PDB Short entry for 7JUS HEADER TRANSFERASE/TRANSFERASE INHIBITOR 20-AUG-20 7JUS TITLE CRYSTAL STRUCTURE OF KSR2:MEK1 IN COMPLEX WITH AMP-PNP, AND ALLOSTERIC TITLE 2 MEK INHIBITOR COBIMETINIB COMPND MOL_ID: 1; COMPND 2 MOLECULE: KINASE SUPPRESSOR OF RAS 2; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: HKSR2; COMPND 5 EC: 2.7.11.1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 1; COMPND 9 CHAIN: C; COMPND 10 SYNONYM: MAPKK 1,ERK ACTIVATOR KINASE 1,MAPK/ERK KINASE 1,MEK 1; COMPND 11 EC: 2.7.12.2; COMPND 12 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: KSR2; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 10 ORGANISM_COMMON: RABBIT; SOURCE 11 ORGANISM_TAXID: 9986; SOURCE 12 GENE: MAP2K1, MEK1, PRKMK1; SOURCE 13 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS KINASE, PSEUDOKINASE, DRUG TARGET, CELL SIGNALING AND CANCER, KEYWDS 2 TRANSFERASE, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Z.M.KHAN,A.C.DAR REVDAT 3 18-OCT-23 7JUS 1 REMARK REVDAT 2 30-DEC-20 7JUS 1 JRNL REVDAT 1 30-SEP-20 7JUS 0 JRNL AUTH Z.M.KHAN,A.M.REAL,W.M.MARSIGLIA,A.CHOW,M.E.DUFFY, JRNL AUTH 2 J.R.YERABOLU,A.P.SCOPTON,A.C.DAR JRNL TITL STRUCTURAL BASIS FOR THE ACTION OF THE DRUG TRAMETINIB AT JRNL TITL 2 KSR-BOUND MEK. JRNL REF NATURE V. 588 509 2020 JRNL REFN ESSN 1476-4687 JRNL PMID 32927473 JRNL DOI 10.1038/S41586-020-2760-4 REMARK 2 REMARK 2 RESOLUTION. 2.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14RC1_3177) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 28127 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.249 REMARK 3 R VALUE (WORKING SET) : 0.248 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.910 REMARK 3 FREE R VALUE TEST SET COUNT : 1382 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 46.7240 - 6.3004 1.00 2913 140 0.2141 0.2244 REMARK 3 2 6.3004 - 5.0027 1.00 2728 137 0.0000 0.0000 REMARK 3 3 5.0027 - 4.3709 1.00 2698 136 0.2251 0.2474 REMARK 3 4 4.3709 - 3.9715 1.00 2666 157 0.2410 0.2641 REMARK 3 5 3.9715 - 3.6869 1.00 2613 148 0.2606 0.2857 REMARK 3 6 3.6869 - 3.4696 1.00 2653 144 0.2847 0.2977 REMARK 3 7 3.4696 - 3.2959 1.00 2623 145 0.3122 0.3647 REMARK 3 8 3.2959 - 3.1525 1.00 2632 127 0.3072 0.3545 REMARK 3 9 3.1525 - 3.0311 1.00 2611 132 0.3412 0.3685 REMARK 3 10 3.0311 - 2.9900 0.99 2608 116 0.3529 0.3633 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) : 0.440 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.080 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 : 0.013 4847 REMARK 3 ANGLE : 1.813 6548 REMARK 3 CHIRALITY : 0.112 717 REMARK 3 PLANARITY : 0.011 820 REMARK 3 DIHEDRAL : 10.157 2914 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 7JUS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-AUG-20. REMARK 100 THE DEPOSITION ID IS D_1000246521. