HEADER HYDROLASE/HYDROLASE INHIBITOR 05-APR-16 5B4L TITLE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN PDE10A COMPLEXED TITLE 2 WITH 1-(CYCLOPROPYLMETHYL)-5-(2-(2,3-DIHYDRO-1H-IMIDAZO[1,2- TITLE 3 A]BENZIMIDAZOL-1-YL)ETHOXY)-3-(1-PHENYL-1H-PYRAZOL-5-YL)PYRIDAZIN- TITLE 4 4(1H)-ONE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAMP AND CAMP-INHIBITED CGMP 3',5'-CYCLIC PHOSPHODIESTERASE COMPND 3 10A; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: CATALYTIC DOMAIN, UNP RESIDUES 442-779; COMPND 6 EC: 3.1.4.17; 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: PDE10A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.OKI,Y.ZAMA REVDAT 3 08-NOV-23 5B4L 1 JRNL REMARK LINK REVDAT 2 03-AUG-16 5B4L 1 JRNL REVDAT 1 29-JUN-16 5B4L 0 JRNL AUTH M.YOSHIKAWA,T.HITAKA,T.HASUI,M.FUSHIMI,J.KUNITOMO,H.KOKUBO, JRNL AUTH 2 H.OKI,K.NAKASHIMA,T.TANIGUCHI JRNL TITL DESIGN AND SYNTHESIS OF POTENT AND SELECTIVE JRNL TITL 2 PYRIDAZIN-4(1H)-ONE-BASED PDE10A INHIBITORS INTERACTING WITH JRNL TITL 3 TYR683 IN THE PDE10A SELECTIVITY POCKET JRNL REF BIOORG.MED.CHEM. V. 24 3447 2016 JRNL REFN ESSN 1464-3391 JRNL PMID 27301679 JRNL DOI 10.1016/J.BMC.2016.05.049 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 79.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 24381 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) : 0.235 REMARK 3 R VALUE (WORKING SET) : 0.233 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1269 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1781 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.3470 REMARK 3 BIN FREE R VALUE SET COUNT : 99 REMARK 3 BIN FREE R VALUE : 0.3890 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5129 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 78 REMARK 3 SOLVENT ATOMS : 118 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.20000 REMARK 3 B22 (A**2) : 0.04000 REMARK 3 B33 (A**2) : -0.24000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.750 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.322 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.313 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 28.477 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5343 ; 0.005 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7242 ; 1.013 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 629 ; 4.214 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 251 ;36.372 ;24.104 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 934 ;13.905 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;12.109 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 781 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4156 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2522 ; 1.173 ; 4.851 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3149 ; 1.991 ; 8.176 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2821 ; 1.377 ; 4.994 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): 8798 ; 4.500 ;21.964 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 : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 445 A 759 REMARK 3 RESIDUE RANGE : A 