HEADER HYDROLASE/HYDROLASE INHIBITOR 01-SEP-14 3WYK TITLE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF PDE10A COMPLEXED WITH 3- TITLE 2 (1-PHENYL-1H-PYRAZOL-5-YL)-1-(3-(TRIFLUOROMETHYL)PHENYL)PYRIDAZIN- TITLE 3 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 442-770; COMPND 6 EC: 3.1.4.17, 3.1.4.35; 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2 (DE3) PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.OKI,Y.HAYANO REVDAT 4 20-MAR-24 3WYK 1 REMARK LINK REVDAT 3 25-DEC-19 3WYK 1 JRNL REMARK REVDAT 2 22-NOV-17 3WYK 1 REMARK REVDAT 1 19-NOV-14 3WYK 0 JRNL AUTH J.KUNITOMO,M.YOSHIKAWA,M.FUSHIMI,A.KAWADA,J.F.QUINN,H.OKI, JRNL AUTH 2 H.KOKUBO,M.KONDO,K.NAKASHIMA,N.KAMIGUCHI,K.SUZUKI,H.KIMURA, JRNL AUTH 3 T.TANIGUCHI JRNL TITL DISCOVERY OF JRNL TITL 2 1-[2-FLUORO-4-(1H-PYRAZOL-1-YL) JRNL TITL 3 PHENYL]-5-METHOXY-3-(1-PHENYL-1H-PYRAZOL-5-YL) JRNL TITL 4 PYRIDAZIN-4(1H)-ONE (TAK-063), A HIGHLY POTENT, SELECTIVE, JRNL TITL 5 AND ORALLY ACTIVE PHOSPHODIESTERASE 10A (PDE10A) INHIBITOR. JRNL REF J.MED.CHEM. V. 57 9627 2014 JRNL REFN ISSN 0022-2623 JRNL PMID 25384088 JRNL DOI 10.1021/JM5013648 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.8.0049 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 23639 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) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1268 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1657 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.3050 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.3900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5120 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 151 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.11000 REMARK 3 B22 (A**2) : -0.65000 REMARK 3 B33 (A**2) : 0.53000 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): 0.742 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.296 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.263 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 24.568 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5310 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7196 ; 1.096 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 628 ; 4.928 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 250 ;38.066 ;24.080 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 932 ;16.083 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;18.580 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 778 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4112 ; 0.005 ; 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): 2518 ; 0.641 ; 2.147 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3144 ; 1.114 ; 3.218 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2792 ; 0.799 ; 2.227 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 : 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): 16.3240 2.3021 -13.0957 REMARK 3 T TENSOR REMARK 3 T11: 0.2394 T22: 0.0058 REMARK 3 T33: 0.1755 T12: 0.0015 REMARK 3 T13: -0.0211 T23: 0.0039 REMARK 3 L TENSOR REMARK 3 L11: 1.8427 L22: 3.4145 REMARK 3 L33: 2.4151 L12: -0.0106 REMARK 3 L13: -0.1992 L23: -0.3040 REMARK 3 S TENSOR REMARK 3 S11: -0.0870 S12: 0.0738 S13: 0.0953 REMARK 3 S21: 0.0571 S22: -0.0030 S23: -0.0512 REMARK 3 S31: -0.1322 S32: 0.0681 S33: 0.0900 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 759 REMARK 3 RESIDUE RANGE : B 1001 B 1003 REMARK 3 ORIGIN FOR THE GROUP (A): 