HEADER TRANSFERASE 30-OCT-15 5FM3 TITLE CRYSTAL STRUCTURE OF HYPER-PHOSPHORYLATED RET KINASE DOMAIN WITH TITLE 2 (PROXIMAL) JUXTAMEMBRANE SEGMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE TYROSINE-PROTEIN KINASE RECEPTOR RET; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 659-1013; COMPND 5 SYNONYM: CADHERIN FAMILY MEMBER 12, PROTO-ONCOGENE C-RET; COMPND 6 EC: 2.7.10.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF21 KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR I.PLAZA-MENACHO,K.BARNOUIN,R.BARRY,A.BORG,M.ORME,S.MOUILLERON, AUTHOR 2 R.J.MARTINEZ-TORRES,P.MEIER,N.Q.MCDONALD REVDAT 3 24-APR-19 5FM3 1 SOURCE LINK REVDAT 2 01-MAR-17 5FM3 1 JRNL REVDAT 1 28-DEC-16 5FM3 0 JRNL AUTH I.PLAZA-MENACHO,K.BARNOUIN,R.BARRY,A.BORG,M.ORME,R.CHAUHAN, JRNL AUTH 2 S.MOUILLERON,R.J.MARTINEZ-TORRES,P.MEIER,N.Q.MCDONALD JRNL TITL RET FUNCTIONS AS A DUAL-SPECIFICITY KINASE THAT REQUIRES JRNL TITL 2 ALLOSTERIC INPUTS FROM JUXTAMEMBRANE ELEMENTS. JRNL REF CELL REP V. 17 3319 2016 JRNL REFN ESSN 2211-1247 JRNL PMID 28009299 JRNL DOI 10.1016/J.CELREP.2016.11.061 REMARK 2 REMARK 2 RESOLUTION. 2.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.67 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 9360 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 447 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 34.6674 - 4.2529 1.00 3123 148 0.1825 0.1925 REMARK 3 2 4.2529 - 3.3766 1.00 2905 165 0.2057 0.2538 REMARK 3 3 3.3766 - 2.9500 1.00 2885 134 0.2504 0.2899 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) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.260 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 77.33 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 : 0.002 2196 REMARK 3 ANGLE : 0.665 2992 REMARK 3 CHIRALITY : 0.040 333 REMARK 3 PLANARITY : 0.003 372 REMARK 3 DIHEDRAL : 14.532 1279 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 707 THROUGH 735 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.7351 -36.4437 1.2382 REMARK 3 T TENSOR REMARK 3 T11: 0.3961 T22: 0.3078 REMARK 3 T33: 0.5890 T12: 0.0422 REMARK 3 T13: 0.0126 T23: -0.0108 REMARK 3 L TENSOR REMARK 3 L11: 0.0573 L22: 0.0569 REMARK 3 L33: 0.2814 L12: 0.0158 REMARK 3 L13: 0.0278 L23: -0.1511 REMARK 3 S TENSOR REMARK 3 S11: -0.2547 S12: 0.0371 S13: -0.0704 REMARK 3 S21: 0.1116 S22: 0.2914 S23: -0.8368 REMARK 3 S31: 0.1252 S32: 0.4274 S33: 0.0099 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 736 THROUGH 800 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.9601 -35.3626 -3.7082 REMARK 3 T TENSOR REMARK 3 T11: 0.2930 T22: 0.2527 REMARK 3 T33: 0.4714 T12: 0.0099 REMARK 3 T13: 0.1309 T23: -0.0553 REMARK 3 L TENSOR REMARK 3 L11: 0.3405 L22: 0.6660 REMARK 3 L33: 0.9298 L12: -0.1047 REMARK 3 L13: -0.1077 L23: -0.2729 REMARK 3 S TENSOR REMARK 3 S11: -0.0208 S12: -0.0354 S13: -0.2174 REMARK 3 S21: -0.0044 S22: -0.1196 S23: -0.1354 REMARK 3 