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : NULL 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) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28132 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.990 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 11.98 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.2600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.07 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: PHASER REMARK 200 STARTING MODEL: 2Y4I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 2000, MES, PH 6.5, MAGNESIUM REMARK 280 ACETATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 73.33333 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 146.66667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 110.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 183.33333 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 36.66667 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 73.33333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 146.66667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 183.33333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 110.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 36.66667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 B 609 REMARK 465 SER B 610 REMARK 465 TYR B 611 REMARK 465 TYR B 612 REMARK 465 HIS B 613 REMARK 465 HIS B 614 REMARK 465 HIS B 615 REMARK 465 HIS B 616 REMARK 465 HIS B 617 REMARK 465 HIS B 618 REMARK 465 ASP B 619 REMARK 465 TYR B 620 REMARK 465 ASP B 621 REMARK 465 ILE B 622 REMARK 465 PRO B 623 REMARK 465 THR B 624 REMARK 465 THR B 625 REMARK 465 GLU B 626 REMARK 465 ASN B 627 REMARK 465 LEU B 628 REMARK 465 TYR B 629 REMARK 465 PHE B 630 REMARK 465 GLN B 631 REMARK 465 GLY B 632 REMARK 465 ALA B 633 REMARK 465 GLU B 634 REMARK 465 MET B 635 REMARK 465 ASN B 636 REMARK 465 LEU B 637 REMARK 465 SER B 638 REMARK 465 LEU B 639 REMARK 465 LEU B 640 REMARK 465 SER B 641 REMARK 465 ALA B 642 REMARK 465 ARG B 643 REMARK 465 SER B 644 REMARK 465 PHE B 645 REMARK 465 PRO B 646 REMARK 465 ARG B 647 REMARK 465 LYS B 648 REMARK 465 ALA B 649 REMARK 465 SER B 650 REMARK 465 GLN B 651 REMARK 465 HIS B 686 REMARK 465 ALA B 815 REMARK 465 GLY B 816 REMARK 465 ARG B 817 REMARK 465 ARG B 818 REMARK 465 LYS B 933 REMARK 465 ARG B 934 REMARK 465 ASN B 935 REMARK 465 ARG B 936 REMARK 465 ARG B 937 REMARK 465 LEU B 938 REMARK 465 SER B 939 REMARK 465 HIS B 940 REMARK 465 PRO B 941 REMARK 465 GLY B 942 REMARK 465 HIS B 943 REMARK 465 PHE B 944 REMARK 465 TRP B 945 REMARK 465 LYS B 946 REMARK 465 SER B 947 REMARK 465 ALA B 948 REMARK 465 GLU B 949 REMARK 465 LEU B 950 REMARK 465 MET C 10 REMARK 465 SER C 11 REMARK 465 TYR C 12 REMARK 465 TYR C 13 REMARK 465 HIS C 14 REMARK 465 HIS C 15 REMARK 465 HIS C 16 REMARK 465 HIS C 17 