HEADER HYDROLASE/HYDROLASE INHIBITOR 20-SEP-11 3TVX TITLE THE STRUCTURE OF PDE4A WITH PENTOXIFYLLINE AT 2.84A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAMP-SPECIFIC 3',5'-CYCLIC PHOSPHODIESTERASE 4A; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN RESIDUES 351-683; COMPND 5 SYNONYM: DPDE2, PDE46; 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: PDE4A, DPDE2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.BADGER,V.SRIDHAR REVDAT 3 13-SEP-23 3TVX 1 REMARK SEQADV LINK REVDAT 2 11-APR-12 3TVX 1 JRNL REVDAT 1 25-JAN-12 3TVX 0 JRNL AUTH M.I.RECHT,V.SRIDHAR,J.BADGER,L.HERNANDEZ,B.CHIE-LEON, JRNL AUTH 2 V.NIENABER,F.E.TORRES JRNL TITL FRAGMENT-BASED SCREENING FOR INHIBITORS OF PDE4A USING JRNL TITL 2 ENTHALPY ARRAYS AND X-RAY CRYSTALLOGRAPHY. JRNL REF J BIOMOL SCREEN V. 17 469 2012 JRNL REFN ISSN 1087-0571 JRNL PMID 22223051 JRNL DOI 10.1177/1087057111430987 REMARK 2 REMARK 2 RESOLUTION. 2.84 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 2.84 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 21117 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) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1136 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) : 2.84 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.91 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1523 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 72 REMARK 3 BIN FREE R VALUE : 0.3410 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5383 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 54 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 70.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.424 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.295 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.717 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.890 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5543 ; 0.007 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7529 ; 1.003 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 666 ; 4.429 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 276 ;37.591 ;24.783 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 965 ;16.002 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;16.909 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 850 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4190 ; 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): 3338 ; 0.473 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5404 ; 0.899 ; 2.500 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2205 ; 0.887 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2125 ; 1.507 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3TVX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000067986. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.25 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22313 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.840 REMARK 200 RESOLUTION RANGE LOW (A) : 48.