1001 A 1003 REMARK 3 ORIGIN FOR THE GROUP (A): 16.1636 2.3011 -13.0432 REMARK 3 T TENSOR REMARK 3 T11: 0.2052 T22: 0.0024 REMARK 3 T33: 0.2687 T12: 0.0069 REMARK 3 T13: -0.0152 T23: -0.0008 REMARK 3 L TENSOR REMARK 3 L11: 0.4183 L22: 0.4715 REMARK 3 L33: 0.2954 L12: -0.0188 REMARK 3 L13: 0.0095 L23: -0.1513 REMARK 3 S TENSOR REMARK 3 S11: 0.0047 S12: 0.0057 S13: -0.0017 REMARK 3 S21: 0.0382 S22: -0.0259 S23: -0.0311 REMARK 3 S31: -0.0456 S32: -0.0046 S33: 0.0212 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 445 B 760 REMARK 3 RESIDUE RANGE : B 1001 B 1003 REMARK 3 ORIGIN FOR THE GROUP (A): 7.1153 -34.3058 -26.1935 REMARK 3 T TENSOR REMARK 3 T11: 0.2082 T22: 0.0145 REMARK 3 T33: 0.2443 T12: -0.0009 REMARK 3 T13: 0.0031 T23: 0.0064 REMARK 3 L TENSOR REMARK 3 L11: 0.2392 L22: 0.6746 REMARK 3 L33: 0.5891 L12: 0.1104 REMARK 3 L13: -0.0164 L23: -0.0831 REMARK 3 S TENSOR REMARK 3 S11: 0.0207 S12: 0.0174 S13: 0.0219 REMARK 3 S21: 0.0035 S22: -0.0774 S23: -0.0256 REMARK 3 S31: 0.0540 S32: -0.0203 S33: 0.0567 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: NULL REMARK 4 REMARK 4 5B4L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-APR-16. REMARK 100 THE DEPOSITION ID IS D_1300000517. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.88 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97645 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26587 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 79.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.44 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: MOLREP REMARK 200 STARTING MODEL: 3WYM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES PH 7.88, 100 MM MAGNESIUM REMARK 280 CHLORIDE HEXAHYDRATE, 25.7% PEG 3350, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 24.56300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 79.59100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.76850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 79.59100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.56300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.76850 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 90 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 90 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 THR A 442 REMARK 465 SER A 443 REMARK 465 GLU A 444 REMARK 465 GLU A 760 REMARK 465 THR A 761 REMARK 465 ALA A 762 REMARK 465 THR A 763 REMARK 465 TRP A 764 REMARK 465 ILE A 765 REMARK 465 SER A 766 REMARK 465 SER A 767 REMARK 465 PRO A 768 REMARK 465 SER A 769 REMARK 465 VAL A 770 REMARK 465 ALA A 771 REMARK 465 GLN A 772 REMARK 465 LYS A 773 REMARK 465 ALA A 774 REMARK 465 ALA A 775 REMARK 465 ALA A 776 REMARK 465 SER A 777 REMARK 465 GLU A 778 REMARK 465 ASP A 779 REMARK 465 THR B 442 REMARK 465 SER B 443 REMARK 465 GLU B 444 REMARK 465 THR B 761 REMARK 465 ALA B 762 REMARK 465 THR B 763 REMARK 465 TRP B 764 REMARK 465 ILE B 765 REMARK 465 SER B 766 REMARK 465 SER B 767 REMARK 465 PRO B 768 REMARK 465 SER B 769 REMARK 465 VAL B 770 REMARK 465 ALA B 771 REMARK 465 GLN B 772 REMARK 465 LYS B 773 REMARK 465 ALA B 774 REMARK 465 ALA