HEADER TRANSFERASE 08-JAN-21 7DUA TITLE CRYSTAL STRUCTURE OF HUMAN PROTO-ONCOGENE TYROSINE-PROTEIN KINASE TITLE 2 RECEPTOR RET IN COMPLEX WITH 4-AMINO-7-(1-METHYLCYCLOPROPYL)-N-(5- TITLE 3 METHYL-1H-PYRAZOL-3-YL)PYRROLO[2,3-D]PYRIMIDINE-5-CARBOXAMIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE TYROSINE-PROTEIN KINASE RECEPTOR RET; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: KINASE DOMAIN; 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 GENE: RET, CDHF12, CDHR16, PTC, RET51; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS TYROSINE-PROTEIN KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR I.MIYAZAKI,K.ISHIDA,T.SUZUKI REVDAT 2 29-MAY-24 7DUA 1 REMARK REVDAT 1 12-JAN-22 7DUA 0 JRNL AUTH I.MIYAZAKI,K.ISHIDA,T.SUZUKI JRNL TITL SELECTIVE RET INHIBITOR TAS0953/HM06 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.64 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.63 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 71467 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3698 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.64 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.68 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5201 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.32 REMARK 3 BIN R VALUE (WORKING SET) : 0.2970 REMARK 3 BIN FREE R VALUE SET COUNT : 243 REMARK 3 BIN FREE R VALUE : 0.3290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4503 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 369 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.54000 REMARK 3 B22 (A**2) : -0.29000 REMARK 3 B33 (A**2) : -1.20000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.06000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.099 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.096 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.071 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.012 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4661 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4548 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6308 ; 1.429 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10443 ; 1.202 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 573 ; 5.458 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 190 ;37.486 ;23.053 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 833 ;12.574 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;16.609 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 679 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5203 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1072 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 712 A 807 REMARK 3 ORIGIN FOR THE GROUP (A): 4.679 -7.779 -5.856 REMARK 3 T TENSOR REMARK 3 T11: 0.0372 T22: 0.0705 REMARK 3 T33: 0.1314 T12: -0.0127 REMARK 