REMARK 465 HIS C 18 REMARK 465 HIS C 19 REMARK 465 ASP C 20 REMARK 465 TYR C 21 REMARK 465 ASP C 22 REMARK 465 ILE C 23 REMARK 465 PRO C 24 REMARK 465 THR C 25 REMARK 465 THR C 26 REMARK 465 GLU C 27 REMARK 465 ASN C 28 REMARK 465 LEU C 29 REMARK 465 TYR C 30 REMARK 465 PHE C 31 REMARK 465 GLN C 32 REMARK 465 GLY C 33 REMARK 465 ALA C 34 REMARK 465 LYS C 35 REMARK 465 LYS C 36 REMARK 465 LEU C 37 REMARK 465 GLU C 38 REMARK 465 GLU C 39 REMARK 465 LEU C 40 REMARK 465 GLY C 75 REMARK 465 ALA C 76 REMARK 465 GLY C 77 REMARK 465 ASN C 78 REMARK 465 GLY C 79 REMARK 465 GLY C 80 REMARK 465 GLY C 276 REMARK 465 CYS C 277 REMARK 465 GLN C 278 REMARK 465 VAL C 279 REMARK 465 GLU C 280 REMARK 465 GLY C 281 REMARK 465 ASP C 282 REMARK 465 ALA C 283 REMARK 465 ALA C 284 REMARK 465 GLU C 285 REMARK 465 THR C 286 REMARK 465 PRO C 287 REMARK 465 PRO C 288 REMARK 465 ARG C 289 REMARK 465 PRO C 290 REMARK 465 ARG C 291 REMARK 465 THR C 292 REMARK 465 PRO C 293 REMARK 465 GLY C 294 REMARK 465 ARG C 295 REMARK 465 PRO C 296 REMARK 465 LEU C 297 REMARK 465 SER C 298 REMARK 465 SER C 299 REMARK 465 TYR C 300 REMARK 465 GLY C 301 REMARK 465 MET C 302 REMARK 465 ASP C 303 REMARK 465 SER C 304 REMARK 465 ARG C 305 REMARK 465 PRO C 306 REMARK 465 ASN C 382 REMARK 465 GLN C 383 REMARK 465 PRO C 384 REMARK 465 SER C 385 REMARK 465 THR C 386 REMARK 465 PRO C 387 REMARK 465 THR C 388 REMARK 465 HIS C 389 REMARK 465 ALA C 390 REMARK 465 ALA C 391 REMARK 465 GLY C 392 REMARK 465 VAL C 393 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ILE C 103 NH1 ARG C 108 2.11 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 MET B 730 CA - CB - CG ANGL. DEV. = 14.9 DEGREES REMARK 500 ARG C 96 CG - CD - NE ANGL. DEV. = -15.7 DEGREES REMARK 500 ILE C 103 N - CA - CB ANGL. DEV. = -15.4 DEGREES REMARK 500 ILE C 107 CG1 - CB - CG2 ANGL. DEV. = -15.1 DEGREES REMARK 500 TYR C 125 CB - CG - CD2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ILE C 126 CG1 - CB - CG2 ANGL. DEV. = -14.0 DEGREES REMARK 500 LEU C 155 CB - CG - CD2 ANGL. DEV. = 11.9 DEGREES REMARK 500 LEU C 215 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 ILE C 216 CG1 - CB - CG2 ANGL. DEV. = -15.2 DEGREES REMARK 500 MET C 249 CG - SD - CE ANGL. DEV. = 16.2 DEGREES REMARK 500 LEU C 271 CA - CB - CG ANGL. DEV. = 21.2 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 ASN B 700 72.95 -101.91 REMARK 500 SER B 731 102.96 -164.44 REMARK 500 LYS B 785 -2.22 73.44 REMARK 500 ASP B 786 42.52 -151.60 REMARK 500 ARG C 189 -5.86 79.43 REMARK 500 ASP C 190 56.85 -157.60 REMARK 500 SER C 241 -156.98 -141.28 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 ILE C 204 -13.76 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 B1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 791 OD1 REMARK 620 2 ASP B 803 OD1 86.4 REMARK 620 3 ANP B1001 O2B 87.8 150.3 REMARK 620 4 ANP B1001 O2A 152.4 84.6 87.2 REMARK 620 5 HOH B1102 O 78.3 64.9 85.4 74.2 REMARK 620 6 HOH B1104 O 92.9 103.8 105.6 114.6 165.