Q 166 TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS LEU SEQRES 5 Q 166 LEU ASP ILE LEU ASP THR GLY GLY GLN GLU GLU TYR SER SEQRES 6 Q 166 ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY PHE SEQRES 7 Q 166 LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE GLU SEQRES 8 Q 166 ASP ILE HIS GLN TYR ARG GLU GLN ILE LYS ARG VAL LYS SEQRES 9 Q 166 ASP SER ASP ASP VAL PRO MET VAL LEU VAL GLY ASN LYS SEQRES 10 Q 166 CYS ASP LEU ALA ALA ARG THR VAL GLU SER ARG GLN ALA SEQRES 11 Q 166 GLN ASP LEU ALA ARG SER TYR GLY ILE PRO TYR ILE GLU SEQRES 12 Q 166 THR SER ALA LYS THR ARG GLN GLY VAL GLU ASP ALA PHE SEQRES 13 Q 166 TYR THR LEU VAL ARG GLU ILE ARG GLN HIS SEQRES 1 R 166 MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA GLY GLY SEQRES 2 R 166 VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN ASN SEQRES 3 R 166 HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SER SEQRES 4 R 166 TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS LEU SEQRES 5 R 166 LEU ASP ILE LEU ASP THR GLY GLY GLN GLU GLU TYR SER SEQRES 6 R 166 ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY PHE SEQRES 7 R 166 LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE GLU SEQRES 8 R 166 ASP ILE HIS GLN TYR ARG GLU GLN ILE LYS ARG VAL LYS SEQRES 9 R 166 ASP SER ASP ASP VAL PRO MET VAL LEU VAL GLY ASN LYS SEQRES 10 R 166 CYS ASP LEU ALA ALA ARG THR VAL GLU SER ARG GLN ALA SEQRES 11 R 166 GLN ASP LEU ALA ARG SER TYR GLY ILE PRO TYR ILE GLU SEQRES 12 R 166 THR SER ALA LYS THR ARG GLN GLY VAL GLU ASP ALA PHE SEQRES 13 R 166 TYR THR LEU VAL ARG GLU ILE ARG GLN HIS SEQRES 1 S 481 GLN MET ARG LEU PRO SER ALA ASP VAL TYR ARG PHE ALA SEQRES 2 S 481 GLU PRO ASP SER GLU GLU ASN ILE ILE PHE GLU GLU ASN SEQRES 3 S 481 MET GLN PRO LYS ALA GLY ILE PRO ILE ILE LYS ALA GLY SEQRES 4 S 481 THR VAL ILE LYS LEU ILE GLU ARG LEU THR TYR HIS MET SEQRES 5 S 481 TYR ALA ASP PRO ASN PHE VAL ARG THR PHE LEU THR THR SEQRES 6 S 481 TYR ARG SER PHE CYS LYS PRO GLN GLU LEU LEU SER LEU SEQRES 7 S 481 ILE ILE GLU ARG PHE GLU ILE PRO GLU PRO GLU PRO THR SEQRES 8 S 481 GLU ALA ASP ARG ILE ALA ILE GLU ASN GLY ASP GLN PRO SEQRES 9 S 481 LEU SER ALA GLU LEU LYS ARG PHE ARG LYS GLU TYR ILE SEQRES 10 S 481 GLN PRO VAL GLN LEU ARG VAL LEU ASN VAL CYS ARG HIS SEQRES 11 S 481 TRP VAL GLU HIS HIS PHE TYR ASP PHE GLU ARG ASP ALA SEQRES 12 S 481 TYR LEU LEU GLN ARG MET GLU GLU PHE ILE GLY THR VAL SEQRES 13 S 481 ARG GLY LYS ALA MET LYS LYS TRP VAL GLU SER ILE THR SEQRES 14 S 481 LYS ILE ILE GLN ARG LYS LYS ILE ALA ARG ASP ASN GLY SEQRES 15 S 481 PRO GLY HIS ASN ILE THR PHE GLN SER SER PRO PRO THR SEQRES 16 S 481 VAL GLU TRP HIS ILE SER ARG PRO GLY HIS ILE GLU