HEADER HYDROLASE 15-MAR-06 2CHM TITLE CRYSTAL STRUCTURE OF N2 SUBSTITUTED PYRAZOLO PYRIMIDINONES - A FLIPPED TITLE 2 BINDING MODE IN PDE5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CGMP-SPECIFIC 3', 5'-CYCLIC PHOSPHODIESTERASE, CAMP- COMPND 3 SPECIFIC 3', 5'-CYCLIC PHOSPHODIESTERASE 4B; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: CATALYTIC DOMAIN RESIDUES (RESIDUES 534-858 WITH SUBDOMAIN COMPND 6 REPLACED WITH PDE4 SUBDOMAIN); COMPND 7 SYNONYM: 3', 5' CGMP-CYCLIC PHOPHODIESTERASE 5A CATALYTIC DOMAIN COMPND 8 CHIMERA, CGB-PDE, CGMP-BINDING CGMP-SPECIFIC PHOSPHODIESTERASE, COMPND 9 DPDE4, PDE32; COMPND 10 EC: 3.1.4.17, 3.1.4.35; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: 5-(5-ACETYL-2-BUTOXY-3-PYRIDINYL)-3-ETHYL-2 -(1-ETHYL- COMPND 13 3-AZETIDINYL)-2,6-DIHYDRO-7H-PYRAZOLO (4,3-D) PYRIMIDIN-7-ONE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 7 EXPRESSION_SYSTEM_CELL_LINE: HIGH FIVE; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: FASTBAC KEYWDS PHOSPHODIESTERASE 5, INHIBITOR, CHIMERA, ALLOSTERIC ENZYME, KEYWDS 2 ALTERNATIVE SPLICING, CGMP, CGMP-BINDING, HYDROLASE, MAGNESIUM, KEYWDS 3 METAL-BINDING, NUCLEOTIDE-BINDING, PHOSPHORYLATION, ZINC, CAMP EXPDTA X-RAY DIFFRACTION AUTHOR C.M.N.ALLERTON,C.G.BARBER,K.C.BEAUMONT,D.G.BROWN,S.M.COLE,D.ELLIS, AUTHOR 2 C.A.L.LANE,G.N.MAW,N.M.MOUNT,D.J.RAWSON,C.M.ROBINSON,S.D.A.STREET, AUTHOR 3 N.W.SUMMERHILL REVDAT 3 27-MAR-19 2CHM 1 SOURCE REVDAT 2 24-FEB-09 2CHM 1 VERSN REVDAT 1 08-JUN-06 2CHM 0 JRNL AUTH C.M.N.ALLERTON,C.G.BARBER,K.C.BEAUMONT,D.G.BROWN,S.M.COLE, JRNL AUTH 2 D.ELLIS,C.A.L.LANE,G.N.MAW,N.M.MOUNT,D.J.RAWSON, JRNL AUTH 3 C.M.ROBINSON,S.D.A.STREET,N.W.SUMMERHILL JRNL TITL A NOVEL SERIES OF POTENT AND SELECTIVE PDE5 INHIBITORS WITH JRNL TITL 2 POTENTIAL FOR HIGH AND DOSE-INDEPENDENT ORAL BIOAVAILABILITY JRNL REF J.MED.CHEM. V. 49 3581 2006 JRNL REFN ISSN 0022-2623 JRNL PMID 16759100 JRNL DOI 10.1021/JM060113E REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNX 2002 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN,ACCELRYS REMARK 3 : SOFTWARE INC.(BADGER,BERARD,KUMAR,SZALMA, REMARK 3 : YIP,DZAKULA) REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 40971 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 2052 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2611 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 515 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.04800 REMARK 3 B22 (A**2) : 0.10900 REMARK 3 B33 (A**2) : -0.06100 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.08900 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.634 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 43.80 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : 427387.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2CHM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1290028162. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JAN-01 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU IMAGE PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41016 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : 3.420 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 64.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.11000 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: CNX REMARK 200 STARTING MODEL: FROM PATENT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 2KMME, 0.1M MES PH6.5, 50MM REMARK 280 AMMONIUM SULPHATE, PH 6.