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN C 195 OD1 REMARK 620 2 ASP C 208 OD1 64.4 REMARK 620 3 ANP C 502 O2G 95.0 123.2 REMARK 620 4 ANP C 502 O3G 51.5 116.0 66.3 REMARK 620 5 ANP C 502 O1B 99.4 129.0 105.3 68.2 REMARK 620 6 ANP C 502 O1A 140.1 78.8 118.8 159.7 91.8 REMARK 620 7 ANP C 502 O3A 152.2 142.1 76.1 101.5 59.3 63.5 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7JUQ RELATED DB: PDB REMARK 900 RELATED ID: 7JUR RELATED DB: PDB REMARK 900 RELATED ID: 7JUT RELATED DB: PDB REMARK 900 RELATED ID: 7JUU RELATED DB: PDB REMARK 900 RELATED ID: 7JUV RELATED DB: PDB REMARK 900 RELATED ID: 7JUW RELATED DB: PDB REMARK 900 RELATED ID: 7JUX RELATED DB: PDB REMARK 900 RELATED ID: 7JUY RELATED DB: PDB REMARK 900 RELATED ID: 7JUZ RELATED DB: PDB REMARK 900 RELATED ID: 7JV0 RELATED DB: PDB REMARK 900 RELATED ID: 7JV1 RELATED DB: PDB DBREF 7JUS B 634 950 UNP Q6VAB6 KSR2_HUMAN 634 950 DBREF 7JUS C 35 393 UNP P29678 MP2K1_RABIT 35 393 SEQADV 7JUS MET B 609 UNP Q6VAB6 INITIATING METHIONINE SEQADV 7JUS SER B 610 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS TYR B 611 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS TYR B 612 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS HIS B 613 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS HIS B 614 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS HIS B 615 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS HIS B 616 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS HIS B 617 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS HIS B 618 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS ASP B 619 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS TYR B 620 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS ASP B 621 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS ILE B 622 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS PRO B 623 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS THR B 624 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS THR B 625 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS GLU B 626 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS ASN B 627 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS LEU B 628 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS TYR B 629 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS PHE B 630 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS GLN B 631 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS GLY B 632 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS ALA B 633 UNP Q6VAB6 EXPRESSION TAG SEQADV 7JUS MET C 10 UNP P29678 INITIATING METHIONINE SEQADV 