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.84 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.90 REMARK 200 R MERGE FOR SHELL (I) : 0.57800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.500 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: 3I8V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2UL OF 34MG/ML PROTEIN IN HEPES PH 7.5 REMARK 280 150MM NACL, 5MM DTT WITH 2UL OF 1.5MM AMMONIUM SULFATE, 0.1 M REMARK 280 BIS/TRIS PROPANE , VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K, PH 7.25 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -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 81.82600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 52.46900 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 52.46900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 40.91300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 52.46900 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 52.46900 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 122.73900 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 52.46900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 52.46900 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 40.91300 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 52.46900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 52.46900 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 122.73900 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 81.82600 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 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 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 GLY A 285 REMARK 465 ALA A 286 REMARK 465 GLY A 287 REMARK 465 THR A 288 REMARK 465 GLY B 285 REMARK 465 ALA B 286 REMARK 465 GLY B 287 REMARK 465 THR B 288 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 297 CG CD CE NZ REMARK 470 LYS A 474 CD CE NZ REMARK 470 LYS B 297 CG CD CE NZ 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 LEU A 472 CA - CB - CG ANGL. DEV. = 14.4 DEGREES REMARK 500 LEU B 472 CA - CB - CG ANGL. DEV. = 14.4 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 ILE A 291 102.09 67.23 REMARK 500 GLN A 300 61.91 -118.49 REMARK 500 ARG A 328 59.49 -117.40 REMARK 500 SER A 439 53.04 32.63 REMARK 500 LEU A 531 49.28 -108.98 REMARK 500 PRO A 537 127.46 -37.20 REMARK 500 ASP B 513 -80.99 -69.95 REMARK 500 PRO B 537 127.94 -38.26 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 A 900 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 376 NE2 REMARK 620 2 HIS A 412 NE2 88.8 REMARK 620 3 ASP A 413 OD2 85.7 81.8 REMARK 620 4 ASP A 530 OD1 88.7 84.7 165.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 900 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 376 NE2 REMARK 620 2 HIS B 412 NE2 87.6 REMARK 620 3 ASP B 413 OD2 86.1 79.0 REMARK 620 4 ASP B 530 OD1 86.2 80.5 158.4 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PNX A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PNX B 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 904 DBREF 3TVX A 290 622 UNP P27815 PDE4A_HUMAN 351 683 DBREF 3TVX B 290 622 UNP P27815 PDE4A_HUMAN 351 683 SEQADV 3TVX GLY A 285 UNP P27815 EXPRESSION TAG SEQADV 3TVX ALA A 286 UNP P27815 EXPRESSION TAG SEQADV 3TVX GLY A 287 UNP P27815 EXPRESSION TAG SEQADV 3TVX THR A 288 UNP P27815 EXPRESSION TAG SEQADV 3TVX MET A 289 UNP P27815 EXPRESSION TAG SEQADV 3TVX GLY B 285 UNP P27815 EXPRESSION TAG SEQADV 3TVX ALA B 286 UNP P27815 EXPRESSION TAG SEQADV 3TVX GLY B 287 UNP P27815 EXPRESSION TAG SEQADV 3TVX THR B 288 UNP P27815 EXPRESSION TAG SEQADV 3TVX MET B 289 UNP P27815 EXPRESSION TAG SEQRES 1 A 338 GLY ALA GLY THR MET ASN ILE PRO ARG PHE GLY VAL LYS SEQRES 2 A 338 THR ASP GLN GLU GLU LEU LEU