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 27.91800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.32800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 27.91800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 38.32800 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 400 REMARK 400 COMPOUND REMARK 400 THE CHIMERA HAS NEAR IDENTICAL ENZYME ACTIVITY AS WILD REMARK 400 TYPE RECOMBINANT PDE5 CATALYTIC DOMAIN 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 GLU A 534 REMARK 465 GLU A 535 REMARK 465 GLU A 536 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2204 O HOH A 2204 2556 2.10 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 538 -68.53 70.94 REMARK 500 LYS A 630 -80.38 -87.62 REMARK 500 ASP A 678 12.62 59.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2377 DISTANCE = 6.49 ANGSTROMS REMARK 525 HOH A2382 DISTANCE = 5.89 ANGSTROMS 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 A1859 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 653 NE2 REMARK 620 2 HIS A 617 NE2 105.9 REMARK 620 3 ASP A 654 OD2 90.1 98.6 REMARK 620 4 ASP A 764 OD2 83.6 78.0 171.6 REMARK 620 5 HOH A2508 O 92.2 156.6 96.0 89.7 REMARK 620 6 HOH A2509 O 167.3 81.8 98.8 88.3 78.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1860 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2118 O REMARK 620 2 HOH A2223 O 83.6 REMARK 620 3 HOH A2508 O 72.3 89.9 REMARK 620 4 HOH A2222 O 156.7 85.8 87.0 REMARK 620 5 HOH A2182 O 110.0 84.3 173.4 89.5 REMARK 620 6 ASP A 654 OD1 108.9 167.3 91.7 81.7 93.3 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 ZN A1859 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1860 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3P4 A1861 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A1862 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1F0J RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B2B REMARK 900 RELATED ID: 1JP1 RELATED DB: PDB REMARK 900 MOLECULAR DOCKING OF COMPETITIVE PHOSPHODIESTERASESUBSTRATE CYCLIC REMARK 900 ADENOSINE 3',5 '-MONOPHOSPHATE (CAMP) REMARK 900 RELATED ID: 1JP2 RELATED DB: PDB REMARK 900 MOLECULAR DOCKING OF COMPETITIVE PHOSPHODIESTERASEINHIBITOR, 4-[3- REMARK 900 (CYCLOPENTYLOXY )-4-METHOXYPHENYL]-2-PYRROLIDINONE, ROLIPRAM REMARK 900 RELATED ID: 1RO6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PDE4B2B COMPLEXED WITH ROLIPRAM (R & S) REMARK 900 RELATED ID: 1RO9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF THE CATALYTIC DOMAIN OFPHOSPHODIESTERASE 4B2B REMARK 900 COMPLEXED WITH 8-BR- AMP REMARK 900 RELATED ID: 1ROR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF THE CATALYTIC DOMAIN OFPHOSPHODIESTERASE 4B2B REMARK 900 COMPLEXED WITH AMP REMARK 900 RELATED ID: 1RKP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PDE5A1-IBMX REMARK 900 RELATED ID: 1T9R RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A REMARK 900 RELATED ID: 1T9S RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN COMPLEXWITH GMP REMARK 900 RELATED ID: 1TB5 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH AMP REMARK 900 RELATED ID: 1TBF RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN COMPLEXWITH REMARK 900 SILDENAFIL REMARK 900 RELATED ID: 