HEADER ONCOPROTEIN 18-OCT-23 8QW6 TITLE CRYSTAL STRUCTURE OF COMPOUND 3 IN COMPLEX WITH KRAS G12V C118S GDP TITLE 2 AND PVHL:ELONGINC:ELONGINB COMPND MOL_ID: 1; COMPND 2 MOLECULE: ELONGIN-B; COMPND 3 CHAIN: H, D; COMPND 4 SYNONYM: ELOB,ELONGIN 18 KDA SUBUNIT,RNA POLYMERASE II TRANSCRIPTION COMPND 5 FACTOR SIII SUBUNIT B,SIII P18,TRANSCRIPTION ELONGATION FACTOR B COMPND 6 POLYPEPTIDE 2; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: ELONGIN-C; COMPND 11 CHAIN: G, C; COMPND 12 SYNONYM: ELOC,ELONGIN 15 KDA SUBUNIT,RNA POLYMERASE II TRANSCRIPTION COMPND 13 FACTOR SIII SUBUNIT C,SIII P15,TRANSCRIPTION ELONGATION FACTOR B COMPND 14 POLYPEPTIDE 1; COMPND 15 ENGINEERED: YES; COMPND 16 MUTATION: YES; COMPND 17 MOL_ID: 3; COMPND 18 MOLECULE: VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR; COMPND 19 CHAIN: F, B; COMPND 20 SYNONYM: PROTEIN G7,PVHL; COMPND 21 ENGINEERED: YES; COMPND 22 MUTATION: YES; COMPND 23 MOL_ID: 4; COMPND 24 MOLECULE: GTPASE KRAS; COMPND 25 CHAIN: E, A; COMPND 26 SYNONYM: K-RAS 2,KI-RAS,C-K-RAS,C-KI-RAS; COMPND 27 EC: 3.6.5.2; COMPND 28 ENGINEERED: YES; COMPND 29 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: ELOB, TCEB2; 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: ELOC, TCEB1; 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: VHL; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 22 MOL_ID: 4; SOURCE 23 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 24 ORGANISM_COMMON: HUMAN; SOURCE 25 ORGANISM_TAXID: 9606; SOURCE 26 GENE: KRAS, KRAS2, RASK2; SOURCE 27 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 28 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TERNARY COMPLEX, PROTAC, DEGRADER, ONCOLOGY, ONCOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.ZOLLMAN,W.FARNABY,A.CIULLI REVDAT 1 06-DEC-23 8QW6 0 JRNL AUTH J.POPOW,W.FARNABY,A.GOLLNER,C.KOFINK,G.FISCHER,M.WURM, JRNL AUTH 2 D.ZOLLMAN,A.WIJAYA,N.MISCHERIKOW,C.HASENOEHRL,P.PROKOFEVA, JRNL AUTH 3 H.ARNHOF,S.ARCE-SOLANO,S.BELL,G.BOECK,E.DIERS,A.FROST, JRNL AUTH 4 J.GOODWIN-TINDALL,J.KAROLYI-OEZGUER,S.KHAN,T.KLAWATSCH, JRNL AUTH 5 M.KOEGL,R.KOUSEK,B.KRATOCHVIL,K.KROPATSCH,A.LAUBER, JRNL AUTH 6 R.MCLENNAN,S.OLT,D.PETER,O.PETERMANN,V.ROESSLER, JRNL AUTH 7 P.STOLT-BERGNER,P.STRACK,E.STRAUSS,N.TRAINOR,V.VETMA, JRNL AUTH 8 C.WHITWORTH,S.ZHONG,J.QUANT,H.WEINSTABL,B.KUSTER,P.ETTMAYER, JRNL AUTH 9 A.CIULLI JRNL TITL TARGETING CANCER WITH SMALL MOLECULE PAN-KRAS DEGRADERS JRNL REF BIORXIV 2023 JRNL REFN ISSN 2692-8205 JRNL DOI 10.1101/2023.10.24.563163 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.37 