S31: -0.0337 S32: 0.1096 S33: -0.1253 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 801 THROUGH 847 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.1722 -21.7310 -13.8269 REMARK 3 T TENSOR REMARK 3 T11: 0.6291 T22: 0.3427 REMARK 3 T33: 0.6966 T12: -0.1199 REMARK 3 T13: 0.0562 T23: 0.1485 REMARK 3 L TENSOR REMARK 3 L11: 0.2812 L22: 0.0735 REMARK 3 L33: 0.5648 L12: -0.1323 REMARK 3 L13: 0.1916 L23: -0.1653 REMARK 3 S TENSOR REMARK 3 S11: -0.1623 S12: 0.1981 S13: 0.1799 REMARK 3 S21: -0.4064 S22: 0.0161 S23: 0.1371 REMARK 3 S31: -0.1321 S32: 0.5379 S33: 0.0809 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 848 THROUGH 890 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.6349 -30.6124 -20.8376 REMARK 3 T TENSOR REMARK 3 T11: 0.5951 T22: 0.5604 REMARK 3 T33: 0.3892 T12: 0.0694 REMARK 3 T13: 0.1117 T23: -0.0947 REMARK 3 L TENSOR REMARK 3 L11: 0.3192 L22: 0.5603 REMARK 3 L33: 0.2274 L12: -0.1268 REMARK 3 L13: 0.2937 L23: -0.0944 REMARK 3 S TENSOR REMARK 3 S11: 0.4580 S12: 0.8191 S13: -0.1333 REMARK 3 S21: -0.1304 S22: -0.1502 S23: 0.2626 REMARK 3 S31: -0.1825 S32: 0.0318 S33: 0.0799 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 891 THROUGH 956 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.1010 -33.3051 -14.8279 REMARK 3 T TENSOR REMARK 3 T11: 0.5772 T22: 0.4079 REMARK 3 T33: 0.4340 T12: 0.0762 REMARK 3 T13: -0.0203 T23: -0.1180 REMARK 3 L TENSOR REMARK 3 L11: 1.5271 L22: 0.6724 REMARK 3 L33: 0.2523 L12: -0.7487 REMARK 3 L13: 0.1678 L23: -0.1707 REMARK 3 S TENSOR REMARK 3 S11: 0.0836 S12: -0.1090 S13: -0.2839 REMARK 3 S21: 0.0173 S22: -0.0138 S23: 0.7559 REMARK 3 S31: 0.0922 S32: -0.2092 S33: 0.1091 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 957 THROUGH 997 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.6139 -26.5208 -26.5482 REMARK 3 T TENSOR REMARK 3 T11: 0.8621 T22: 0.9250 REMARK 3 T33: 0.1989 T12: 0.3259 REMARK 3 T13: -0.2946 T23: -0.1068 REMARK 3 L TENSOR REMARK 3 L11: 0.3516 L22: 0.2973 REMARK 3 L33: 0.1518 L12: 0.1218 REMARK 3 L13: -0.1016 L23: 0.0243 REMARK 3 S TENSOR REMARK 3 S11: -0.3697 S12: 0.7884 S13: -0.1898 REMARK 3 S21: -0.2053 S22: 0.2248 S23: 0.2991 REMARK 3 S31: -0.1589 S32: -0.0741 S33: -0.1896 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 998 THROUGH 1011 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.9419 -30.3057 -33.8916 REMARK 3 T TENSOR REMARK 3 T11: 0.8844 T22: 1.0606 REMARK 3 T33: 0.5041 T12: 0.0739 REMARK 3 T13: 0.0084 T23: -0.2354 REMARK 3 L TENSOR REMARK 3 L11: 0.2882 L22: 0.2450 REMARK 3 L33: 0.1333 L12: -0.0371 REMARK 3 L13: -0.1253 L23: -0.1124 REMARK 3 S TENSOR REMARK 3 S11: 0.5501 S12: 0.2775 S13: 0.1284 REMARK 3 S21: -0.2224 S22: 0.0785 S23: -0.1033 REMARK 3 S31: 0.0488 S32: -0.1137 S33: 0.1588 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 5FM3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1290065400. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9361 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.950 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.9000 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 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: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 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 REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -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 73.15050 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 73.15050 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 73.15050 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 0.00000 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 0.00000 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 73.15050 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 73.15050 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 73.15050 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: 3730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 CYS A 659 REMARK 465 TYR A 660 REMARK 465 HIS A 661 REMARK 465 LYS A 662 REMARK 465 PHE A 663 REMARK 465 ALA A 664 REMARK 465 HIS A 665 REMARK 465 LYS A 666 REMARK 465 PRO A 667 REMARK 465 PRO A 668 REMARK 465 ILE A 669 REMARK 465 SER A 670 REMARK 465 SER A 671 REMARK 465 ALA A 672 REMARK 465 GLU A 673 REMARK 465 MET A 674 REMARK 465 THR A 675 REMARK 465 PHE A 676 REMARK 465 ARG A 677 REMARK 465 ARG A 678 REMARK 465 PRO A 679 REMARK 465 ALA A 680 REMARK 465 GLN A 681 REMARK 465 ALA A 682 REMARK 465 PHE A 683 REMARK 465 PRO A 684 REMARK 465 VAL A 685 REMARK 465 SER A 686 REMARK 465 TYR A 687 REMARK 465 SER A 688 REMARK 465 SER A 689 REMARK 465 SER A 690 REMARK 465 GLY A 691 REMARK 465 ALA A 692 REMARK 465 ARG A 693 REMARK 465 ARG A 694 REMARK 465 PRO A 695 REMARK 465 SER A 696 REMARK 465 LEU A 697 REMARK 465 ASP A 698 REMARK 465 SER A 699 REMARK 465 MET A 700 REMARK 465 GLU A 701 REMARK 465 ASN A 702 REMARK 465 GLN A 703 REMARK 465 VAL A 704 REMARK 465 SER A 705 REMARK 465 VAL A 706 REMARK 465 ARG A 820 REMARK 465 LYS A 821 REMARK 465 VAL A 822 REMARK 465 GLY A 823 REMARK 465 PRO A 824 REMARK 465 GLY A 825 REMARK 465 TYR A 826 REMARK 465 LEU A 827 REMARK 465 GLY A 828 REMARK 465 SER A 829 REMARK 465 GLY A 830 REMARK 465 GLY A 831 REMARK 465 SER A 832 REMARK 465 ARG A 833 REMARK 465 ASN A 834 REMARK 465 SER A 835 REMARK 465 SER A 836 REMARK 465 SER A 837 REMARK 465 LEU A 838 REMARK 465 ASP A 839 REMARK 465 HIS A 840 REMARK 465 PRO A 841 REMARK 465 ASP A 842 REMARK 465 GLU A 843 REMARK 465 ARG A 844 REMARK 465 ARG A 1012 REMARK 465 ARG A 1013 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 ASP A 707 CG OD1 OD2 REMARK 470 LYS A 710 CG CD CE NZ REMARK 470 LEU A 712 CG CD1 CD2 REMARK 470 GLU A 713 CG CD OE1 OE2 REMARK 470 LYS A 728 CG CD CE NZ REMARK 470 GLU A 734 CG CD OE1 OE2 REMARK 470 PHE A 744 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 