7.1539 -34.5826 -26.4414 REMARK 3 T TENSOR REMARK 3 T11: 0.2772 T22: 0.0098 REMARK 3 T33: 0.1382 T12: 0.0010 REMARK 3 T13: -0.0159 T23: 0.0122 REMARK 3 L TENSOR REMARK 3 L11: 1.6639 L22: 3.1411 REMARK 3 L33: 2.2057 L12: 0.3953 REMARK 3 L13: -0.5232 L23: -0.5583 REMARK 3 S TENSOR REMARK 3 S11: 0.0246 S12: 0.0996 S13: 0.0778 REMARK 3 S21: -0.1048 S22: -0.0785 S23: -0.0033 REMARK 3 S31: 0.1579 S32: -0.0214 S33: 0.0539 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 REMARK 4 REMARK 4 3WYK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-SEP-14. REMARK 100 THE DEPOSITION ID IS D_1000096954. 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 : 7.52 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 : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24958 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 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 (%) : 99.5 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.14600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.95100 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200MM MAGNESIUM CHLORIDE HEXAHYDRATE, REMARK 280 25.7% PEG3350, PH 7.52, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 24.84800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 80.59600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.84800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 80.59600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.84800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.84800 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, 3 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 GLU B 760 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 TYR A 514 -50.11 -121.69 REMARK 500 THR A 603 42.02 -96.16 REMARK 500 VAL A 723 -59.18 -124.27 REMARK 500 ARG B 511 46.56 -84.11 REMARK 500 ASN B 516 -168.41 -116.76 REMARK 500 ASN B 534 37.70 -140.84 REMARK 500 ASP B 569 46.49 38.71 REMARK 500 VAL B 723 -65.42 -120.65 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 91.0 REMARK 620 3 ASP A 554 OD2 85.5 85.1 REMARK 620 4 ASP A 664 OD1 90.0 89.2 172.7 REMARK 620 5 HOH A1149 O 163.6 100.2 83.6 102.0 REMARK 620 6 HOH A1168 O 94.9 173.7 93.0 93.1 73.6 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 A1144 O 163.8 REMARK 620 3 HOH A1149 O 88.5 88.1 REMARK 620 4 HOH A1169 O 101.1 94.4 84.9 REMARK 620 5 HOH A1170 O 88.7 94.7 177.2 95.3 REMARK 620 6 HOH A1171 O 77.4 86.9 91.9 176.6 87.7 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 93.8 REMARK 620 3 ASP B 554 OD2 85.9 83.8 REMARK 620 4 ASP B 664 OD1 90.2 93.9 175.3 REMARK 620 5 HOH B1162 O 85.2 177.9 97.9 84.3 REMARK 620 6 HOH B1163 O 165.1 100.8 92.4 92.0 80.4 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 B1112 O 176.6 REMARK 620 3 HOH B1113 O 91.1 85.7 REMARK 620 4 HOH B1163 O 88.9 92.4 93.7 REMARK 620 5 HOH B1164 O 95.0 88.3 172.0 81.4 REMARK 620 6 HOH B1166 O 86.9 92.7 103.2 162.7 82.3 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 3KG 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 3KG B 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WYM RELATED DB: PDB REMARK 900 RELATED ID: 3WYL RELATED DB: PDB DBREF 3WYK A 442 779 UNP Q9Y233 PDE10_HUMAN 442 779 DBREF 3WYK 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 3KG A1003 28 HET MG B1001 1 HET ZN B1002 1 HET 3KG B1003 28 HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION HETNAM 3KG 