7JUS SER C 11 UNP P29678 EXPRESSION TAG SEQADV 7JUS TYR C 12 UNP P29678 EXPRESSION TAG SEQADV 7JUS TYR C 13 UNP P29678 EXPRESSION TAG SEQADV 7JUS HIS C 14 UNP P29678 EXPRESSION TAG SEQADV 7JUS HIS C 15 UNP P29678 EXPRESSION TAG SEQADV 7JUS HIS C 16 UNP P29678 EXPRESSION TAG SEQADV 7JUS HIS C 17 UNP P29678 EXPRESSION TAG SEQADV 7JUS HIS C 18 UNP P29678 EXPRESSION TAG SEQADV 7JUS HIS C 19 UNP P29678 EXPRESSION TAG SEQADV 7JUS ASP C 20 UNP P29678 EXPRESSION TAG SEQADV 7JUS TYR C 21 UNP P29678 EXPRESSION TAG SEQADV 7JUS ASP C 22 UNP P29678 EXPRESSION TAG SEQADV 7JUS ILE C 23 UNP P29678 EXPRESSION TAG SEQADV 7JUS PRO C 24 UNP P29678 EXPRESSION TAG SEQADV 7JUS THR C 25 UNP P29678 EXPRESSION TAG SEQADV 7JUS THR C 26 UNP P29678 EXPRESSION TAG SEQADV 7JUS GLU C 27 UNP P29678 EXPRESSION TAG SEQADV 7JUS ASN C 28 UNP P29678 EXPRESSION TAG SEQADV 7JUS LEU C 29 UNP P29678 EXPRESSION TAG SEQADV 7JUS TYR C 30 UNP P29678 EXPRESSION TAG SEQADV 7JUS PHE C 31 UNP P29678 EXPRESSION TAG SEQADV 7JUS GLN C 32 UNP P29678 EXPRESSION TAG SEQADV 7JUS GLY C 33 UNP P29678 EXPRESSION TAG SEQADV 7JUS ALA C 34 UNP P29678 EXPRESSION TAG SEQRES 1 B 342 MET SER TYR TYR HIS HIS HIS HIS HIS HIS ASP TYR ASP SEQRES 2 B 342 ILE PRO THR THR GLU ASN LEU TYR PHE GLN GLY ALA GLU SEQRES 3 B 342 MET ASN LEU SER LEU LEU SER ALA ARG SER PHE PRO ARG SEQRES 4 B 342 LYS ALA SER GLN THR SER ILE PHE LEU GLN GLU TRP ASP SEQRES 5 B 342 ILE PRO PHE GLU GLN LEU GLU ILE GLY GLU LEU ILE GLY SEQRES 6 B 342 LYS GLY ARG PHE GLY GLN VAL TYR HIS GLY ARG TRP HIS SEQRES 7 B 342 GLY GLU VAL ALA ILE ARG LEU ILE ASP ILE GLU ARG ASP SEQRES 8 B 342 ASN GLU ASP GLN LEU LYS ALA PHE LYS ARG GLU VAL MET SEQRES 9 B 342 ALA TYR ARG GLN THR ARG HIS GLU ASN VAL VAL LEU PHE SEQRES 10 B 342 MET GLY ALA CYS MET SER PRO PRO HIS LEU ALA ILE ILE SEQRES 11 B 342 THR SER LEU CYS LYS GLY ARG THR LEU TYR SER VAL VAL SEQRES 12 B 342 ARG ASP ALA LYS ILE VAL LEU ASP VAL ASN LYS THR ARG SEQRES 13 B 342 GLN ILE ALA GLN GLU ILE VAL LYS GLY MET GLY TYR LEU SEQRES 14 B 342 HIS ALA LYS GLY ILE LEU HIS LYS ASP LEU LYS SER LYS SEQRES 15 B 342 ASN VAL PHE TYR ASP ASN GLY LYS VAL VAL ILE THR ASP SEQRES 16 B 342 PHE GLY LEU PHE SER ILE SER GLY VAL LEU GLN ALA GLY SEQRES 17 B 342 ARG ARG GLU ASP LYS LEU ARG ILE GLN ASN GLY TRP LEU SEQRES 18 B 342 CYS HIS LEU ALA PRO GLU ILE ILE ARG GLN LEU SER PRO SEQRES 19 B 342 ASP THR GLU GLU ASP LYS LEU PRO PHE SER LYS HIS SER SEQRES 20 B 342 ASP VAL PHE ALA LEU GLY THR ILE TRP TYR GLU LEU HIS SEQRES 21 B 342 ALA ARG GLU TRP PRO PHE LYS THR GLN PRO ALA GLU ALA SEQRES 22 B 342 ILE ILE TRP GLN MET GLY THR GLY MET LYS PRO ASN LEU SEQRES 23 B 342 SER GLN ILE GLY MET GLY LYS GLU ILE SER ASP ILE LEU SEQRES 24 B 342 LEU PHE CYS TRP ALA PHE GLU GLN GLU GLU ARG PRO THR SEQRES 25 B 342 PHE THR LYS LEU MET ASP MET