B 775 REMARK 465 ALA B 776 REMARK 465 SER B 777 REMARK 465 GLU B 778 REMARK 465 ASP B 779 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 SER A 579 60.94 38.70 REMARK 500 CYS A 666 -1.12 -59.93 REMARK 500 VAL A 723 -56.86 -121.26 REMARK 500 ARG B 511 26.83 -75.92 REMARK 500 VAL B 723 -64.37 -125.52 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 ZN A1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 519 NE2 REMARK 620 2 HIS A 553 NE2 100.2 REMARK 620 3 ASP A 554 OD2 83.4 78.8 REMARK 620 4 ASP A 664 OD1 91.3 77.7 154.6 REMARK 620 5 HOH A1104 O 71.5 171.2 97.0 104.9 REMARK 620 6 HOH A1120 O 151.2 106.8 92.1 103.9 81.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 554 OD1 REMARK 620 2 HOH A1101 O 108.0 REMARK 620 3 HOH A1114 O 89.8 159.5 REMARK 620 4 HOH A1118 O 94.5 84.6 104.4 REMARK 620 5 HOH A1120 O 90.5 84.6 85.3 169.0 REMARK 620 6 HOH A1135 O 165.5 75.9 84.3 99.9 75.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 519 NE2 REMARK 620 2 HIS B 553 NE2 99.4 REMARK 620 3 ASP B 554 OD2 87.6 90.1 REMARK 620 4 ASP B 664 OD1 97.0 92.1 174.5 REMARK 620 5 HOH B1106 O 84.8 175.1 92.7 84.8 REMARK 620 6 HOH B1121 O 158.8 99.7 83.4 91.3 76.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 554 OD1 REMARK 620 2 HOH B1102 O 93.6 REMARK 620 3 HOH B1104 O 172.0 85.4 REMARK 620 4 HOH B1113 O 78.7 103.0 93.8 REMARK 620 5 HOH B1121 O 94.4 91.5 93.6 164.2 REMARK 620 6 HOH B1131 O 106.8 154.0 76.6 96.9 71.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6DW A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6DW B 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5B4K RELATED DB: PDB DBREF 5B4L A 442 779 UNP Q9Y233 PDE10_HUMAN 442 779 DBREF 5B4L B 442 779 UNP Q9Y233 PDE10_HUMAN 442 779 SEQRES 1 A 338 THR SER GLU GLU TRP GLN GLY LEU MET GLN PHE THR LEU SEQRES 2 A 338 PRO VAL ARG LEU CYS LYS GLU ILE GLU LEU PHE HIS PHE SEQRES 3 A 338 ASP ILE GLY PRO PHE GLU ASN MET TRP PRO GLY ILE PHE SEQRES 4 A 338 VAL TYR MET VAL HIS ARG SER CYS GLY THR SER CYS PHE SEQRES 5 A 338 GLU LEU GLU LYS LEU CYS ARG PHE ILE MET SER VAL LYS SEQRES 6 A 338 LYS ASN TYR ARG ARG VAL PRO TYR HIS ASN TRP LYS HIS SEQRES 7 A 338 ALA VAL THR VAL ALA HIS CYS MET TYR ALA ILE LEU GLN SEQRES 8 A 338 ASN ASN HIS THR LEU PHE THR ASP LEU GLU ARG LYS GLY SEQRES 9 A 338 LEU LEU ILE ALA CYS LEU CYS HIS ASP LEU ASP HIS ARG SEQRES 10 A 338 GLY PHE SER ASN SER TYR LEU GLN LYS PHE ASP HIS PRO SEQRES 11 A 338 LEU ALA ALA LEU TYR SER THR SER THR MET GLU GLN HIS SEQRES 12 A 338 HIS PHE SER GLN THR VAL SER ILE LEU GLN LEU GLU GLY SEQRES 13 A 338 HIS ASN ILE PHE SER THR LEU SER SER SER GLU TYR GLU SEQRES 14 A 338 GLN VAL LEU GLU ILE ILE ARG LYS ALA ILE ILE ALA THR SEQRES 15 A 338 ASP LEU ALA LEU TYR PHE GLY ASN ARG LYS GLN LEU GLU SEQRES 16 A 338 GLU MET TYR GLN THR GLY SER LEU ASN LEU ASN ASN GLN SEQRES 17 A 338 SER HIS ARG ASP ARG VAL ILE GLY LEU MET MET THR ALA SEQRES 18 A 338 CYS ASP LEU CYS SER VAL THR LYS LEU TRP PRO VAL THR SEQRES 19 A 338 LYS LEU THR ALA ASN ASP ILE TYR ALA GLU PHE TRP ALA SEQRES 20 A 338 GLU GLY ASP GLU MET LYS LYS LEU GLY ILE GLN PRO ILE SEQRES 21 A 338 