3-(1-PHENYL-1H-PYRAZOL-5-YL)-1-[3-(TRIFLUOROMETHYL) HETNAM 2 3KG PHENYL]PYRIDAZIN-4(1H)-ONE FORMUL 3 MG 2(MG 2+) FORMUL 4 ZN 2(ZN 2+) FORMUL 5 3KG 2(C20 H13 F3 N4 O) FORMUL 9 HOH *151(H2 O) HELIX 1 1 GLU A 445 GLN A 451 1 7 HELIX 2 2 PRO A 455 CYS A 459 5 5 HELIX 3 3 LYS A 460 LEU A 464 5 5 HELIX 4 4 ILE A 469 ASN A 474 5 6 HELIX 5 5 MET A 475 GLY A 489 1 15 HELIX 6 6 GLU A 494 ASN A 508 1 15 HELIX 7 7 ASN A 516 ASN A 534 1 19 HELIX 8 8 THR A 539 HIS A 553 1 15 HELIX 9 9 SER A 561 PHE A 568 1 8 HELIX 10 10 HIS A 570 TYR A 576 1 7 HELIX 11 11 SER A 579 GLN A 594 1 16 HELIX 12 12 SER A 605 THR A 623 1 19 HELIX 13 13 ASP A 624 THR A 641 1 18 HELIX 14 14 ASN A 648 LEU A 665 1 18 HELIX 15 15 CYS A 666 LYS A 670 5 5 HELIX 16 16 LEU A 671 LEU A 696 1 26 HELIX 17 17 ASP A 705 ASP A 710 5 6 HELIX 18 18 GLU A 711 VAL A 723 1 13 HELIX 19 19 VAL A 723 LEU A 735 1 13 HELIX 20 20 THR A 738 GLY A 758 1 21 HELIX 21 21 PRO B 455 ILE B 462 1 8 HELIX 22 22 PHE B 472 ASN B 474 5 3 HELIX 23 23 MET B 475 GLY B 489 1 15 HELIX 24 24 GLU B 494 ASN B 508 1 15 HELIX 25 25 ASN B 516 ASN B 534 1 19 HELIX 26 26 HIS B 535 PHE B 538 5 4 HELIX 27 27 THR B 539 HIS B 553 1 15 HELIX 28 28 SER B 561 PHE B 568 1 8 HELIX 29 29 HIS B 570 TYR B 576 1 7 HELIX 30 30 SER B 579 GLN B 594 1 16 HELIX 31 31 SER B 605 THR B 623 1 19 HELIX 32 32 ASP B 624 THR B 641 1 18 HELIX 33 33 ASN B 648 LEU B 665 1 18 HELIX 34 34 CYS B 666 LYS B 670 5 5 HELIX 35 35 LEU B 671 LEU B 696 1 26 HELIX 36 36 ILE B 701 ASP B 710 5 10 HELIX 37 37 GLU B 711 VAL B 723 1 13 HELIX 38 38 VAL B 723 LEU B 735 1 13 HELIX 39 39 THR B 738 GLY B 758 1 21 LINK NE2 HIS A 519 ZN ZN A1002 1555 1555 2.20 LINK NE2 HIS A 553 ZN ZN A1002 1555 1555 2.09 LINK OD1 ASP A 554 MG MG A1001 1555 1555 2.25 LINK OD2 ASP A 554 ZN ZN A1002 1555 1555 2.30 LINK OD1 ASP A 664 ZN ZN A1002 1555 1555 2.07 LINK MG MG A1001 O HOH A1144 1555 1555 1.94 LINK MG MG A1001 O HOH A1149 1555 1555 2.01 LINK MG MG A1001 O HOH A1169 1555 1555 2.09 LINK MG MG A1001 O HOH A1170 1555 1555 2.01 LINK MG MG A1001 O HOH A1171 1555 1555 2.17 LINK ZN ZN A1002 O HOH A1149 1555 1555 2.12 LINK ZN ZN A1002 O HOH A1168 1555 1555 2.26 LINK NE2 HIS B 519 ZN ZN B1002 1555 1555 2.17 LINK NE2 HIS B 553 ZN ZN B1002 1555 1555 2.14 LINK OD1 ASP B 554 MG MG B1001 1555 1555 2.10 LINK OD2 ASP B 554 ZN ZN B1002 1555 1555 2.11 LINK OD1 ASP B 664 ZN ZN B1002 1555 1555 2.09 LINK MG MG B1001 O HOH B1112 1555 1555 2.10 LINK MG MG B1001 O HOH B1113 1555 1555 2.13 LINK MG MG B1001 O HOH B1163 1555 1555 2.11 LINK MG MG B1001 O HOH B1164 1555 1555 2.34 LINK MG MG B1001 O HOH B1166 1555 1555 2.02 LINK ZN ZN B1002 O HOH B1162 1555 1555 2.43 LINK ZN ZN B1002 O HOH B1163 1555 1555 2.20 SITE 1 AC1 7 ASP A 554 GLU A 582 HOH A1144 HOH A1149 SITE 2 AC1 7 HOH A1169 HOH A1170 HOH A1171 SITE 1 AC2 6 HIS A 519 HIS A 553 ASP A 554 ASP A 664 SITE 2 AC2 6 HOH A1149 HOH A1168 SITE 1 AC3 6 TYR A 514 HIS A 515 MET A 703 GLN A 716 SITE 2 AC3 6 PHE A 719 HOH A1103 SITE 1 AC4 6 ASP B 554 HOH B1112 HOH B1113 HOH B1163 SITE 2 AC4 6 HOH B1164 HOH B1166 SITE 1 AC5 6 HIS B 519 HIS B 553 ASP B 554 ASP B 664 SITE 2 AC5 6 HOH B1162 HOH B1163 SITE 1 AC6 8 LEU A 696 GLY A 697 ILE A 698 HOH A1107 SITE 2 AC6 8 TYR B 514 GLN B 716 PHE B 719 HOH B1116 CRYST1 49.696 81.696 161.192 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 0.020122 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012241 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006204 0.00000