747 CG CD CE NZ REMARK 470 ARG A 749 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 762 CG CD OE1 OE2 REMARK 470 LYS A 789 CD CE NZ REMARK 470 ASP A 797 CG OD1 OD2 REMARK 470 LYS A 869 CG CD CE NZ REMARK 470 ASP A 874 CG OD1 OD2 REMARK 470 TYR A 900 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 901 CG CD OE1 OE2 REMARK 470 GLU A 902 CG CD OE1 OE2 REMARK 470 VAL A 906 CG1 CG2 REMARK 470 LYS A 907 NZ REMARK 470 ARG A 908 NE CZ NH1 NH2 REMARK 470 GLN A 910 CG CD OE1 NE2 REMARK 470 ASP A 925 CG OD1 OD2 REMARK 470 GLU A 958 CG CD OE1 OE2 REMARK 470 ARG A 959 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 962 CG OD1 ND2 REMARK 470 LYS A 965 CG CD CE NZ REMARK 470 GLU A 971 CG CD OE1 OE2 REMARK 470 ASN A 975 CG OD1 ND2 REMARK 470 GLU A 978 CG CD OE1 OE2 REMARK 470 GLU A 979 CG CD OE1 OE2 REMARK 470 ARG A 982 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 989 CD CE NZ REMARK 470 GLU A 991 CG CD OE1 OE2 REMARK 470 ASP A 993 CG OD1 OD2 REMARK 470 LYS A 994 CG CD CE NZ REMARK 470 LYS A1003 CG CD CE NZ REMARK 470 LYS A1007 CG CD CE NZ REMARK 470 LYS A1011 CG CD CE NZ 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 ALA A 708 -19.29 67.10 REMARK 500 ARG A 749 -142.04 -168.42 REMARK 500 ALA A 750 78.43 64.19 REMARK 500 ASN A 783 102.59 -161.81 REMARK 500 VAL A 804 -162.66 -125.75 REMARK 500 GLU A 805 -172.73 -67.43 REMARK 500 ARG A 873 -52.48 68.93 REMARK 500 ASP A 874 53.41 -95.47 REMARK 500 ASP A 892 73.86 58.01 REMARK 500 TYR A 952 70.39 51.14 REMARK 500 ASP A 974 -75.35 -66.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PP1 A 2012 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FM2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHOSPHORYLATED RET TYROSINE KINASE JM-KD DBREF 5FM3 A 659 1013 UNP P07949 RET_HUMAN 659 1013 SEQRES 1 A 355 CYS TYR HIS LYS PHE ALA HIS LYS PRO PRO ILE SER SER SEQRES 2 A 355 ALA GLU MET THR PHE ARG ARG PRO ALA GLN ALA PHE PRO SEQRES 3 A 355 VAL SER TYR SER SER SER GLY ALA ARG ARG PRO SER LEU SEQRES 4 A 355 ASP SER MET GLU ASN GLN VAL SER VAL ASP ALA PHE LYS SEQRES 5 A 355 ILE LEU GLU ASP PRO LYS TRP GLU PHE PRO ARG LYS ASN SEQRES 6 A 355 LEU VAL LEU GLY LYS THR LEU GLY GLU GLY GLU PHE GLY SEQRES 7 A 355 LYS VAL VAL LYS ALA THR ALA PHE HIS LEU LYS GLY ARG SEQRES 8 A 355 ALA GLY TYR THR THR VAL ALA VAL LYS MET LEU LYS GLU SEQRES 9 A 355 ASN ALA SER PRO SER GLU LEU ARG ASP LEU LEU SER GLU SEQRES 10 A 355 PHE ASN VAL LEU LYS GLN VAL ASN HIS PRO HIS VAL ILE SEQRES 11 A 355 LYS LEU TYR GLY ALA CYS SER GLN ASP GLY PRO LEU LEU SEQRES 12 A 355 LEU ILE VAL GLU TYR ALA LYS PTR GLY SER LEU ARG GLY SEQRES 13 A 355 PHE LEU ARG GLU SER ARG LYS VAL GLY PRO GLY TYR LEU SEQRES 14 A 355 GLY SER GLY GLY SER ARG ASN SER SER SER LEU ASP HIS SEQRES 15 A 355 PRO ASP GLU ARG ALA LEU THR MET GLY ASP LEU ILE SER SEQRES 16 A 355 PHE ALA TRP GLN ILE SER GLN GLY MET GLN TYR LEU ALA SEQRES 17 A 355 GLU MET LYS LEU