3 T13: 0.0343 T23: -0.0043 REMARK 3 L TENSOR REMARK 3 L11: 3.4564 L22: 0.9998 REMARK 3 L33: 1.8575 L12: -0.7249 REMARK 3 L13: 1.2568 L23: 0.8104 REMARK 3 S TENSOR REMARK 3 S11: 0.0319 S12: 0.0989 S13: -0.1589 REMARK 3 S21: 0.0170 S22: 0.0255 S23: 0.0057 REMARK 3 S31: 0.0795 S32: 0.0786 S33: -0.0573 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 808 A 1011 REMARK 3 ORIGIN FOR THE GROUP (A): 21.660 4.691 7.645 REMARK 3 T TENSOR REMARK 3 T11: 0.0094 T22: 0.0589 REMARK 3 T33: 0.0689 T12: 0.0003 REMARK 3 T13: -0.0038 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 2.0755 L22: 1.3439 REMARK 3 L33: 1.4283 L12: -0.0758 REMARK 3 L13: -0.4521 L23: -0.0368 REMARK 3 S TENSOR REMARK 3 S11: -0.0107 S12: -0.0437 S13: 0.1001 REMARK 3 S21: 0.0921 S22: 0.0040 S23: -0.0007 REMARK 3 S31: -0.0638 S32: 0.0329 S33: 0.0067 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 7DUA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1300019291. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-NOV-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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) : 1.000 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75166 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 78.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05000 REMARK 200 FOR THE DATA SET : 16.6700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.64 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.43100 REMARK 200 FOR SHELL : 3.840 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.20 M LICL, 0.10 M NA ASETATE, REMARK 280 PH5.00, 3 M NA FORMATE, 5 MM MGCL2, VAPOR DIFFUSION, TEMPERATURE REMARK 280 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-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 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 40.10750 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: 2680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 GLY A 700 REMARK 465 PRO A 701 REMARK 465 LEU A 702 REMARK 465 SER A 703 REMARK 465 LEU A 704 REMARK 465 SER A 705 REMARK 465 VAL A 706 REMARK 465 ASP A 707 REMARK 465 ALA A 708 REMARK 465 PHE A 709 REMARK 465 LYS A 710 REMARK 465 ILE A 711 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 ARG A 1012 REMARK 465 ARG A 1013 REMARK 465 LEU B 712 REMARK 465 GLU B 713 REMARK 465 ASP B 714 REMARK 465 ARG B 820 REMARK 465 LYS B 821 REMARK 465 VAL B 822 REMARK 465 GLY B 823 REMARK 465 PRO B 824 REMARK 465 GLY B 825 REMARK 465 TYR B 826 REMARK 465 LEU B 827 REMARK 465 GLY B 828 REMARK 465 SER B 829 REMARK 465 GLY B 830 REMARK 465 GLY B 831 REMARK 465 SER B 832 REMARK 465 ARG B 833 REMARK 465 ASN B 834 REMARK 465 SER B 835 REMARK 465 SER B 836 REMARK 465 SER B 837 REMARK 465 LEU B 838 REMARK 465 ASP B 839 REMARK 465 HIS B 840 REMARK 465 PRO B 841 REMARK 465 ASP B 842 REMARK 