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 55.5 REMARK 3 NUMBER OF REFLECTIONS : 39180 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.257 REMARK 3 R VALUE (WORKING SET) : 0.255 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 46.3700 - 5.3000 0.88 4222 228 0.2212 0.2500 REMARK 3 2 5.3000 - 4.2000 0.93 4439 239 0.1938 0.2271 REMARK 3 3 4.2000 - 3.6700 0.90 4317 232 0.2213 0.2687 REMARK 3 4 3.6700 - 3.3400 0.87 4155 223 0.2640 0.3124 REMARK 3 5 3.3400 - 3.1000 0.82 3951 212 0.2929 0.3799 REMARK 3 6 3.1000 - 2.9200 0.78 3750 202 0.3443 0.3852 REMARK 3 7 2.9200 - 2.7700 0.71 3370 181 0.3441 0.3531 REMARK 3 8 2.7700 - 2.6500 0.61 2941 159 0.3589 0.3515 REMARK 3 9 2.6500 - 2.5500 0.50 2393 128 0.3502 0.3904 REMARK 3 10 2.5500 - 2.4600 0.36 1717 92 0.3622 0.3503 REMARK 3 11 2.4600 - 2.3800 0.23 1080 59 0.3476 0.3985 REMARK 3 12 2.3800 - 2.3100 0.12 566 30 0.3920 0.3749 REMARK 3 13 2.3100 - 2.2500 0.05 224 12 0.4182 0.4752 REMARK 3 14 2.2500 - 2.2000 0.01 55 3 0.3805 0.5107 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 41.569 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.98 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.29 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 : 0.025 8122 REMARK 3 ANGLE : 2.057 11049 REMARK 3 CHIRALITY : 0.139 1244 REMARK 3 PLANARITY : 0.015 1490 REMARK 3 DIHEDRAL : 17.306 3092 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 8QW6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-OCT-23. REMARK 100 THE DEPOSITION ID IS D_1292134164. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAY-19 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 8.5 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) : 1.00002 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39191 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 66.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 82.3 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.46 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 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM SODIUM CITRATE, 100 MM BIS-TRIS REMARK 280 PROPANE PH 8.5, 20% W/V POLYETHYLENE GLYCOL 3350, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, G, F, E REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, C, B, 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 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 MET G 16 REMARK 465 GLY G 48 REMARK 465 PRO G 49 REMARK 465 GLY G 50 REMARK 465 GLN G 51 REMARK 465 PHE G 52 REMARK 465 ALA G 53 REMARK 465 GLU G 54 REMARK 