PDB Short entry for 4NYJ HEADER SIGNALING PROTEIN 10-DEC-13 4NYJ TITLE APPROACH FOR TARGETING RAS WITH SMALL MOLECULES THAT ACTIVATE SOS- TITLE 2 MEDIATED NUCLEOTIDE EXCHANGE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE HRAS; COMPND 3 CHAIN: Q; COMPND 4 SYNONYM: H-RAS-1, HA-RAS, TRANSFORMING PROTEIN P21, C-H-RAS, P21RAS, COMPND 5 GTPASE HRAS, N-TERMINALLY PROCESSED; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: GTPASE HRAS; COMPND 10 CHAIN: R; COMPND 11 SYNONYM: H-RAS-1, HA-RAS, TRANSFORMING PROTEIN P21, C-H-RAS, P21RAS, COMPND 12 GTPASE HRAS, N-TERMINALLY PROCESSED; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: SON OF SEVENLESS HOMOLOG 1; COMPND 16 CHAIN: S; COMPND 17 SYNONYM: SOS-1; COMPND 18 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, HRAS1; 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: HRAS, HRAS1; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: SOS1; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GTPASE, SIGNALING TRANSDUCTION, RAF, RALGDS, PI3K, CYTOSOL, SIGNALING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.C.BURNS,Q.SUN,J.PHAN,S.W.FESIK REVDAT 2 19-MAR-14 4NYJ 1 JRNL REVDAT 1 12-MAR-14 4NYJ 0 JRNL AUTH M.C.BURNS,Q.SUN,R.N.DANIELS,D.CAMPER,J.P.KENNEDY,J.PHAN, JRNL AUTH 2 E.T.OLEJNICZAK,T.LEE,A.G.WATERSON,O.W.ROSSANESE,S.W.FESIK JRNL TITL APPROACH FOR TARGETING RAS WITH SMALL MOLECULES THAT JRNL TITL 2 ACTIVATE SOS-MEDIATED NUCLEOTIDE EXCHANGE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 111 3401 2014 JRNL REFN ISSN 0027-8424 JRNL PMID 24550516 JRNL DOI 10.1073/PNAS.1315798111 REMARK 2 REMARK 2 RESOLUTION. 2.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.4_1496) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.98 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 36179 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1820 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 42.9892 - 6.6987 0.99 2834 150 0.1594 0.1671 REMARK 3 2 6.6987 - 5.3201 1.00 2718 144 0.1702 0.2151 REMARK 3 3 5.3201 - 4.6485 1.00 2698 142 0.1287 0.1470 REMARK 3 4 4.6485 - 4.2239 1.00 2680 140 0.1132 0.1509 REMARK 3 5 4.2239 - 3.9214 1.00 2657 143 0.1275 0.1699 REMARK 3 6 3.9214 - 3.6903 0.96 2545 133 0.1474 0.1911 REMARK 3 7 3.6903 - 3.5056 0.91 2438 129 0.1813 0.2224 REMARK 3 8 3.5056 - 3.3530 1.00 2649 146 0.1650 0.1910 REMARK 3 9 3.3530 - 3.2240 1.00 2607 142 0.1704 0.2173 REMARK 3 10 3.2240 - 3.1128 1.00 2651 136 0.1751 0.2335 REMARK 3 11 3.1128 - 3.0155 1.00 2635 145 0.1914 0.1907 REMARK 3 12 3.0155 - 2.9293 1.00 2623 139 0.1951 0.2312 REMARK 3 13 2.9293 - 2.8522 0.99 2624 131 0.2062 0.2333 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.630 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 6780 REMARK 3 ANGLE : 1.094 9183 REMARK 3 CHIRALITY : 0.047 1008 REMARK 3 PLANARITY : 0.005 1194 REMARK 3 DIHEDRAL : 15.730 2610 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4NYJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-DEC-13. REMARK 100 THE RCSB ID CODE IS RCSB083816. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36204 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 42.984 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 1NVV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE, 2.0 M SODIUM REMARK 280 FORMATE, PH 4.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 92.66900 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 92.66900 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 89.76750 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 92.66900 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 92.66900 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 89.76750 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 92.66900 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 92.66900 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 89.76750 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 92.66900 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 92.66900 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 89.76750 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 92.66900 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 92.66900 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 89.76750 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 92.66900 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 92.66900 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 89.76750 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 92.66900 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 92.66900 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 89.76750 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 92.66900 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 92.66900 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 89.76750 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 