PRO MET MET ASP ARG ASP LYS LYS ASP GLU VAL PRO GLN SEQRES 22 A 338 GLY GLN LEU GLY PHE TYR ASN ALA VAL ALA ILE PRO CYS SEQRES 23 A 338 TYR THR THR LEU THR GLN ILE LEU PRO PRO THR GLU PRO SEQRES 24 A 338 LEU LEU LYS ALA CYS ARG ASP ASN LEU SER GLN TRP GLU SEQRES 25 A 338 LYS VAL ILE ARG GLY GLU GLU THR ALA THR TRP ILE SER SEQRES 26 A 338 SER PRO SER VAL ALA GLN LYS ALA ALA ALA SER GLU ASP SEQRES 1 B 338 THR SER GLU GLU TRP GLN GLY LEU MET GLN PHE THR LEU SEQRES 2 B 338 PRO VAL ARG LEU CYS LYS GLU ILE GLU LEU PHE HIS PHE SEQRES 3 B 338 ASP ILE GLY PRO PHE GLU ASN MET TRP PRO GLY ILE PHE SEQRES 4 B 338 VAL TYR MET VAL HIS ARG SER CYS GLY THR SER CYS PHE SEQRES 5 B 338 GLU LEU GLU LYS LEU CYS ARG PHE ILE MET SER VAL LYS SEQRES 6 B 338 LYS ASN TYR ARG ARG VAL PRO TYR HIS ASN TRP LYS HIS SEQRES 7 B 338 ALA VAL THR VAL ALA HIS CYS MET TYR ALA ILE LEU GLN SEQRES 8 B 338 ASN ASN HIS THR LEU PHE THR ASP LEU GLU ARG LYS GLY SEQRES 9 B 338 LEU LEU ILE ALA CYS LEU CYS HIS ASP LEU ASP HIS ARG SEQRES 10 B 338 GLY PHE SER ASN SER TYR LEU GLN LYS PHE ASP HIS PRO SEQRES 11 B 338 LEU ALA ALA LEU TYR SER THR SER THR MET GLU GLN HIS SEQRES 12 B 338 HIS PHE SER GLN THR VAL SER ILE LEU GLN LEU GLU GLY SEQRES 13 B 338 HIS ASN ILE PHE SER THR LEU SER SER SER GLU TYR GLU SEQRES 14 B 338 GLN VAL LEU GLU ILE ILE ARG LYS ALA ILE ILE ALA THR SEQRES 15 B 338 ASP LEU ALA LEU TYR PHE GLY ASN ARG LYS GLN LEU GLU SEQRES 16 B 338 GLU MET TYR GLN THR GLY SER LEU ASN LEU ASN ASN GLN SEQRES 17 B 338 SER HIS ARG ASP ARG VAL ILE GLY LEU MET MET THR ALA SEQRES 18 B 338 CYS ASP LEU CYS SER VAL THR LYS LEU TRP PRO VAL THR SEQRES 19 B 338 LYS LEU THR ALA ASN ASP ILE TYR ALA GLU PHE TRP ALA SEQRES 20 B 338 GLU GLY ASP GLU MET LYS LYS LEU GLY ILE GLN PRO ILE SEQRES 21 B 338 PRO MET MET ASP ARG ASP LYS LYS ASP GLU VAL PRO GLN SEQRES 22 B 338 GLY GLN LEU GLY PHE TYR ASN ALA VAL ALA ILE PRO CYS SEQRES 23 B 338 TYR THR THR LEU THR GLN ILE LEU PRO PRO THR GLU PRO SEQRES 24 B 338 LEU LEU LYS ALA CYS ARG ASP ASN LEU SER GLN TRP GLU SEQRES 25 B 338 LYS VAL ILE ARG GLY GLU GLU THR ALA THR TRP ILE SER SEQRES 26 B 338 SER PRO SER VAL ALA GLN LYS ALA ALA ALA SER GLU ASP HET MG A1001 1 HET ZN A1002 1 HET 6DW A1003 37 HET MG B1001 1 HET ZN B1002 1 HET 6DW B1003 37 HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION HETNAM 6DW 1-(CYCLOPROPYLMETHYL)-5-(2-(2,3-DIHYDRO-1H-IMIDAZO[1,2- HETNAM 2 6DW A]BENZIMIDAZOL-1-YL)ETHOXY)-3-(1-PHENYL-1H-PYRAZOL-5- HETNAM 3 6DW YL)PYRIDAZIN-4(1H)-ONE FORMUL 3 MG 2(MG 2+) FORMUL 4 ZN 2(ZN 2+) FORMUL 5 6DW 2(C28 H27 N7 O2) FORMUL 9 HOH *118(H2 O) HELIX 1 AA1 GLU A 445 PHE A 452 1 8 HELIX 2 AA2 PRO A 455 CYS A 459 5 5 HELIX 3 AA3 LYS A 460 LEU A 464 5 5 HELIX 4 AA4 ILE A 469 ASN A 474 5 6 HELIX 5 AA5 MET A 475 GLY A 489 1 15 HELIX 6 AA6 GLU A 494 ASN A 508 1 15 HELIX 7 AA7 ASN A 516 ASN A 533 1 18 HELIX 8 AA8 THR A 539 HIS A 553 1 15 HELIX 9 AA9 SER A 561 PHE A 568 1 8 HELIX 10 AB1 HIS A 570 TYR A 576 1 7 HELIX 11 AB2 SER A 579 GLN A 594 1 16 HELIX 12 AB3 SER A 605 ALA A 622 1 18 HELIX 13 AB4 ASP A 624 THR A 641 1 18 HELIX 14 AB5 ASN A 648 LEU A 665 1 18 HELIX 15 AB6 