465 ASN G 55 REMARK 465 GLU G 56 REMARK 465 THR G 57 REMARK 465 GLY F 52 REMARK 465 SER F 53 REMARK 465 MET F 54 REMARK 465 GLU F 55 REMARK 465 ALA F 56 REMARK 465 GLY F 57 REMARK 465 ARG F 58 REMARK 465 PRO F 59 REMARK 465 ARG F 60 REMARK 465 ARG F 205 REMARK 465 ILE F 206 REMARK 465 ALA F 207 REMARK 465 HIS F 208 REMARK 465 GLN F 209 REMARK 465 ARG F 210 REMARK 465 MET F 211 REMARK 465 GLY F 212 REMARK 465 ASP F 213 REMARK 465 GLY E 0 REMARK 465 MET E 1 REMARK 465 THR E 2 REMARK 465 ASP E 119 REMARK 465 LEU E 120 REMARK 465 LYS E 128 REMARK 465 GLN E 129 REMARK 465 ARG E 149 REMARK 465 GLN E 150 REMARK 465 GLY E 151 REMARK 465 VAL E 152 REMARK 465 ASP E 153 REMARK 465 LYS E 167 REMARK 465 GLU E 168 REMARK 465 LYS E 169 REMARK 465 ASP D 83 REMARK 465 MET C 16 REMARK 465 GLY C 48 REMARK 465 PRO C 49 REMARK 465 GLY C 50 REMARK 465 GLN C 51 REMARK 465 PHE C 52 REMARK 465 ALA C 53 REMARK 465 GLU C 54 REMARK 465 ASN C 55 REMARK 465 GLU C 56 REMARK 465 THR C 57 REMARK 465 GLY B 52 REMARK 465 SER B 53 REMARK 465 MET B 54 REMARK 465 GLU B 55 REMARK 465 ALA B 56 REMARK 465 GLY B 57 REMARK 465 ARG B 58 REMARK 465 PRO B 59 REMARK 465 ILE B 206 REMARK 465 ALA B 207 REMARK 465 HIS B 208 REMARK 465 GLN B 209 REMARK 465 ARG B 210 REMARK 465 MET B 211 REMARK 465 GLY B 212 REMARK 465 ASP B 213 REMARK 465 GLY A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 GLU A 3 REMARK 465 LYS A 167 REMARK 465 GLU A 168 REMARK 465 LYS A 169 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS H 36 CG CD CE NZ REMARK 470 ARG G 63 CG CD NE CZ NH1 NH2 REMARK 470 GLN F 132 CG CD OE1 NE2 REMARK 470 LEU F 140 CG CD1 CD2 REMARK 470 ARG F 182 CG CD NE CZ NH1 NH2 REMARK 470 TYR E 4 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LEU E 19 CG CD1 CD2 REMARK 470 GLN E 22 CG CD OE1 NE2 REMARK 470 LEU E 23 CG CD1 CD2 REMARK 470 ASN E 26 CG OD1 ND2 REMARK 470 PHE E 28 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASP E 30 CG OD1 OD2 REMARK 470 LYS E 42 CG CD CE NZ REMARK 470 GLN E 43 CG CD OE1 NE2 REMARK 470 VAL E 45 CG1 CG2 REMARK 470 GLN E 61 CG CD OE1 NE2 REMARK 470 ASN E 86 CG OD1 ND2 REMARK 470 LEU E 113 CG CD1 CD2 REMARK 470 VAL E 125 CG1 CG2 REMARK 470 GLN E 131 CG CD OE1 NE2 REMARK 470 ASP E 132 CG OD1 OD2 REMARK 470 ILE E 142 CG1 CG2 CD1 REMARK 470 GLU E 143 CG CD OE1 OE2 REMARK 470 LYS E 147 CG CD CE NZ REMARK 470 ASP E 154 CG OD1 OD2 REMARK 470 THR E 158 OG1 CG2 REMARK 470 ARG E 161 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 9 CG CD NE CZ NH1 NH2 REMARK 470 LEU D 51 CG CD1 CD2 REMARK 470 GLU D 59 CG CD OE1 