1UDT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 5 COMPLEXEDWITH REMARK 900 SILDENAFIL(VIAGRA) REMARK 900 RELATED ID: 1UDU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 5 COMPLEXEDWITH REMARK 900 TADALAFIL(CIALIS) REMARK 900 RELATED ID: 1UHO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 5 COMPLEXEDWITH REMARK 900 VARDENAFIL(LEVITRA) REMARK 900 RELATED ID: 1XLX RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH REMARK 900 CILOMILAST REMARK 900 RELATED ID: 1XLZ RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH REMARK 900 FILAMINAST REMARK 900 RELATED ID: 1XM4 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH REMARK 900 PICLAMILAST REMARK 900 RELATED ID: 1XM6 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH (R)- REMARK 900 MESOPRAM REMARK 900 RELATED ID: 1XMU RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH REMARK 900 ROFLUMILAST REMARK 900 RELATED ID: 1XMY RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH (R)- REMARK 900 ROLIPRAM REMARK 900 RELATED ID: 1XN0 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH (R,S)- REMARK 900 ROLIPRAM REMARK 900 RELATED ID: 1XOS RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH REMARK 900 SILDENAFIL REMARK 900 RELATED ID: 1XOT RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH REMARK 900 VARDENAFIL REMARK 900 RELATED ID: 1XOZ RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN COMPLEXWITH REMARK 900 TADALAFIL REMARK 900 RELATED ID: 1XP0 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN COMPLEXWITH REMARK 900 VARDENAFIL REMARK 900 RELATED ID: 1Y2H RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH 1-(2- REMARK 900 CHLORO-PHENYL)-3,5- DIMETHYL-1H-PYRAZOLE-4-CARBOXYLIC ACID ETHYL REMARK 900 ESTER REMARK 900 RELATED ID: 1Y2J RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B IN COMPLEXWITH 3,5- REMARK 900 DIMETHYL-1-(3-NITRO- PHENYL)-1H-PYRAZOLE-4-CARBOXYLIC ACID ETHYL REMARK 900 ESTER REMARK 999 REMARK 999 SEQUENCE REMARK 999 NOTE SUBDOMAIN CHIMERA DELETED PDE5A RESIDUES 657-681 AND REMARK 999 INSERTED RESIDUES 657-681A FROM PDE4B DBREF 2CHM A 534 656 UNP O76074 PDE5A_HUMAN 534 656 DBREF 2CHM A 657 681A UNP Q07343 PDE4B_HUMAN 450 475 DBREF 2CHM A 682 858 UNP O76074 PDE5A_HUMAN 682 858 SEQADV 2CHM GLU A 751 UNP O76074 GLN 751 CONFLICT SEQRES 1 A 326 GLU GLU GLU THR ARG GLU LEU GLN SER LEU ALA ALA ALA SEQRES 2 A 326 VAL VAL PRO SER ALA GLN THR LEU LYS ILE THR ASP PHE SEQRES 3 A 326 SER PHE SER ASP PHE GLU LEU SER ASP LEU GLU THR ALA SEQRES 4 A 326 LEU CYS THR ILE ARG MET PHE THR ASP LEU ASN LEU VAL SEQRES 5 A 326 GLN ASN PHE GLN MET LYS HIS GLU VAL LEU CYS ARG TRP SEQRES 6 A 326 ILE LEU SER VAL LYS LYS ASN TYR ARG LYS ASN VAL ALA SEQRES 7 A 326 TYR HIS ASN TRP ARG HIS ALA PHE ASN THR ALA GLN CYS SEQRES 8 A 326 MET PHE ALA ALA LEU LYS ALA GLY LYS ILE GLN ASN LYS SEQRES 9 A 326 LEU THR ASP LEU GLU ILE LEU ALA LEU LEU ILE ALA ALA SEQRES 10 A 326 LEU SER HIS ASP LEU ASP HIS PRO GLY VAL SER ASN GLN SEQRES 11 A 326 PHE LEU ILE ASN THR ASN SER GLU LEU ALA LEU MET TYR SEQRES 12 A 326 ASN ASP GLU SER VAL LEU GLU HIS HIS HIS PHE ASP GLN SEQRES 13 A 326 CYS LEU MET ILE LEU ASN SER PRO GLY ASN GLN ILE LEU SEQRES 14 A 326 SER GLY LEU SER ILE GLU GLU TYR LYS THR THR LEU LYS SEQRES 15 A 326 ILE ILE LYS GLN ALA ILE LEU ALA THR ASP LEU ALA LEU SEQRES 16 A 326 TYR