36160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 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 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 S1287 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 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 465 HIS S 750 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 NH1 ARG R 73 O ASN S 879 2.16 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 -61.94 -100.41 REMARK 500 GLU Q 37 116.51 -163.74 REMARK 500 ALA Q 122 76.22 -69.12 REMARK 500 ASN R 26 84.50 -43.55 REMARK 500 HIS R 27 32.41 -71.26 REMARK 500 GLU R 31 75.16 -48.82 REMARK 500 THR R 58 31.28 -97.17 REMARK 500 ASP R 119 -153.95 -161.54 REMARK 500 THR S 614 37.09 -143.68 REMARK 500 HIS S 700 40.65 -143.55 REMARK 500 HIS S 764 -118.13 -119.97 REMARK 500 GLU S1017 77.05 -150.61 REMARK 500 ASN S1044 88.66 -165.40 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 Q 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GNP Q 202 O1G REMARK 620 2 THR Q 35 OG1 92.2 REMARK 620 3 GNP Q 202 O1B 87.1 171.4 REMARK 620 4 SER Q 17 OG 173.8 84.7 95.0 REMARK 620 5 HOH Q 309 O 86.3 90.8 80.6 88.4 REMARK 620 6 HOH Q 310 O 86.7 96.9 91.6 99.0 169.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG Q 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNP Q 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2PZ S 1101 DBREF 4NYJ Q 1 166 UNP P01112 RASH_HUMAN 1 166 DBREF 4NYJ R 1 166 UNP P01112 RASH_HUMAN 1 166 DBREF 4NYJ S 566 1046 UNP Q07889 SOS1_HUMAN 566 1046 SEQADV 4NYJ ALA Q 64 UNP P01112 TYR 64 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 ALA GLY GLN GLU GLU ALA 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 ALA 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 Q 201 1 HET GNP Q 202 32 HET 2PZ S1101 21 HETNAM MG MAGNESIUM ION HETNAM GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER HETNAM 2PZ N-[1-(1H-INDOL-3-YLMETHYL)PIPERIDIN-4-YL]GLYCINAMIDE FORMUL 4 MG MG 2+ FORMUL 5 GNP C10 H17 N6 O13 P3 FORMUL 6 2PZ C16 H22 N4 O FORMUL 7 HOH *125(H2 O) HELIX 1 1 GLY Q 15 ASN Q 26 1 12 HELIX 2 2 GLN Q 61 SER Q 65 5 5 HELIX 3 3 ARG Q 68 GLY Q 75 1 8 HELIX 4 4 ASN Q 86 LYS Q 104 1 19 HELIX 5 5 GLU Q 126 GLY Q 138 1 13 HELIX 6 6 GLY Q 151 GLN Q 165 1 15 HELIX 7 7 SER R 17 GLN R 25 1 9 HELIX 8 8 TYR R 64 ALA R 66 5 3 HELIX 9 9 MET R 67 ARG R 73 1 7 HELIX 10 10 ASN R 86 ASP R 92 1 7 HELIX 11 11 ASP R 92 ASP R 105 1 14 HELIX 12 12 GLU R 126 GLY R 138 1 13 HELIX 13 13 GLY R 151 GLN R 165 1 15 HELIX 14 14 TYR S 575 GLU S 579 5 5 HELIX 15 15 THR S 605 THR S 614 1 10 HELIX 16 16 ASP S 620 TYR S 631 1 12 HELIX 17 17 ARG S 632 PHE S 634 5 3 HELIX 18 18 LYS S 636 GLU S 649 1 14 HELIX 19 19 THR S 656 GLU S 664 1 9 HELIX 20 20 SER S 671 TYR S 681 1 11 HELIX 21 21 TYR S 681 HIS S 700 1 20 HELIX 22 22 PHE S 701 ARG S 706 1 6 HELIX 23 23 ASP S 707 THR S 720 1 14 HELIX 24 24 MET S 726 ALA S 743 1 18 HELIX 25 25 HIS S 780 ALA S 798 1 19 HELIX 26 26 VAL S 799 LEU S 804 5 6 HELIX 27 27 SER S 807 LYS S 811 5 5 HELIX 28 28 ASP S 813 SER S 818 1 6 HELIX 29 29 SER S 818 GLU S 841 1 24 HELIX 30 30 ASN S 844 ASN S 866 1 23 HELIX 31 31 ASN S 867 ASN S 879 1 13 HELIX 32 32 SER S 880 ARG S 885 1 6 HELIX 33 33 LEU S 886 GLN S 892 1 7 HELIX 34 34 PRO S 894 LEU S 907 1 14 HELIX 35 35 SER S 908 ARG S 920 1 13 HELIX 36 36 PHE S 930 ASN S 944 1 15 HELIX 37 37 PHE S 958 TYR S 974 1 17 HELIX 38 38 GLU S 984 ASN S 993 1 10 HELIX 39 39 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 LEU Q 53 N LYS Q 42 SHEET 3 A 6 THR Q 2 VAL Q 9 1 N TYR Q 4 O ASP Q 54 SHEET 4 A 6 GLY Q 77 ALA Q 83 1 O LEU Q 79 N VAL Q 7 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 LYS R 117 1 O VAL R 112 N CYS R 80 SHEET 6 B 6 TYR R 141 SER R 145 1 O THR R 144 N LYS R 117 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 MG MG Q 201 O1G GNP Q 202 1555 1555 1.95 LINK OG1 THR Q 35 MG MG Q 201 1555 1555 1.99 LINK MG MG Q 201 O1B GNP Q 202 1555 1555 2.06 LINK OG SER Q 17 MG MG Q 201 1555 1555 2.13 LINK MG MG Q 201 O HOH Q 309 1555 1555 1.94 LINK MG MG Q 201 O HOH Q 310 1555 1555 2.04 CISPEP 1 PRO S 924 PRO S 925 0 3.43 CISPEP 2 ASN S 1020 PRO S 1021 0 6.17 SITE 1 AC1 6 SER Q 17 THR Q 35 ASP Q 57 GNP Q 202 SITE 2 AC1 6 HOH Q 309 HOH Q 310 SITE 1 AC2 23 GLY Q 13 VAL Q 14 GLY Q 15 LYS Q 16 SITE 2 AC2 23 SER Q 17 ALA Q 18 PHE Q 28 VAL Q 29 SITE 3 AC2 23 ASP Q 30 GLU Q 31 TYR Q 32 PRO Q 34 SITE 4 AC2 23 THR Q 35 GLY Q 60 GLN Q 61 ASN Q 116 SITE 5 AC2 23 LYS Q 117 ASP Q 119 SER Q 145 ALA Q 146 SITE 6 AC2 23 MG Q 201 HOH Q 309 HOH Q 310 SITE 1 AC3 5 MET S 878 ASN S 879 TYR S 884 ASP S 887 SITE 2 AC3 5 PHE S 890 CRYST1 185.338 185.338 179.535 90.00 90.00 90.00 I 4 2 2 16 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 0.005396 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005396 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005570 0.00000