OE2 REMARK 470 ILE D 90 CG1 CG2 CD1 REMARK 470 GLU D 98 CG CD OE1 OE2 REMARK 470 LYS C 20 CG CD CE NZ REMARK 470 ARG C 33 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 63 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 64 CG CD OE1 OE2 REMARK 470 GLN B 132 CG CD OE1 NE2 REMARK 470 LEU A 23 CG CD1 CD2 REMARK 470 ILE A 36 CG1 CG2 CD1 REMARK 470 VAL A 44 CG1 CG2 REMARK 470 VAL A 45 CG1 CG2 REMARK 470 LYS A 128 CG CD CE NZ REMARK 470 ASP A 132 CG OD1 OD2 REMARK 470 LYS A 147 CG CD CE NZ REMARK 470 ARG A 149 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 150 CG CD OE1 NE2 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 HIS H 10 -123.47 48.96 REMARK 500 ASP H 47 -115.89 58.58 REMARK 500 ALA H 71 67.72 -166.71 REMARK 500 ASP H 82 -116.83 57.07 REMARK 500 ASP G 25 34.20 -88.53 REMARK 500 LEU G 46 60.48 -117.84 REMARK 500 ARG F 69 15.69 55.76 REMARK 500 ARG F 79 48.07 -90.76 REMARK 500 SER F 111 -160.94 -113.18 REMARK 500 ASN E 26 12.06 50.93 REMARK 500 PRO E 34 23.91 -79.05 REMARK 500 PHE E 90 1.64 -66.81 REMARK 500 PRO E 140 -169.13 -70.10 REMARK 500 HIS D 10 -115.17 55.86 REMARK 500 ASP D 47 -114.41 55.79 REMARK 500 ASP C 25 0.55 -69.18 REMARK 500 LEU C 46 -156.25 -99.90 REMARK 500 ARG B 79 35.72 -99.11 REMARK 500 SER B 111 -164.33 -116.10 REMARK 500 PRO A 34 39.95 -77.45 REMARK 500 THR A 35 28.22 -147.15 REMARK 500 LYS A 147 -61.14 -90.06 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 E 203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER E 17 OG REMARK 620 2 ASP E 33 O 165.9 REMARK 620 N 1 DBREF 8QW6 H 1 104 UNP Q15370 ELOB_HUMAN 1 104 DBREF 8QW6 G 17 112 UNP Q15369 ELOC_HUMAN 17 112 DBREF 8QW6 F 54 213 UNP P40337 VHL_HUMAN 54 213 DBREF 8QW6 E 1 169 UNP P01116 RASK_HUMAN 1 169 DBREF 8QW6 D 1 104 UNP Q15370 ELOB_HUMAN 1 104 DBREF 8QW6 C 17 112 UNP Q15369 ELOC_HUMAN 17 112 DBREF 8QW6 B 54 213 UNP P40337 VHL_HUMAN 54 213 DBREF 8QW6 A 1 169 UNP P01116 RASK_HUMAN 1 169 SEQADV 8QW6 MET G 16 UNP Q15369 INITIATING METHIONINE SEQADV 8QW6 GLY F 52 UNP P40337 EXPRESSION TAG SEQADV 8QW6 SER F 53 UNP P40337 EXPRESSION TAG SEQADV 8QW6 GLY E 0 UNP P01116 EXPRESSION TAG SEQADV 8QW6 VAL E 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQADV 8QW6 SER E 118 UNP P01116 CYS 118 ENGINEERED MUTATION SEQADV 8QW6 MET C 16 UNP Q15369 INITIATING METHIONINE SEQADV 8QW6 GLY B 52 UNP P40337 EXPRESSION TAG SEQADV 8QW6 SER B 53 UNP P40337 EXPRESSION TAG SEQADV 8QW6 GLY A 0 UNP P01116 EXPRESSION TAG SEQADV 8QW6 VAL A 12 UNP P01116 GLY 12 ENGINEERED MUTATION SEQADV 8QW6 SER A 118 UNP P01116 CYS 118 