THR SEQRES 17 S 481 PHE ASP LEU LEU THR LEU HIS PRO ILE GLU ILE ALA ARG SEQRES 18 S 481 GLN LEU THR LEU LEU GLU SER ASP LEU TYR ARG ALA VAL SEQRES 19 S 481 GLN PRO SER GLU LEU VAL GLY SER VAL TRP THR LYS GLU SEQRES 20 S 481 ASP LYS GLU ILE ASN SER PRO ASN LEU LEU LYS MET ILE SEQRES 21 S 481 ARG HIS THR THR ASN LEU THR LEU TRP PHE GLU LYS CYS SEQRES 22 S 481 ILE VAL GLU THR GLU ASN LEU GLU GLU ARG VAL ALA VAL SEQRES 23 S 481 VAL SER ARG ILE ILE GLU ILE LEU GLN VAL PHE GLN GLU SEQRES 24 S 481 LEU ASN ASN PHE ASN GLY VAL LEU GLU VAL VAL SER ALA SEQRES 25 S 481 MET ASN SER SER PRO VAL TYR ARG LEU ASP HIS THR PHE SEQRES 26 S 481 GLU GLN ILE PRO SER ARG GLN LYS LYS ILE LEU GLU GLU SEQRES 27 S 481 ALA HIS GLU LEU SER GLU ASP HIS TYR LYS LYS TYR LEU SEQRES 28 S 481 ALA LYS LEU ARG SER ILE ASN PRO PRO CYS VAL PRO PHE SEQRES 29 S 481 PHE GLY ILE TYR LEU THR ASN ILE LEU LYS THR GLU GLU SEQRES 30 S 481 GLY ASN PRO GLU VAL LEU LYS ARG HIS GLY LYS GLU LEU SEQRES 31 S 481 ILE ASN PHE SER LYS ARG ARG LYS VAL ALA GLU ILE THR SEQRES 32 S 481 GLY GLU ILE GLN GLN TYR GLN ASN GLN PRO TYR CYS LEU SEQRES 33 S 481 ARG VAL GLU SER ASP ILE LYS ARG PHE PHE GLU ASN LEU SEQRES 34 S 481 ASN PRO MET GLY ASN SER MET GLU LYS GLU PHE THR ASP SEQRES 35 S 481 TYR LEU PHE ASN LYS SER LEU GLU ILE GLU PRO ARG ASN SEQRES 36 S 481 PRO LYS PRO LEU PRO ARG PHE PRO LYS LYS TYR SER TYR SEQRES 37 S 481 PRO LEU LYS SER PRO GLY VAL ARG PRO SER ASN PRO ARG HET MG Q1002 1 HET PO4 Q1007 5 HET GTP Q1001 32 HET PO4 R1003 5 HET PO4 S1047 5 HET PO4 S1048 5 HET PO4 S1049 5 HETNAM MG MAGNESIUM ION HETNAM PO4 PHOSPHATE ION HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE FORMUL 4 MG MG 2+ FORMUL 5 PO4 5(O4 P 3-) FORMUL 6 GTP C10 H16 N5 O14 P3 FORMUL 11 HOH *514(H2 O) HELIX 1 1 GLY Q 15 ASN Q 26 1 12 HELIX 2 2 TYR Q 64 GLY Q 75 1 12 HELIX 3 3 ASN Q 86 LYS Q 104 1 19 HELIX 4 4 GLU Q 126 GLY Q 138 1 13 HELIX 5 5 GLY Q 151 HIS Q 166 1 16 HELIX 6 6 GLY R 15 GLN R 25 1 11 HELIX 7 7 TYR R 64 ALA R 66 5 3 HELIX 8 8 MET R 67 THR R 74 1 8 HELIX 9 9 ASN R 86 ASP R 105 1 20 HELIX 10 10 GLU R 126 GLY R 138 1 13 HELIX 11 11 SER R 145 ARG R 149 5 5 HELIX 12 12 GLY R 151 GLN R 165 1 15 HELIX 13 13 TYR S 575 GLU S 579 5 5 HELIX 14 14 THR S 605 THR S 614 1 10 HELIX 15 15 ASP S 620 TYR S 631 1 12 HELIX 16 16 ARG S 632 PHE S 634 5 3 HELIX 17 17 LYS S 636 GLU S 649 1 14 HELIX 18 18 THR S 656 ASN S 665 1 10 HELIX 19 19 SER S 671 TYR S 681 1 11 HELIX 20 20 TYR S 681 HIS S 700 1 20 HELIX 21 21 PHE S 701 ASP S 707 1 7 HELIX 22 22 ASP S 707 VAL S 721 1 15 HELIX 23 23 MET S 726 ALA S 743 1 18 HELIX 24 24 HIS S 780 ALA S 798 1 19 HELIX 25 25 GLN S 800 LYS S 811 5 12 HELIX 26 26 ASP S 813 SER S 818 