ALA GLN GLU LEU GLU ASN SEQRES 3 A 338 LEU ASN LYS TRP GLY LEU ASN ILE PHE CYS VAL SER ASP SEQRES 4 A 338 TYR ALA GLY GLY ARG SER LEU THR CYS ILE MET TYR MET SEQRES 5 A 338 ILE PHE GLN GLU ARG ASP LEU LEU LYS LYS PHE ARG ILE SEQRES 6 A 338 PRO VAL ASP THR MET VAL THR TYR MET LEU THR LEU GLU SEQRES 7 A 338 ASP HIS TYR HIS ALA ASP VAL ALA TYR HIS ASN SER LEU SEQRES 8 A 338 HIS ALA ALA ASP VAL LEU GLN SER THR HIS VAL LEU LEU SEQRES 9 A 338 ALA THR PRO ALA LEU ASP ALA VAL PHE THR ASP LEU GLU SEQRES 10 A 338 ILE LEU ALA ALA LEU PHE ALA ALA ALA ILE HIS ASP VAL SEQRES 11 A 338 ASP HIS PRO GLY VAL SER ASN GLN PHE LEU ILE ASN THR SEQRES 12 A 338 ASN SER GLU LEU ALA LEU MET TYR ASN ASP GLU SER VAL SEQRES 13 A 338 LEU GLU ASN HIS HIS LEU ALA VAL GLY PHE LYS LEU LEU SEQRES 14 A 338 GLN GLU ASP ASN CYS ASP ILE PHE GLN ASN LEU SER LYS SEQRES 15 A 338 ARG GLN ARG GLN SER LEU ARG LYS MET VAL ILE ASP MET SEQRES 16 A 338 VAL LEU ALA THR ASP MET SER LYS HIS MET THR LEU LEU SEQRES 17 A 338 ALA ASP LEU LYS THR MET VAL GLU THR LYS LYS VAL THR SEQRES 18 A 338 SER SER GLY VAL LEU LEU LEU ASP ASN TYR SER ASP ARG SEQRES 19 A 338 ILE GLN VAL LEU ARG ASN MET VAL HIS CYS ALA ASP LEU SEQRES 20 A 338 SER ASN PRO THR LYS PRO LEU GLU LEU TYR ARG GLN TRP SEQRES 21 A 338 THR ASP ARG ILE MET ALA GLU PHE PHE GLN GLN GLY ASP SEQRES 22 A 338 ARG GLU ARG GLU ARG GLY MET GLU ILE SER PRO MET CYS SEQRES 23 A 338 ASP LYS HIS THR ALA SER VAL GLU LYS SER GLN VAL GLY SEQRES 24 A 338 PHE ILE ASP TYR ILE VAL HIS PRO LEU TRP GLU THR TRP SEQRES 25 A 338 ALA ASP LEU VAL HIS PRO ASP ALA GLN GLU ILE LEU ASP SEQRES 26 A 338 THR LEU GLU ASP ASN ARG ASP TRP TYR TYR SER ALA ILE SEQRES 1 B 338 GLY ALA GLY THR MET ASN ILE PRO ARG PHE GLY VAL LYS SEQRES 2 B 338 THR ASP GLN GLU GLU LEU LEU ALA GLN GLU LEU GLU ASN SEQRES 3 B 338 LEU ASN LYS TRP GLY LEU ASN ILE PHE CYS VAL SER ASP SEQRES 4 B 338 TYR ALA GLY GLY ARG SER LEU THR CYS ILE MET TYR MET SEQRES 5 B 338 ILE PHE GLN GLU ARG ASP LEU LEU LYS LYS PHE ARG ILE SEQRES 6 B 338 PRO VAL ASP THR MET VAL THR TYR MET LEU THR LEU GLU SEQRES 7 B 338 ASP HIS TYR HIS ALA ASP VAL ALA TYR HIS ASN SER LEU SEQRES 8 B 338 HIS ALA ALA ASP VAL LEU GLN SER THR HIS VAL LEU LEU SEQRES 9 B 338 ALA THR PRO ALA LEU ASP ALA VAL PHE THR ASP LEU GLU SEQRES 10 B 338 ILE LEU ALA ALA LEU PHE ALA ALA ALA ILE HIS ASP VAL SEQRES 11 B 338 ASP HIS PRO GLY VAL SER ASN GLN PHE LEU ILE ASN THR SEQRES 12 B 338 ASN SER GLU LEU ALA LEU MET TYR ASN ASP GLU SER VAL SEQRES 13 B 338 LEU GLU ASN HIS HIS LEU ALA VAL GLY PHE LYS LEU LEU SEQRES 14 B 338 GLN GLU ASP ASN CYS ASP ILE PHE GLN ASN LEU SER LYS SEQRES 15 B 338 ARG GLN ARG GLN SER LEU ARG LYS MET VAL ILE ASP MET SEQRES 16 B 338 VAL LEU ALA THR ASP MET SER LYS HIS MET THR LEU LEU SEQRES 17 B 338 ALA ASP LEU LYS THR MET VAL GLU THR LYS LYS VAL THR SEQRES 18 B 338 SER SER GLY VAL LEU LEU LEU ASP ASN TYR SER ASP ARG SEQRES 19 B 338 ILE GLN VAL LEU ARG ASN MET VAL HIS CYS ALA ASP LEU SEQRES 20 B 338 SER ASN PRO THR LYS PRO LEU GLU LEU TYR ARG GLN TRP SEQRES 21 B 338 THR ASP ARG ILE MET ALA GLU PHE PHE GLN GLN GLY ASP SEQRES 22 B 338 ARG GLU ARG GLU ARG GLY MET GLU ILE SER PRO MET CYS SEQRES 23 B 338 ASP LYS HIS THR ALA SER VAL GLU LYS SER GLN VAL GLY SEQRES 24 B 338 PHE ILE ASP TYR ILE VAL HIS PRO LEU TRP GLU THR TRP SEQRES 25 B 338 ALA ASP LEU VAL HIS PRO ASP ALA GLN GLU ILE LEU ASP