VAL HIS ARG ASP LEU ALA ALA ARG ASN SEQRES 18 A 355 ILE LEU VAL ALA GLU GLY ARG LYS MET LYS ILE SER ASP SEQRES 19 A 355 PHE GLY LEU SER ARG ASP VAL TYR GLU GLU ASP SER PTR SEQRES 20 A 355 VAL LYS ARG SEP GLN GLY ARG ILE PRO VAL LYS TRP MET SEQRES 21 A 355 ALA ILE GLU SER LEU PHE ASP HIS ILE PTR THR THR GLN SEQRES 22 A 355 SER ASP VAL TRP SER PHE GLY VAL LEU LEU TRP GLU ILE SEQRES 23 A 355 VAL THR LEU GLY GLY ASN PRO TYR PRO GLY ILE PRO PRO SEQRES 24 A 355 GLU ARG LEU PHE ASN LEU LEU LYS THR GLY HIS ARG MET SEQRES 25 A 355 GLU ARG PRO ASP ASN CYS SER GLU GLU MET TYR ARG LEU SEQRES 26 A 355 MET LEU GLN CYS TRP LYS GLN GLU PRO ASP LYS ARG PRO SEQRES 27 A 355 VAL PHE ALA ASP ILE SER LYS ASP LEU GLU LYS MET MET SEQRES 28 A 355 VAL LYS ARG ARG MODRES 5FM3 PTR A 809 TYR O-PHOSPHOTYROSINE MODRES 5FM3 PTR A 905 TYR O-PHOSPHOTYROSINE MODRES 5FM3 SEP A 909 SER PHOSPHOSERINE MODRES 5FM3 PTR A 928 TYR O-PHOSPHOTYROSINE HET PTR A 809 16 HET PTR A 905 16 HET SEP A 909 10 HET PTR A 928 16 HET PP1 A2012 21 HETNAM PTR O-PHOSPHOTYROSINE HETNAM SEP PHOSPHOSERINE HETNAM PP1 1-TER-BUTYL-3-P-TOLYL-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4- HETNAM 2 PP1 YLAMINE HETSYN PTR PHOSPHONOTYROSINE HETSYN SEP PHOSPHONOSERINE FORMUL 1 PTR 3(C9 H12 N O6 P) FORMUL 1 SEP C3 H8 N O6 P FORMUL 2 PP1 C16 H19 N5 FORMUL 3 HOH *5(H2 O) HELIX 1 1 SER A 765 VAL A 782 1 18 HELIX 2 2 SER A 811 GLU A 818 1 8 HELIX 3 3 THR A 847 MET A 868 1 22 HELIX 4 4 ALA A 876 ARG A 878 5 3 HELIX 5 5 PRO A 914 MET A 918 5 5 HELIX 6 6 ALA A 919 HIS A 926 1 8 HELIX 7 7 THR A 929 THR A 946 1 18 HELIX 8 8 PRO A 956 THR A 966 1 11 HELIX 9 9 SER A 977 TRP A 988 1 12 HELIX 10 10 GLU A 991 ARG A 995 5 5 HELIX 11 11 VAL A 997 LYS A 1011 1 15 SHEET 1 AA 5 LEU A 724 GLY A 733 0 SHEET 2 AA 5 GLY A 736 PHE A 744 -1 O GLY A 736 N GLY A 733 SHEET 3 AA 5 TYR A 752 MET A 759 -1 O THR A 753 N ALA A 743 SHEET 4 AA 5 LEU A 801 VAL A 804 -1 O LEU A 802 N LYS A 758 SHEET 5 AA 5 LEU A 790 CYS A 794 -1 N TYR A 791 O ILE A 803 SHEET 1 AB 2 LEU A 870 VAL A 871 0 SHEET 2 AB 2 ARG A 897 ASP A 898 -1 O ARG A 897 N VAL A 871 SHEET 1 AC 2 ILE A 880 ALA A 883 0 SHEET 2 AC 2 LYS A 887 ILE A 890 -1 O LYS A 887 N ALA A 883 LINK C LYS A 808 N PTR A 809 1555 1555 1.33 LINK C PTR A 809 N GLY A 810 1555 1555 1.33 LINK C SER A 904 N PTR A 905 1555 1555 1.33 LINK C PTR A 905 N VAL A 906 1555 1555 1.33 LINK C ARG A 908 N SEP A 909 1555 1555 1.33 LINK C SEP A 909 N GLN A 910 1555 1555 1.33 LINK C ILE A 927 N PTR A 928 1555 1555 1.33 LINK C PTR A 928 N THR A 929 1555 1555 1.33 SITE 1 AC1 10 LEU A 730 PHE A 735 VAL A 738 ALA A 756 SITE 2 AC1 10 LYS A 758 GLU A 775 VAL A 804 GLU A 805 SITE 3 AC1 10 ALA A 807 SER A 891 CRYST1 98.569 98.569 146.301 90.00 90.00 120.00 P 63 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 0.010145 0.005857 0.000000 0.00000 SCALE2 0.000000 0.011715 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006835 0.00000