1 6 HELIX 27 27 SER S 818 GLU S 841 1 24 HELIX 28 28 ASN S 844 LEU S 865 1 22 HELIX 29 29 ASN S 867 ASN S 879 1 13 HELIX 30 30 SER S 880 ARG S 885 1 6 HELIX 31 31 LEU S 886 GLN S 892 1 7 HELIX 32 32 PRO S 894 ILE S 922 1 29 HELIX 33 33 PHE S 930 GLY S 943 1 14 HELIX 34 34 PHE S 958 ASN S 976 1 19 HELIX 35 35 GLU S 984 ASN S 993 1 10 HELIX 36 36 MET S 1001 GLU S 1017 1 17 SHEET 1 A 6 GLU Q 37 ILE Q 46 0 SHEET 2 A 6 GLU Q 49 THR Q 58 -1 O GLU Q 49 N ILE Q 46 SHEET 3 A 6 THR Q 2 GLY Q 10 1 N TYR Q 4 O ASP Q 54 SHEET 4 A 6 GLY Q 77 ALA Q 83 1 O VAL Q 81 N VAL Q 9 SHEET 5 A 6 MET Q 111 ASN Q 116 1 O ASN Q 116 N PHE Q 82 SHEET 6 A 6 TYR Q 141 GLU Q 143 1 O ILE Q 142 N LEU Q 113 SHEET 1 B 6 ARG R 41 ILE R 46 0 SHEET 2 B 6 GLU R 49 ASP R 57 -1 O LEU R 53 N LYS R 42 SHEET 3 B 6 GLU R 3 GLY R 10 1 N TYR R 4 O ASP R 54 SHEET 4 B 6 GLY R 77 ALA R 83 1 O LEU R 79 N VAL R 9 SHEET 5 B 6 MET R 111 ASN R 116 1 O VAL R 114 N CYS R 80 SHEET 6 B 6 TYR R 141 THR R 144 1 O THR R 144 N GLY R 115 SHEET 1 C 4 ILE S 586 PHE S 588 0 SHEET 2 C 4 ILE S 601 GLY S 604 -1 O ALA S 603 N ILE S 587 SHEET 3 C 4 LYS S 953 ASN S 957 -1 O ILE S 956 N GLY S 604 SHEET 4 C 4 VAL S 947 ARG S 950 -1 N LEU S 948 O LEU S 955 LINK OG SER Q 17 MG MG Q1002 1555 1555 2.36 LINK OG1 THR Q 35 MG MG Q1002 1555 1555 2.02 LINK O2G GTP Q1001 MG MG Q1002 1555 1555 2.03 LINK O2B GTP Q1001 MG MG Q1002 1555 1555 2.15 LINK MG MG Q1002 O HOH Q1008 1555 1555 2.00 LINK MG MG Q1002 O HOH Q1011 1555 1555 2.18 CISPEP 1 PRO S 924 PRO S 925 0 0.36 CISPEP 2 ASN S 1020 PRO S 1021 0 0.32 SITE 1 AC1 5 SER Q 17 THR Q 35 GTP Q1001 HOH Q1008 SITE 2 AC1 5 HOH Q1011 SITE 1 AC2 8 GLY R 13 VAL R 14 GLY R 15 LYS R 16 SITE 2 AC2 8 SER R 17 GLY R 59 GLU R 62 HOH R1074 SITE 1 AC3 6 HOH S 127 HOH S 363 ARG S 625 HIS S 695 SITE 2 AC3 6 HIS S 699 HIS S 700 SITE 1 AC4 10 GLU R 63 SER R 127 ARG R 128 GLN R 131 SITE 2 AC4 10 HOH R1028 HOH S 372 HOH S 384 LYS S 814 SITE 3 AC4 10 GLU S 815 ARG S 826 SITE 1 AC5 5 HOH S 115 ARG S 660 TYR S 709 GLU S 716 SITE 2 AC5 5 HIS S 951 SITE 1 AC6 4 GLU Q 153 ASP Q 154 TYR Q 157 ARG Q 161 SITE 1 AC7 26 GLY Q 12 GLY Q 13 VAL Q 14 GLY Q 15 SITE 2 AC7 26 LYS Q 16 SER Q 17 ALA Q 18 PHE Q 28 SITE 3 AC7 26 VAL Q 29 ASP Q 30 TYR Q 32 PRO Q 34 SITE 4 AC7 26 THR Q 35 GLY Q 60 GLU Q 62 ASN Q 116 SITE 5 AC7 26 LYS Q 117 ASP Q 119 LEU Q 120 SER Q 145 SITE 6 AC7 26 ALA Q 146 LYS Q 147 MG Q1002 HOH Q1008 SITE 7 AC7 26 HOH Q1011 HOH Q1019 CRYST1 183.312 183.312 178.509 90.00 90.00 90.00 I 4 2 2 32 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 0.005455 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005455 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005602 0.00000