CYS A 666 LYS A 670 5 5 HELIX 16 AB7 LEU A 671 LYS A 695 1 25 HELIX 17 AB8 ASP A 705 ASP A 710 5 6 HELIX 18 AB9 GLU A 711 VAL A 723 1 13 HELIX 19 AC1 VAL A 723 LEU A 735 1 13 HELIX 20 AC2 THR A 738 GLY A 758 1 21 HELIX 21 AC3 TRP B 446 MET B 450 1 5 HELIX 22 AC4 PRO B 455 ILE B 462 1 8 HELIX 23 AC5 ILE B 469 ASN B 474 5 6 HELIX 24 AC6 MET B 475 GLY B 489 1 15 HELIX 25 AC7 GLU B 494 ASN B 508 1 15 HELIX 26 AC8 ASN B 516 ASN B 534 1 19 HELIX 27 AC9 HIS B 535 PHE B 538 5 4 HELIX 28 AD1 THR B 539 HIS B 553 1 15 HELIX 29 AD2 SER B 561 PHE B 568 1 8 HELIX 30 AD3 HIS B 570 TYR B 576 1 7 HELIX 31 AD4 SER B 579 GLN B 594 1 16 HELIX 32 AD5 SER B 605 THR B 623 1 19 HELIX 33 AD6 ASP B 624 THR B 641 1 18 HELIX 34 AD7 ASN B 648 LEU B 665 1 18 HELIX 35 AD8 CYS B 666 LYS B 670 5 5 HELIX 36 AD9 LEU B 671 LEU B 696 1 26 HELIX 37 AE1 ILE B 701 ASP B 710 5 10 HELIX 38 AE2 GLU B 711 VAL B 723 1 13 HELIX 39 AE3 VAL B 723 LEU B 735 1 13 HELIX 40 AE4 THR B 738 ARG B 757 1 20 LINK NE2 HIS A 519 ZN ZN A1002 1555 1555 2.33 LINK NE2 HIS A 553 ZN ZN A1002 1555 1555 2.01 LINK OD1 ASP A 554 MG MG A1001 1555 1555 2.06 LINK OD2 ASP A 554 ZN ZN A1002 1555 1555 2.04 LINK OD1 ASP A 664 ZN ZN A1002 1555 1555 2.07 LINK MG MG A1001 O HOH A1101 1555 1555 2.16 LINK MG MG A1001 O HOH A1114 1555 1555 2.23 LINK MG MG A1001 O HOH A1118 1555 1555 2.12 LINK MG MG A1001 O HOH A1120 1555 1555 2.04 LINK MG MG A1001 O HOH A1135 1555 1555 2.08 LINK ZN ZN A1002 O HOH A1104 1555 1555 2.09 LINK ZN ZN A1002 O HOH A1120 1555 1555 2.15 LINK NE2 HIS B 519 ZN ZN B1002 1555 1555 2.14 LINK NE2 HIS B 553 ZN ZN B1002 1555 1555 1.99 LINK OD1 ASP B 554 MG MG B1001 1555 1555 2.23 LINK OD2 ASP B 554 ZN ZN B1002 1555 1555 2.02 LINK OD1 ASP B 664 ZN ZN B1002 1555 1555 2.19 LINK MG MG B1001 O HOH B1102 1555 1555 2.11 LINK MG MG B1001 O HOH B1104 1555 1555 1.88 LINK MG MG B1001 O HOH B1113 1555 1555 2.23 LINK MG MG B1001 O HOH B1121 1555 1555 1.86 LINK MG MG B1001 O HOH B1131 1555 1555 2.69 LINK ZN ZN B1002 O HOH B1106 1555 1555 2.38 LINK ZN ZN B1002 O HOH B1121 1555 1555 2.29 SITE 1 AC1 7 ASP A 554 GLU A 582 HOH A1101 HOH A1114 SITE 2 AC1 7 HOH A1118 HOH A1120 HOH A1135 SITE 1 AC2 6 HIS A 519 HIS A 553 ASP A 554 ASP A 664 SITE 2 AC2 6 HOH A1104 HOH A1120 SITE 1 AC3 14 TYR A 514 HIS A 515 LEU A 625 TYR A 683 SITE 2 AC3 14 PHE A 686 PRO A 702 MET A 703 LYS A 708 SITE 3 AC3 14 GLU A 711 GLY A 715 GLN A 716 PHE A 719 SITE 4 AC3 14 HOH A1111 HOH A1125 SITE 1 AC4 7 ASP B 554 GLU B 582 HOH B1102 HOH B1104 SITE 2 AC4 7 HOH B1113 HOH B1121 HOH B1131 SITE 1 AC5 6 HIS B 519 HIS B 553 ASP B 554 ASP B 664 SITE 2 AC5 6 HOH B1106 HOH B1121 SITE 1 AC6 18 LYS A 695 LEU A 696 TYR B 514 HIS B 515 SITE 2 AC6 18 LEU B 625 LEU B 665 ILE B 682 TYR B 683 SITE 3 AC6 18 PHE B 686 PRO B 702 MET B 703 LYS B 708 SITE 4 AC6 18 GLU B 711 VAL B 712 GLY B 715 GLN B 716 SITE 5 AC6 18 PHE B 719 HOH B1107 CRYST1 49.126 81.537 159.182 90.00 90.00 90.00 P 21 21 21 8 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 0.020356 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012264 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006282 0.00000