ENGINEERED MUTATION SEQRES 1 H 104 MET ASP VAL PHE LEU MET ILE ARG ARG HIS LYS THR THR SEQRES 2 H 104 ILE PHE THR ASP ALA LYS GLU SER SER THR VAL PHE GLU SEQRES 3 H 104 LEU LYS ARG ILE VAL GLU GLY ILE LEU LYS ARG PRO PRO SEQRES 4 H 104 ASP GLU GLN ARG LEU TYR LYS ASP ASP GLN LEU LEU ASP SEQRES 5 H 104 ASP GLY LYS THR LEU GLY GLU CYS GLY PHE THR SER GLN SEQRES 6 H 104 THR ALA ARG PRO GLN ALA PRO ALA THR VAL GLY LEU ALA SEQRES 7 H 104 PHE ARG ALA ASP ASP THR PHE GLU ALA LEU CYS ILE GLU SEQRES 8 H 104 PRO PHE SER SER PRO PRO GLU LEU PRO ASP VAL MET LYS SEQRES 1 G 97 MET MET TYR VAL LYS LEU ILE SER SER ASP GLY HIS GLU SEQRES 2 G 97 PHE ILE VAL LYS ARG GLU HIS ALA LEU THR SER GLY THR SEQRES 3 G 97 ILE LYS ALA MET LEU SER GLY PRO GLY GLN PHE ALA GLU SEQRES 4 G 97 ASN GLU THR ASN GLU VAL ASN PHE ARG GLU ILE PRO SER SEQRES 5 G 97 HIS VAL LEU SER LYS VAL CYS MET TYR PHE THR TYR LYS SEQRES 6 G 97 VAL ARG TYR THR ASN SER SER THR GLU ILE PRO GLU PHE SEQRES 7 G 97 PRO ILE ALA PRO GLU ILE ALA LEU GLU LEU LEU MET ALA SEQRES 8 G 97 ALA ASN PHE LEU ASP CYS SEQRES 1 F 162 GLY SER MET GLU ALA GLY ARG PRO ARG PRO VAL LEU ARG SEQRES 2 F 162 SER VAL ASN SER ARG GLU PRO SER GLN VAL ILE PHE CYS SEQRES 3 F 162 ASN ARG SER PRO ARG VAL VAL LEU PRO VAL TRP LEU ASN SEQRES 4 F 162 PHE ASP GLY GLU PRO GLN PRO TYR PRO THR LEU PRO PRO SEQRES 5 F 162 GLY THR GLY ARG ARG ILE HIS SER TYR ARG GLY HIS LEU SEQRES 6 F 162 TRP LEU PHE ARG ASP ALA GLY THR HIS ASP GLY LEU LEU SEQRES 7 F 162 VAL ASN GLN THR GLU LEU PHE VAL PRO SER LEU ASN VAL SEQRES 8 F 162 ASP GLY GLN PRO ILE PHE ALA ASN ILE THR LEU PRO VAL SEQRES 9 F 162 TYR THR LEU LYS GLU ARG CYS LEU GLN VAL VAL ARG SER SEQRES 10 F 162 LEU VAL LYS PRO GLU ASN TYR ARG ARG LEU ASP ILE VAL SEQRES 11 F 162 ARG SER LEU TYR GLU ASP LEU GLU ASP HIS PRO ASN VAL SEQRES 12 F 162 GLN LYS ASP LEU GLU ARG LEU THR GLN GLU ARG ILE ALA SEQRES 13 F 162 HIS GLN ARG MET GLY ASP SEQRES 1 E 170 GLY MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA VAL SEQRES 2 E 170 GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN SEQRES 3 E 170 ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SEQRES 4 E 170 SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS SEQRES 5 E 170 LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SEQRES 6 E 170 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 E 170 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 E 170 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 E 170 LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN SEQRES 10 E 170 LYS SER ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN SEQRES 11 E 170 ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE SEQRES 12 E 170 GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP ASP ALA SEQRES 13 E 170 PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS LYS GLU SEQRES 14 E 170 LYS SEQRES 1 D 104 MET ASP VAL PHE LEU MET ILE ARG ARG HIS LYS THR THR SEQRES 2 D 104 ILE PHE THR ASP ALA LYS GLU SER SER THR VAL PHE GLU SEQRES 3 D 104 LEU LYS ARG ILE VAL GLU GLY ILE LEU LYS ARG PRO PRO SEQRES 4 D 104 ASP GLU GLN ARG LEU TYR LYS ASP ASP GLN LEU LEU ASP SEQRES 5 D 104 ASP GLY LYS THR LEU GLY GLU CYS GLY PHE THR SER GLN SEQRES 6 D 104 THR ALA ARG PRO GLN ALA PRO ALA THR VAL GLY LEU ALA SEQRES 7 D 104 PHE ARG ALA ASP ASP THR PHE GLU ALA LEU CYS ILE GLU SEQRES 8 D 104 PRO PHE SER SER PRO PRO GLU LEU PRO ASP VAL MET LYS SEQRES 1 C 97 MET MET TYR VAL LYS LEU ILE SER SER ASP GLY HIS GLU SEQRES 2 C 97 PHE ILE VAL LYS ARG GLU HIS ALA LEU THR SER GLY THR SEQRES 3 C 97 ILE LYS ALA MET LEU SER GLY PRO GLY GLN PHE ALA GLU SEQRES 4 C 97 ASN GLU THR ASN GLU VAL ASN PHE ARG GLU ILE PRO SER SEQRES 5 C 97 HIS VAL LEU SER LYS VAL CYS MET TYR PHE THR TYR LYS SEQRES 6 C 97 VAL ARG TYR THR ASN SER SER THR GLU ILE PRO GLU PHE SEQRES 7 C 97 PRO ILE ALA PRO GLU ILE ALA LEU GLU LEU LEU MET ALA SEQRES 8 C 97 ALA ASN PHE LEU ASP CYS SEQRES 1 B 162 GLY SER MET GLU ALA GLY ARG PRO ARG PRO VAL LEU ARG SEQRES 2 B 162 SER VAL ASN SER ARG GLU PRO SER GLN VAL ILE PHE CYS SEQRES 3 B 162 ASN ARG SER PRO ARG VAL VAL LEU PRO VAL TRP LEU ASN SEQRES 4 B 162 PHE ASP GLY GLU PRO GLN PRO TYR PRO THR LEU PRO PRO SEQRES 5 B 162 GLY THR GLY ARG ARG ILE HIS SER TYR ARG GLY HIS LEU SEQRES 6 B 162 TRP LEU PHE ARG ASP ALA GLY THR HIS ASP GLY LEU LEU SEQRES 7 B 162 VAL ASN GLN THR GLU LEU PHE VAL PRO SER LEU ASN VAL SEQRES 8 B 162 ASP GLY GLN PRO ILE PHE ALA ASN ILE THR LEU PRO VAL SEQRES 9 B 162 TYR THR LEU LYS GLU ARG CYS LEU GLN VAL VAL ARG SER SEQRES 10 B 162 LEU VAL LYS PRO GLU ASN TYR ARG ARG LEU ASP ILE VAL SEQRES 11 B 162 ARG SER LEU TYR GLU ASP LEU GLU ASP HIS PRO ASN VAL SEQRES 12 B 162 GLN LYS ASP LEU GLU ARG LEU THR GLN GLU ARG ILE ALA SEQRES 13 B 162 HIS GLN ARG MET GLY ASP SEQRES 1 A 170 GLY MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA VAL SEQRES 2 A 170 GLY VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN SEQRES 3 A 170 ASN HIS PHE VAL ASP GLU TYR ASP PRO THR ILE GLU ASP SEQRES 4 A 170 SER TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS SEQRES 5 A 170 LEU LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SEQRES 6 A 