465 GLU B 843 REMARK 465 ARG B 844 REMARK 465 ALA B 845 REMARK 465 TYR B 900 REMARK 465 GLU B 901 REMARK 465 GLU B 902 REMARK 465 ASP B 903 REMARK 465 SER B 904 REMARK 465 TYR B 905 REMARK 465 VAL B 906 REMARK 465 LYS B 907 REMARK 465 ARG B 908 REMARK 465 SER B 909 REMARK 465 ARG B 1013 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LEU A 712 CG CD1 CD2 REMARK 480 GLU A 713 CG CD OE1 OE2 REMARK 480 GLU A 734 CG CD OE1 OE2 REMARK 480 GLU A 762 CG CD OE1 OE2 REMARK 480 ARG A 770 CD NE CZ NH1 NH2 REMARK 480 LYS A 789 CE NZ REMARK 480 ASP A 797 CG OD1 OD2 REMARK 480 LYS A 821 CD CE NZ REMARK 480 GLU A 902 CD OE1 OE2 REMARK 480 GLU A 978 CD OE1 OE2 REMARK 480 GLU A 979 CG CD OE1 OE2 REMARK 480 ARG A 982 CD NE CZ NH1 NH2 REMARK 480 LYS A 989 CE NZ REMARK 480 ASP A 993 CG OD1 OD2 REMARK 480 LYS A 1003 NZ REMARK 480 GLU B 734 CG CD OE1 OE2 REMARK 480 GLU B 762 CG CD OE1 OE2 REMARK 480 LYS B 869 CE NZ REMARK 480 GLU B 884 CD OE1 OE2 REMARK 480 LYS B 887 NZ REMARK 480 LYS B 965 CE NZ REMARK 480 GLU B 978 CG CD OE1 OE2 REMARK 480 GLU B 979 CG CD OE1 OE2 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 ARG B 873 NE - CZ - NH1 ANGL. DEV. = 3.1 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 ARG A 873 -32.55 75.36 REMARK 500 ASP A 892 70.06 62.46 REMARK 500 ASN A 975 48.66 71.85 REMARK 500 ARG B 873 -36.52 77.73 REMARK 500 ASP B 892 70.22 64.96 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 HJ0 A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HJ0 B 1101 DBREF 7DUA A 705 1013 UNP P07949 RET_HUMAN 705 1013 DBREF 7DUA B 705 1013 UNP P07949 RET_HUMAN 705 1013 SEQADV 7DUA GLY A 700 UNP P07949 EXPRESSION TAG SEQADV 7DUA PRO A 701 UNP P07949 EXPRESSION TAG SEQADV 7DUA LEU A 702 UNP P07949 EXPRESSION TAG SEQADV 7DUA SER A 703 UNP P07949 EXPRESSION TAG SEQADV 7DUA LEU A 704 UNP P07949 EXPRESSION TAG SEQADV 7DUA GLY B 700 UNP P07949 EXPRESSION TAG SEQADV 7DUA PRO B 701 UNP P07949 EXPRESSION TAG SEQADV 7DUA LEU B 702 UNP P07949 EXPRESSION TAG SEQADV 7DUA SER B 703 UNP P07949 EXPRESSION TAG SEQADV 7DUA LEU B 704 UNP P07949 EXPRESSION TAG SEQRES 1 A 314 GLY PRO LEU SER LEU SER VAL ASP ALA PHE LYS ILE LEU SEQRES 2 A 314 GLU ASP PRO LYS TRP GLU PHE PRO ARG LYS ASN LEU VAL SEQRES 3 A 314 LEU GLY LYS THR LEU GLY GLU GLY GLU PHE GLY LYS VAL SEQRES 4 A 314 VAL LYS ALA THR ALA PHE HIS LEU LYS GLY ARG ALA GLY SEQRES 5 A 314 TYR THR THR VAL ALA VAL LYS MET LEU LYS GLU ASN ALA SEQRES 6 A 314 SER PRO SER GLU LEU ARG ASP LEU LEU SER GLU PHE ASN SEQRES 7 A 314 VAL LEU LYS GLN VAL ASN HIS PRO HIS VAL ILE LYS LEU SEQRES 8 A 314 TYR GLY ALA CYS SER GLN ASP GLY PRO LEU LEU LEU ILE SEQRES 9 A 314 VAL GLU TYR ALA LYS TYR GLY SER LEU ARG GLY PHE LEU SEQRES 10 A 314 ARG GLU SER ARG LYS VAL GLY PRO GLY TYR LEU GLY SER SEQRES 11 A 314 GLY GLY SER ARG ASN SER SER SER LEU ASP HIS PRO ASP