ILE LYS ARG ARG GLY GLU PHE PHE GLU LEU ILE ARG SEQRES 17 A 326 LYS ASN GLN PHE ASN LEU GLU ASP PRO HIS GLU LYS GLU SEQRES 18 A 326 LEU PHE LEU ALA MET LEU MET THR ALA CYS ASP LEU SER SEQRES 19 A 326 ALA ILE THR LYS PRO TRP PRO ILE GLN GLN ARG ILE ALA SEQRES 20 A 326 GLU LEU VAL ALA THR GLU PHE PHE ASP GLN GLY ASP ARG SEQRES 21 A 326 GLU ARG LYS GLU LEU ASN ILE GLU PRO THR ASP LEU MET SEQRES 22 A 326 ASN ARG GLU LYS LYS ASN LYS ILE PRO SER MET GLN VAL SEQRES 23 A 326 GLY PHE ILE ASP ALA ILE CYS LEU GLN LEU TYR GLU ALA SEQRES 24 A 326 LEU THR HIS VAL SER GLU ASP CYS PHE PRO LEU LEU ASP SEQRES 25 A 326 GLY CYS ARG LYS ASN ARG GLN LYS TRP GLN ALA LEU ALA SEQRES 26 A 326 GLU HET ZN A1859 1 HET MG A1860 1 HET 3P4 A1861 32 HET MES A1862 12 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM 3P4 5-[2-(BUT-3-EN-1-YLOXY)-5-(1-HYDROXYVINYL)PYRIDIN-3- HETNAM 2 3P4 YL]-3-ETHYL-2-(1-ETHYLAZETIDIN-3-YL)-1,2,6,7A- HETNAM 3 3P4 TETRAHYDRO-7H-PYRAZOLO[4,3-D]PYRIMIDIN-7-ONE HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETSYN 3P4 5-(5-ACETYL-2-BUTOXY-3-PYRIDINYL)-3-ETHYL-2-(1-ETHYL-3- HETSYN 2 3P4 AZETIDINYL)-2,6-DIHYDRO-7H-PYRAZOLO (4,3-D) PYRIMIDIN- HETSYN 3 3P4 7-ONE FORMUL 2 ZN ZN 2+ FORMUL 3 MG MG 2+ FORMUL 4 3P4 C23 H29 N6 O3 1+ FORMUL 5 MES C6 H13 N O4 S FORMUL 6 HOH *515(H2 O) HELIX 1 1 ARG A 538 ALA A 546 1 9 HELIX 2 2 SER A 550 LYS A 555 1 6 HELIX 3 3 SER A 567 LEU A 582 1 16 HELIX 4 4 LYS A 591 ASN A 605 1 15 HELIX 5 5 ASN A 614 ALA A 631 1 18 HELIX 6 6 ILE A 634 LEU A 638 5 5 HELIX 7 7 THR A 639 HIS A 653 1 15 HELIX 8 8 SER A 661 THR A 668 1 8 HELIX 9 9 SER A 670 TYR A 676 1 7 HELIX 10 10 SER A 680 SER A 695 1 17 HELIX 11 11 SER A 705 THR A 723 1 19 HELIX 12 12 ASP A 724 LYS A 741 1 18 HELIX 13 13 ASP A 748 LEU A 765 1 18 HELIX 14 14 SER A 766 LYS A 770 5 5 HELIX 15 15 PRO A 771 LEU A 797 1 27 HELIX 16 16 THR A 802 ASN A 806 5 5 HELIX 17 17 ASN A 806 ASN A 811 5 6 HELIX 18 18 LYS A 812 ILE A 824 1 13 HELIX 19 19 CYS A 825 SER A 836 1 12 HELIX 20 20 CYS A 839 GLU A 858 1 20 LINK ZN ZN A1859 NE2 HIS A 653 1555 1555 2.20 LINK ZN ZN A1859 NE2 HIS A 617 1555 1555 2.23 LINK ZN ZN A1859 OD2 ASP A 654 1555 1555 2.11 LINK ZN ZN A1859 OD2 ASP A 764 1555 1555 2.20 LINK ZN ZN A1859 O HOH A2508 1555 1555 2.29 LINK ZN ZN A1859 O HOH A2509 1555 1555 2.30 LINK MG MG A1860 O HOH A2118 1555 1555 2.51 LINK MG MG A1860 O HOH A2223 1555 1555 2.38 LINK MG MG A1860 O HOH A2508 1555 1555 2.30 LINK MG MG A1860 O HOH A2222 1555 1555 2.34 LINK MG MG A1860 O HOH A2182 1555 1555 2.35 LINK MG MG A1860 OD1 ASP A 654 1555 1555 2.27 SITE 1 AC1 6 HIS A 617 HIS A 653 ASP A 654 ASP A 764 SITE 2 AC1 6 HOH A2508 HOH A2509 SITE 1 AC2 6 ASP A 654 HOH A2118 HOH A2182 HOH A2222 SITE 2 AC2 6 HOH A2223 HOH A2508 SITE 1 AC3 16 ALA A 545 LEU A 725 LEU A 765 ALA A 767 SITE 2 AC3 16 ILE A 768 GLN A 775 ALA A 779 VAL A 782 SITE 3 AC3 16 ALA A 783 LEU A 804 MET A 816 GLN A 817 SITE 4 AC3 16 PHE A 820 HOH A2510 HOH A2511 HOH A2512 SITE 1 AC4 11 ARG A 607 LYS A 608 ASN A 609 ASN A 742 SITE 2 AC4 11 GLN A 743 PHE A 744 ASN A 745 HOH A2154 SITE 3 AC4 11 HOH A2513 HOH A2514 HOH A2515 CRYST1 55.836 76.656 81.269 90.00 102.58 90.00 C 1 2 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 0.017910 0.000000 0.003997 0.00000 SCALE2 0.000000 0.013045 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012607 0.00000