170 SER ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY SEQRES 7 A 170 PHE LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE SEQRES 8 A 170 GLU ASP ILE HIS HIS TYR ARG GLU GLN ILE LYS ARG VAL SEQRES 9 A 170 LYS ASP SER GLU ASP VAL PRO MET VAL LEU VAL GLY ASN SEQRES 10 A 170 LYS SER ASP LEU PRO SER ARG THR VAL ASP THR LYS GLN SEQRES 11 A 170 ALA GLN ASP LEU ALA ARG SER TYR GLY ILE PRO PHE ILE SEQRES 12 A 170 GLU THR SER ALA LYS THR ARG GLN GLY VAL ASP ASP ALA SEQRES 13 A 170 PHE TYR THR LEU VAL ARG GLU ILE ARG LYS HIS LYS GLU SEQRES 14 A 170 LYS HET GDP E 201 28 HET X4R E 202 69 HET MG E 203 1 HET GDP A 201 28 HET X4R A 202 69 HET MG A 203 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM X4R (2S,4R)-1-[(2S)-2-[6-[(3S)-4-[4-[5-[(4S)-2-AZANYL-3- HETNAM 2 X4R CYANO-4-METHYL-6,7-DIHYDRO-5H-1-BENZOTHIOPHEN-4-YL]-1, HETNAM 3 X4R 2,4-OXADIAZOL-3-YL]PYRIMIDIN-2-YL]-3-METHYL-1,4- HETNAM 4 X4R DIAZEPAN-1-YL]HEXANOYLAMINO]-3,3-DIMETHYL-BUTANOYL]-N- HETNAM 5 X4R [[4-(4-METHYL-1,3-THIAZOL-5-YL)PHENYL]METHYL]-4- HETNAM 6 X4R OXIDANYL-PYRROLIDINE-2-CARBOXAMIDE HETNAM MG MAGNESIUM ION FORMUL 9 GDP 2(C10 H15 N5 O11 P2) FORMUL 10 X4R 2(C50 H64 N12 O5 S2) FORMUL 11 MG 2(MG 2+) FORMUL 15 HOH *48(H2 O) HELIX 1 AA1 THR H 23 LYS H 36 1 14 HELIX 2 AA2 PRO H 38 ASP H 40 5 3 HELIX 3 AA3 THR H 56 GLY H 61 1 6 HELIX 4 AA4 PRO H 100 LYS H 104 5 5 HELIX 5 AA5 ARG G 33 LEU G 37 1 5 HELIX 6 AA6 SER G 39 LEU G 46 1 8 HELIX 7 AA7 PRO G 66 THR G 84 1 19 HELIX 8 AA8 ILE G 99 ASP G 111 1 13 HELIX 9 AA9 THR F 157 VAL F 170 1 14 HELIX 10 AB1 LYS F 171 LEU F 178 5 8 HELIX 11 AB2 VAL F 181 ASP F 190 1 10 HELIX 12 AB3 ASN F 193 GLU F 204 1 12 HELIX 13 AB4 GLY E 15 ASN E 26 1 12 HELIX 14 AB5 SER E 65 ARG E 73 1 9 HELIX 15 AB6 LYS E 88 LYS E 104 1 17 HELIX 16 AB7 GLN E 131 GLY E 138 1 8 HELIX 17 AB8 PHE E 156 HIS E 166 1 11 HELIX 18 AB9 THR D 23 LYS D 36 1 14 HELIX 19 AC1 LYS C 32 LEU C 37 1 6 HELIX 20 AC2 SER C 39 LEU C 46 1 8 HELIX 21 AC3 PRO C 66 THR C 84 1 19 HELIX 22 AC4 ALA C 96 ASP C 111 1 16 HELIX 23 AC5 ASN B 141 GLN B 145 5 5 HELIX 24 AC6 THR B 157 VAL B 170 1 14 HELIX 25 AC7 LYS B 171 LEU B 178 5 8 HELIX 26 AC8 VAL B 181 ASP B 190 1 10 HELIX 27 AC9 ASN B 193 ARG B 205 1 13 HELIX 28 AD1 GLY A 15 GLN A 25 1 11 HELIX 29 AD2 SER A 65 THR A 74 1 10 HELIX 30 AD3 ASN A 86 LYS A 104 1 19 HELIX 31 AD4 ASP A 126 GLY A 138 1 13 HELIX 32 AD5 GLY A 151 HIS A 166 1 16 SHEET 1 AA1 4 GLN H 49 LEU H 50 0 SHEET 2 AA1 4 GLN H 42 LYS H 46 -1 N LYS H 46 O GLN H 49 SHEET 3 AA1 4 ALA H 73 ALA H 81 -1 O GLY H 76 N TYR H 45 SHEET 4 AA1 4 THR H 84 