SEQRES 26 B 338 THR LEU GLU ASP ASN ARG ASP TRP TYR TYR SER ALA ILE HET ZN A 900 1 HET MG A 901 1 HET PNX A 902 20 HET ZN B 900 1 HET MG B 901 1 HET PNX B 902 20 HET SO4 B 903 5 HET SO4 B 904 5 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM PNX 3,7-DIMETHYL-1-(5-OXOHEXYL)-3,7-DIHYDRO-1H-PURINE-2,6- HETNAM 2 PNX DIONE HETNAM SO4 SULFATE ION HETSYN PNX PENTOXIFYLLINE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 MG 2(MG 2+) FORMUL 5 PNX 2(C13 H18 N4 O3) FORMUL 9 SO4 2(O4 S 2-) HELIX 1 1 GLN A 300 LEU A 308 1 9 HELIX 2 2 GLU A 309 LEU A 311 5 3 HELIX 3 3 ASN A 317 ALA A 325 1 9 HELIX 4 4 ARG A 328 ARG A 341 1 14 HELIX 5 5 ASP A 342 ARG A 348 1 7 HELIX 6 6 PRO A 350 HIS A 364 1 15 HELIX 7 7 ASN A 373 THR A 390 1 18 HELIX 8 8 PRO A 391 ASP A 394 5 4 HELIX 9 9 THR A 398 HIS A 412 1 15 HELIX 10 10 SER A 420 THR A 427 1 8 HELIX 11 11 SER A 429 TYR A 435 1 7 HELIX 12 12 SER A 439 LEU A 452 1 14 HELIX 13 13 LEU A 453 GLU A 455 5 3 HELIX 14 14 SER A 465 ALA A 482 1 18 HELIX 15 15 THR A 483 SER A 486 5 4 HELIX 16 16 LYS A 487 THR A 501 1 15 HELIX 17 17 ASN A 514 LEU A 531 1 18 HELIX 18 18 SER A 532 LYS A 536 5 5 HELIX 19 19 PRO A 537 ARG A 562 1 26 HELIX 20 20 SER A 576 ILE A 588 1 13 HELIX 21 21 ILE A 588 HIS A 601 1 14 HELIX 22 22 ALA A 604 ALA A 621 1 18 HELIX 23 23 GLN B 300 LEU B 308 1 9 HELIX 24 24 GLU B 309 LEU B 311 5 3 HELIX 25 25 ASN B 317 GLY B 326 1 10 HELIX 26 26 ARG B 328 ARG B 341 1 14 HELIX 27 27 ASP B 342 PHE B 347 1 6 HELIX 28 28 PRO B 350 HIS B 364 1 15 HELIX 29 29 ASN B 373 THR B 390 1 18 HELIX 30 30 PRO B 391 ASP B 394 5 4 HELIX 31 31 THR B 398 HIS B 412 1 15 HELIX 32 32 SER B 420 THR B 427 1 8 HELIX 33 33 SER B 429 TYR B 435 1 7 HELIX 34 34 SER B 439 LEU B 452 1 14 HELIX 35 35 LEU B 453 GLU B 455 5 3 HELIX 36 36 SER B 465 ALA B 482 1 18 HELIX 37 37 THR B 483 SER B 486 5 4 HELIX 38 38 LYS B 487 THR B 501 1 15 HELIX 39 39 ASN B 514 LEU B 531 1 18 HELIX 40 40 SER B 532 LYS B 536 5 5 HELIX 41 41 PRO B 537 ARG B 562 1 26 HELIX 42 42 SER B 576 ILE B 588 1 13 HELIX 43 43 ILE B 588 VAL B 600 1 13 HELIX 44 44 ALA B 604 ILE B 622 1 19 LINK NE2 HIS A 376 ZN ZN A 900 1555 1555 2.17 LINK NE2 HIS A 412 ZN ZN A 900 1555 1555 2.16 LINK OD2 ASP A 413 ZN ZN A 900 1555 1555 2.14 LINK OD1 ASP A 413 MG MG A 901 1555 1555 2.38 LINK OD1 ASP A 530 ZN ZN A 900 1555 1555 2.32 LINK NE2 HIS B 376 ZN ZN B 900 1555 1555 2.25 LINK NE2 HIS B 412 ZN ZN B 900 1555 1555 2.18 LINK OD2 ASP B 413 ZN ZN B 900 1555 1555 2.12 LINK OD1 ASP B 413 MG MG B 901 1555 1555 2.33 LINK OD1 ASP B 530 ZN ZN B 900 1555 1555 2.28 CISPEP 1 HIS A 601 PRO A 602 0 3.03 CISPEP 2 HIS B 601 PRO B 602 0 -0.22 SITE 1 AC1 4 HIS A 376 HIS A 412 ASP A 413 ASP A 530 SITE 1 AC2 3 HIS A 412 ASP A 413 THR A 483 SITE 1 AC3 5 TYR A 371 ASN A 533 MET A 569 GLN A 581 SITE 2 AC3 5 PHE A 584 SITE 1 AC4 5 HIS B 376 HIS B 412 ASP B 413 ASP B 530 SITE 2 AC4 5 MG B 901 SITE 1 AC5 2 ASP B 413 ZN B 900 SITE 1 AC6 6 TYR B 371 ASN B 533 ILE B 548 MET B 569 SITE 2 AC6 6 GLN B 581 PHE B 584 SITE 1 AC7 4 ASP B 513 ASN B 514 TYR B 515 ARG B 518 SITE 1 AC8 4 ARG B 467 ARG B 560 LYS B 572 HIS B 573 CRYST1 104.938 104.938 163.652 90.00 90.00 90.00 P 41 21 2 16 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 0.009529 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009529 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006111 0.00000