LEU GLU LYS LEU PRO LYS SEQRES 26 B 342 ARG ASN ARG ARG LEU SER HIS PRO GLY HIS PHE TRP LYS SEQRES 27 B 342 SER ALA GLU LEU SEQRES 1 C 384 MET SER TYR TYR HIS HIS HIS HIS HIS HIS ASP TYR ASP SEQRES 2 C 384 ILE PRO THR THR GLU ASN LEU TYR PHE GLN GLY ALA LYS SEQRES 3 C 384 LYS LEU GLU GLU LEU GLU LEU ASP GLU GLN GLN ARG LYS SEQRES 4 C 384 ARG LEU GLU ALA PHE LEU THR GLN LYS GLN LYS VAL GLY SEQRES 5 C 384 GLU LEU LYS ASP ASP ASP PHE GLU LYS ILE SER GLU LEU SEQRES 6 C 384 GLY ALA GLY ASN GLY GLY VAL VAL PHE LYS VAL SER HIS SEQRES 7 C 384 LYS PRO SER GLY LEU VAL MET ALA ARG LYS LEU ILE HIS SEQRES 8 C 384 LEU GLU ILE LYS PRO ALA ILE ARG ASN GLN ILE ILE ARG SEQRES 9 C 384 GLU LEU GLN VAL LEU HIS GLU CYS ASN SER PRO TYR ILE SEQRES 10 C 384 VAL GLY PHE TYR GLY ALA PHE TYR SER ASP GLY GLU ILE SEQRES 11 C 384 SER ILE CYS MET GLU HIS MET ASP GLY GLY SER LEU ASP SEQRES 12 C 384 GLN VAL LEU LYS LYS ALA GLY ARG ILE PRO GLU GLN ILE SEQRES 13 C 384 LEU GLY LYS VAL SER ILE ALA VAL ILE LYS GLY LEU THR SEQRES 14 C 384 TYR LEU ARG GLU LYS HIS LYS ILE MET HIS ARG ASP VAL SEQRES 15 C 384 LYS PRO SER ASN ILE LEU VAL ASN SER ARG GLY GLU ILE SEQRES 16 C 384 LYS LEU CYS ASP PHE GLY VAL SER GLY GLN LEU ILE ASP SEQRES 17 C 384 SER MET ALA ASN SER PHE VAL GLY THR ARG SER TYR MET SEQRES 18 C 384 SER PRO GLU ARG LEU GLN GLY THR HIS TYR SER VAL GLN SEQRES 19 C 384 SER ASP ILE TRP SER MET GLY LEU SER LEU VAL GLU MET SEQRES 20 C 384 ALA VAL GLY ARG TYR PRO ILE PRO PRO PRO ASP ALA LYS SEQRES 21 C 384 GLU LEU GLU LEU MET PHE GLY CYS GLN VAL GLU GLY ASP SEQRES 22 C 384 ALA ALA GLU THR PRO PRO ARG PRO ARG THR PRO GLY ARG SEQRES 23 C 384 PRO LEU SER SER TYR GLY MET ASP SER ARG PRO PRO MET SEQRES 24 C 384 ALA ILE PHE GLU LEU LEU ASP TYR ILE VAL ASN GLU PRO SEQRES 25 C 384 PRO PRO LYS LEU PRO SER ALA VAL PHE SER LEU GLU PHE SEQRES 26 C 384 GLN ASP PHE VAL ASN LYS CYS LEU ILE LYS ASN PRO ALA SEQRES 27 C 384 GLU ARG ALA ASP LEU LYS GLN LEU MET VAL HIS ALA PHE SEQRES 28 C 384 ILE LYS ARG SER ASP ALA GLU GLU VAL ASP PHE ALA GLY SEQRES 29 C 384 TRP LEU CYS SER THR ILE GLY LEU ASN GLN PRO SER THR SEQRES 30 C 384 PRO THR HIS ALA ALA GLY VAL HET ANP B1001 31 HET MG B1002 1 HET VKD C 501 30 HET ANP C 502 31 HET MG C 503 1 HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM MG MAGNESIUM ION HETNAM VKD COBIMETINIB HETSYN VKD {3,4-DIFLUORO-2-[(2-FLUORO-4-IODOPHENYL) HETSYN 2 VKD AMINO]PHENYL}{3-HYDROXY-3-[(2R)-PIPERIDIN-2- HETSYN 3 VKD YL]AZETIDIN-1-YL}METHANONE FORMUL 3 ANP 2(C10 H17 N6 O12 P3) FORMUL 4 MG 2(MG 2+) FORMUL 5 VKD C21 H21 F3 I N3 O2 FORMUL 8 HOH *11(H2 O) HELIX 1 AA1 PHE B 655 TRP B 659 5 5 HELIX 2 AA2 ASN B 700 GLN B 716 1 17 HELIX 3 AA3 LEU B 747 ARG B 752 1 6 HELIX 4 AA4 ASP B 759 LYS B 780 1 22 HELIX 5 AA5 LYS B 788 LYS B 790 5 3 HELIX 6 AA6 GLY B 805 SER B 810 5 6 HELIX 7 