PHE H 85 -1 O THR H 84 N ALA H 81 SHEET 1 AA2 8 GLN H 49 LEU H 50 0 SHEET 2 AA2 8 GLN H 42 LYS H 46 -1 N LYS H 46 O GLN H 49 SHEET 3 AA2 8 ALA H 73 ALA H 81 -1 O GLY H 76 N TYR H 45 SHEET 4 AA2 8 ASP H 2 ARG H 9 1 N ARG H 8 O LEU H 77 SHEET 5 AA2 8 THR H 12 LYS H 19 -1 O ALA H 18 N VAL H 3 SHEET 6 AA2 8 GLU G 28 LYS G 32 1 O GLU G 28 N THR H 13 SHEET 7 AA2 8 TYR G 18 ILE G 22 -1 N LEU G 21 O PHE G 29 SHEET 8 AA2 8 GLU G 59 ASN G 61 1 O VAL G 60 N LYS G 20 SHEET 1 AA3 4 GLY F 106 TYR F 112 0 SHEET 2 AA3 4 PRO F 71 ASN F 78 -1 N SER F 72 O SER F 111 SHEET 3 AA3 4 ILE F 147 THR F 152 1 O ALA F 149 N ILE F 75 SHEET 4 AA3 4 LEU F 129 VAL F 130 -1 N LEU F 129 O THR F 152 SHEET 1 AA4 3 PRO F 95 PRO F 97 0 SHEET 2 AA4 3 VAL F 84 LEU F 89 -1 N TRP F 88 O GLN F 96 SHEET 3 AA4 3 LEU F 116 ASP F 121 -1 O ARG F 120 N LEU F 85 SHEET 1 AA5 5 SER E 39 ARG E 41 0 SHEET 2 AA5 5 ASP E 54 ASP E 57 -1 O ILE E 55 N TYR E 40 SHEET 3 AA5 5 LEU E 6 GLY E 10 1 N LEU E 6 O LEU E 56 SHEET 4 AA5 5 GLY E 77 ALA E 83 1 O LEU E 79 N VAL E 9 SHEET 5 AA5 5 MET E 111 ASN E 116 1 O VAL E 114 N PHE E 82 SHEET 1 AA6 8 GLN D 49 LEU D 50 0 SHEET 2 AA6 8 GLN D 42 LYS D 46 -1 N LYS D 46 O GLN D 49 SHEET 3 AA6 8 ALA D 73 PHE D 79 -1 O GLY D 76 N TYR D 45 SHEET 4 AA6 8 ASP D 2 ARG D 9 1 N MET D 6 O ALA D 73 SHEET 5 AA6 8 THR D 12 LYS D 19 -1 O THR D 16 N LEU D 5 SHEET 6 AA6 8 GLU C 28 VAL C 31 1 O ILE C 30 N THR D 13 SHEET 7 AA6 8 VAL C 19 ILE C 22 -1 N LEU C 21 O PHE C 29 SHEET 8 AA6 8 GLU C 59 ASN C 61 1 O VAL C 60 N ILE C 22 SHEET 1 AA7 4 GLY B 106 TYR B 112 0 SHEET 2 AA7 4 PRO B 71 ASN B 78 -1 N PHE B 76 O ARG B 107 SHEET 3 AA7 4 ILE B 147 THR B 152 1 O ILE B 151 N CYS B 77 SHEET 4 AA7 4 LEU B 129 VAL B 130 -1 N LEU B 129 O THR B 152 SHEET 1 AA8 3 PRO B 95 PRO B 97 0 SHEET 2 AA8 3 VAL B 84 LEU B 89 -1 N TRP B 88 O GLN B 96 SHEET 3 AA8 3 TRP B 117 ASP B 121 -1 O LEU B 118 N VAL B 87 SHEET 1 AA9 6 ASP A 38 ILE A 46 0 SHEET 2 AA9 6 GLU A 49 ASP A 57 -1 O GLU A 49 N ILE A 46 SHEET 3 AA9 6 LYS A 5 GLY A 10 1 N LEU A 6 O ASP A 54 SHEET 4 AA9 6 GLY A 77 ALA A 83 1 O VAL A 81 N VAL A 9 SHEET 5 AA9 6 MET A 111 ASN A 116 1 O ASN A 116 N PHE A 82 SHEET 6 AA9 6 PHE A 141 GLU A 143 1 O ILE A 142 N GLY A 115 LINK OG SER E 17 MG MG E 203 1555 1555 2.42 LINK O ASP E 33 MG MG E 203 1555 1555 2.34 LINK O2B GDP A 201 MG MG A 203 1555 1555 2.96 CRYST1 70.207 72.298 80.794 112.25 100.61 100.57 P 1 2 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014244 0.002658 0.004205 0.00000 SCALE2 0.000000 0.014070 0.006641 0.00000 SCALE3 0.000000 0.000000 0.013925 0.00000