SEQRES 12 A 314 GLU ARG ALA LEU THR MET GLY ASP LEU ILE SER PHE ALA SEQRES 13 A 314 TRP GLN ILE SER GLN GLY MET GLN TYR LEU ALA GLU MET SEQRES 14 A 314 LYS LEU VAL HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU SEQRES 15 A 314 VAL ALA GLU GLY ARG LYS MET LYS ILE SER ASP PHE GLY SEQRES 16 A 314 LEU SER ARG ASP VAL TYR GLU GLU ASP SER TYR VAL LYS SEQRES 17 A 314 ARG SER GLN GLY ARG ILE PRO VAL LYS TRP MET ALA ILE SEQRES 18 A 314 GLU SER LEU PHE ASP HIS ILE TYR THR THR GLN SER ASP SEQRES 19 A 314 VAL TRP SER PHE GLY VAL LEU LEU TRP GLU ILE VAL THR SEQRES 20 A 314 LEU GLY GLY ASN PRO TYR PRO GLY ILE PRO PRO GLU ARG SEQRES 21 A 314 LEU PHE ASN LEU LEU LYS THR GLY HIS ARG MET GLU ARG SEQRES 22 A 314 PRO ASP ASN CYS SER GLU GLU MET TYR ARG LEU MET LEU SEQRES 23 A 314 GLN CYS TRP LYS GLN GLU PRO ASP LYS ARG PRO VAL PHE SEQRES 24 A 314 ALA ASP ILE SER LYS ASP LEU GLU LYS MET MET VAL LYS SEQRES 25 A 314 ARG ARG SEQRES 1 B 314 GLY PRO LEU SER LEU SER VAL ASP ALA PHE LYS ILE LEU SEQRES 2 B 314 GLU ASP PRO LYS TRP GLU PHE PRO ARG LYS ASN LEU VAL SEQRES 3 B 314 LEU GLY LYS THR LEU GLY GLU GLY GLU PHE GLY LYS VAL SEQRES 4 B 314 VAL LYS ALA THR ALA PHE HIS LEU LYS GLY ARG ALA GLY SEQRES 5 B 314 TYR THR THR VAL ALA VAL LYS MET LEU LYS GLU ASN ALA SEQRES 6 B 314 SER PRO SER GLU LEU ARG ASP LEU LEU SER GLU PHE ASN SEQRES 7 B 314 VAL LEU LYS GLN VAL ASN HIS PRO HIS VAL ILE LYS LEU SEQRES 8 B 314 TYR GLY ALA CYS SER GLN ASP GLY PRO LEU LEU LEU ILE SEQRES 9 B 314 VAL GLU TYR ALA LYS TYR GLY SER LEU ARG GLY PHE LEU SEQRES 10 B 314 ARG GLU SER ARG LYS VAL GLY PRO GLY TYR LEU GLY SER SEQRES 11 B 314 GLY GLY SER ARG ASN SER SER SER LEU ASP HIS PRO ASP SEQRES 12 B 314 GLU ARG ALA LEU THR MET GLY ASP LEU ILE SER PHE ALA SEQRES 13 B 314 TRP GLN ILE SER GLN GLY MET GLN TYR LEU ALA GLU MET SEQRES 14 B 314 LYS LEU VAL HIS ARG ASP LEU ALA ALA ARG ASN ILE LEU SEQRES 15 B 314 VAL ALA GLU GLY ARG LYS MET LYS ILE SER ASP PHE GLY SEQRES 16 B 314 LEU SER ARG ASP VAL TYR GLU GLU ASP SER TYR VAL LYS SEQRES 17 B 314 ARG SER GLN GLY ARG ILE PRO VAL LYS TRP MET ALA ILE SEQRES 18 B 314 GLU SER LEU PHE ASP HIS ILE TYR THR THR GLN SER ASP SEQRES 19 B 314 VAL TRP SER PHE GLY VAL LEU LEU TRP GLU ILE VAL THR SEQRES 20 B 314 LEU GLY GLY ASN PRO TYR PRO GLY ILE PRO PRO GLU ARG SEQRES 21 B 314 LEU PHE ASN LEU LEU LYS THR GLY HIS ARG MET GLU ARG SEQRES 22 B 314 PRO ASP ASN CYS SER GLU GLU MET TYR ARG LEU MET LEU SEQRES 23 B 314 GLN CYS TRP LYS GLN GLU PRO ASP LYS ARG PRO VAL PHE SEQRES 24 B 314 ALA ASP ILE SER LYS ASP LEU GLU LYS MET MET VAL LYS SEQRES 25 B 314 ARG ARG HET HJ0 A1101 23 HET HJ0 B1101 23 HETNAM HJ0 4-AZANYL-7-(1-METHYLCYCLOPROPYL)-~{N}-(5-METHYL-1~{H}- HETNAM 2 HJ0 PYRAZOL-3-YL)PYRROLO[2,3-D]PYRIMIDINE-5-CARBOXAMIDE FORMUL 3 HJ0 2(C15 H17 N7 O) FORMUL 5 HOH *369(H2 O) HELIX 1 AA1 PRO A 720 LYS