AA7 TRP B 828 LEU B 832 5 5 HELIX 8 AA8 ALA B 833 ARG B 838 1 6 HELIX 9 AA9 GLU B 845 LEU B 849 5 5 HELIX 10 AB1 SER B 852 ARG B 870 1 19 HELIX 11 AB2 PRO B 878 GLY B 889 1 12 HELIX 12 AB3 LEU B 894 GLY B 898 5 5 HELIX 13 AB4 GLY B 900 TRP B 911 1 12 HELIX 14 AB5 GLU B 914 ARG B 918 5 5 HELIX 15 AB6 THR B 920 LYS B 930 1 11 HELIX 16 AB7 ASP C 43 LYS C 59 1 17 HELIX 17 AB8 LYS C 64 ASP C 66 5 3 HELIX 18 AB9 LYS C 104 GLN C 116 1 13 HELIX 19 AC1 VAL C 117 GLU C 120 5 4 HELIX 20 AC2 LEU C 151 ALA C 158 1 8 HELIX 21 AC3 PRO C 162 LYS C 185 1 24 HELIX 22 AC4 LYS C 192 SER C 194 5 3 HELIX 23 AC5 SER C 212 MET C 219 1 8 HELIX 24 AC6 SER C 231 GLN C 236 1 6 HELIX 25 AC7 SER C 241 GLY C 259 1 19 HELIX 26 AC8 ASP C 267 PHE C 275 1 9 HELIX 27 AC9 ALA C 309 GLU C 320 1 12 HELIX 28 AD1 SER C 331 LEU C 342 1 12 HELIX 29 AD2 ASP C 351 VAL C 357 1 7 HELIX 30 AD3 HIS C 358 ALA C 366 1 9 HELIX 31 AD4 ASP C 370 GLY C 380 1 11 SHEET 1 AA1 5 GLU B 667 GLY B 673 0 SHEET 2 AA1 5 GLN B 679 ARG B 684 -1 O HIS B 682 N GLY B 669 SHEET 3 AA1 5 VAL B 689 ASP B 695 -1 O ILE B 691 N TYR B 681 SHEET 4 AA1 5 HIS B 734 SER B 740 -1 O THR B 739 N ALA B 690 SHEET 5 AA1 5 PHE B 725 SER B 731 -1 N GLY B 727 O ILE B 738 SHEET 1 AA2 3 ARG B 745 THR B 746 0 SHEET 2 AA2 3 VAL B 792 ASP B 795 -1 O TYR B 794 N ARG B 745 SHEET 3 AA2 3 LYS B 798 ILE B 801 -1 O VAL B 800 N PHE B 793 SHEET 1 AA3 2 LYS B 821 GLN B 825 0 SHEET 2 AA3 2 ASN C 221 GLY C 225 -1 O SER C 222 N ILE B 824 SHEET 1 AA4 5 PHE C 68 GLU C 73 0 SHEET 2 AA4 5 VAL C 82 HIS C 87 -1 O LYS C 84 N ILE C 71 SHEET 3 AA4 5 VAL C 93 HIS C 100 -1 O ARG C 96 N PHE C 83 SHEET 4 AA4 5 GLU C 138 GLU C 144 -1 O ILE C 141 N LYS C 97 SHEET 5 AA4 5 PHE C 129 SER C 135 -1 N PHE C 133 O SER C 140 SHEET 1 AA5 3 GLY C 149 SER C 150 0 SHEET 2 AA5 3 ILE C 196 VAL C 198 -1 O VAL C 198 N GLY C 149 SHEET 3 AA5 3 ILE C 204 LEU C 206 -1 O LYS C 205 N LEU C 197 LINK OD1 ASN B 791 MG MG B1002 1555 1555 2.28 LINK OD1 ASP B 803 MG MG B1002 1555 1555 2.21 LINK O2B ANP B1001 MG MG B1002 1555 1555 2.09 LINK O2A ANP B1001 MG MG B1002 1555 1555 2.07 LINK MG MG B1002 O HOH B1102 1555 1555 2.24 LINK MG MG B1002 O HOH B1104 1555 1555 2.37 LINK OD1 ASN C 195 MG MG C 503 1555 1555 2.98 LINK OD1 ASP C 208 MG MG C 503 1555 1555 2.71 LINK O2G ANP C 502 MG MG C 503 1555 1555 2.37 LINK O3G ANP C 502 MG MG C 503 1555 1555 2.23 LINK O1B ANP C 502 MG MG C 503 1555 1555 2.35 LINK O1A ANP C 502 MG MG C 503 1555 1555 2.06 LINK O3A ANP C 502 MG MG C 503 1555 1555 2.69 CISPEP 1 PRO B 732 PRO B 733 0 8.13 CISPEP 2 ILE C 263 PRO C 264 0 -0.40 CRYST1 140.000 140.000 220.000 90.00 90.00 120.00 P 61 2 2 12 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 0.007143 0.004124 0.000000 0.00000 SCALE2 0.000000 0.008248 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004545 0.00000