A 722 5 3 HELIX 2 AA2 SER A 765 VAL A 782 1 18 HELIX 3 AA3 SER A 811 ARG A 820 1 10 HELIX 4 AA4 THR A 847 MET A 868 1 22 HELIX 5 AA5 ALA A 876 ARG A 878 5 3 HELIX 6 AA6 GLU A 884 ARG A 886 5 3 HELIX 7 AA7 PRO A 914 MET A 918 5 5 HELIX 8 AA8 ALA A 919 HIS A 926 1 8 HELIX 9 AA9 THR A 929 THR A 946 1 18 HELIX 10 AB1 PRO A 956 GLU A 958 5 3 HELIX 11 AB2 ARG A 959 THR A 966 1 8 HELIX 12 AB3 SER A 977 TRP A 988 1 12 HELIX 13 AB4 GLU A 991 ARG A 995 5 5 HELIX 14 AB5 VAL A 997 LYS A 1011 1 15 HELIX 15 AB6 PRO B 701 ILE B 711 1 11 HELIX 16 AB7 PRO B 720 LYS B 722 5 3 HELIX 17 AB8 LEU B 746 ARG B 749 5 4 HELIX 18 AB9 SER B 765 VAL B 782 1 18 HELIX 19 AC1 SER B 811 SER B 819 1 9 HELIX 20 AC2 THR B 847 MET B 868 1 22 HELIX 21 AC3 ALA B 876 ARG B 878 5 3 HELIX 22 AC4 PRO B 914 MET B 918 5 5 HELIX 23 AC5 ALA B 919 HIS B 926 1 8 HELIX 24 AC6 THR B 929 THR B 946 1 18 HELIX 25 AC7 PRO B 956 THR B 966 1 11 HELIX 26 AC8 SER B 977 TRP B 988 1 12 HELIX 27 AC9 GLU B 991 ARG B 995 5 5 HELIX 28 AD1 VAL B 997 ARG B 1012 1 16 SHEET 1 AA1 5 LEU A 724 GLY A 733 0 SHEET 2 AA1 5 GLY A 736 PHE A 744 -1 O VAL A 738 N GLY A 731 SHEET 3 AA1 5 TYR A 752 MET A 759 -1 O VAL A 757 N VAL A 739 SHEET 4 AA1 5 LEU A 801 GLU A 805 -1 O VAL A 804 N ALA A 756 SHEET 5 AA1 5 LEU A 790 CYS A 794 -1 N TYR A 791 O ILE A 803 SHEET 1 AA2 2 GLY A 825 TYR A 826 0 SHEET 2 AA2 2 ALA A 845 LEU A 846 1 O LEU A 846 N GLY A 825 SHEET 1 AA3 2 LEU A 870 VAL A 871 0 SHEET 2 AA3 2 ARG A 897 ASP A 898 -1 O ARG A 897 N VAL A 871 SHEET 1 AA4 2 ILE A 880 ALA A 883 0 SHEET 2 AA4 2 LYS A 887 ILE A 890 -1 O LYS A 887 N ALA A 883 SHEET 1 AA5 2 TYR A 905 VAL A 906 0 SHEET 2 AA5 2 ILE A 927 TYR A 928 -1 O TYR A 928 N TYR A 905 SHEET 1 AA6 5 LEU B 724 GLY B 733 0 SHEET 2 AA6 5 GLY B 736 PHE B 744 -1 O LYS B 740 N GLY B 727 SHEET 3 AA6 5 TYR B 752 MET B 759 -1 O VAL B 755 N ALA B 741 SHEET 4 AA6 5 LEU B 801 GLU B 805 -1 O VAL B 804 N ALA B 756 SHEET 5 AA6 5 LEU B 790 CYS B 794 -1 N GLY B 792 O ILE B 803 SHEET 1 AA7 2 LEU B 870 VAL B 871 0 SHEET 2 AA7 2 ARG B 897 ASP B 898 -1 O ARG B 897 N VAL B 871 SHEET 1 AA8 2 ILE B 880 ALA B 883 0 SHEET 2 AA8 2 LYS B 887 ILE B 890 -1 O LYS B 889 N LEU B 881 CISPEP 1 GLY A 823 PRO A 824 0 -3.26 SITE 1 AC1 14 LEU A 730 GLY A 731 ALA A 756 LYS A 758 SITE 2 AC1 14 GLU A 775 LEU A 779 ILE A 788 VAL A 804 SITE 3 AC1 14 GLU A 805 ALA A 807 LEU A 881 ASP A 892 SITE 4 AC1 14 HOH A1266 HOH A1320 SITE 1 AC2 13 LEU B 730 GLY B 731 ALA B 756 LYS B 758 SITE 2 AC2 13 GLU B 775 VAL B 804 GLU B 805 ALA B 807 SITE 3 AC2 13 SER B 811 LEU B 881 ASP B 892 HOH B1278 SITE 4 AC2 13 HOH B1283 CRYST1 50.714 80.215 79.677 90.00 99.40 90.00 P 1 21 1 4 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 0.019718 0.000000 0.003265 0.00000 SCALE2 0.000000 0.012466 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012722 0.00000