HEADER HYDROLASE/HYDROLASE INHIBITOR 13-MAY-13 4KP6 TITLE CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 4B (PDE4B) IN COMPLEX TITLE 2 WITH A [1,3,5]TRIAZINE DERIVATIVE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAMP-SPECIFIC 3',5'-CYCLIC PHOSPHODIESTERASE 4B; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN; COMPND 5 SYNONYM: DPDE4, PDE32; 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: DPDE4, PDE4B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PDE4 INHIBITOR, PHOSPHODIESTERASE, TRIAZINE, NEUTROPHILIA, COPD, KEYWDS 2 HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.GEWALD,C.GRUNWALD,U.EGERLAND REVDAT 4 28-FEB-24 4KP6 1 REMARK SEQADV LINK REVDAT 3 15-NOV-17 4KP6 1 REMARK REVDAT 2 17-JUL-13 4KP6 1 JRNL REVDAT 1 10-JUL-13 4KP6 0 JRNL AUTH R.GEWALD,C.GRUNWALD,U.EGERLAND JRNL TITL DISCOVERY OF TRIAZINES AS POTENT, SELECTIVE AND ORALLY JRNL TITL 2 ACTIVE PDE4 INHIBITORS. JRNL REF BIOORG.MED.CHEM.LETT. V. 23 4308 2013 JRNL REFN ISSN 0960-894X JRNL PMID 23806553 JRNL DOI 10.1016/J.BMCL.2013.05.099 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 57.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 89.3 REMARK 3 NUMBER OF REFLECTIONS : 47008 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1529 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2364 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 61.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.2010 REMARK 3 BIN FREE R VALUE SET COUNT : 90 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2621 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 99 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) : 19.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.47000 REMARK 3 B22 (A**2) : 0.47000 REMARK 3 B33 (A**2) : -0.93000 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): 0.076 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.078 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.046 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.534 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2826 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1892 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3806 ; 1.359 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4620 ; 1.283 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 339 ; 5.030 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 136 ;33.677 ;24.926 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 494 ;11.602 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;15.360 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 425 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3095 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 544 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 111 ; 0.157 ; 0.200 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): 17 ; 0.189 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 65 ; 0.267 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.363 ; 0.200 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): 1665 ; 1.481 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 662 ; 0.491 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2714 ; 2.382 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1161 ; 3.808 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1091 ; 5.726 ; 6.000 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 162 A 190 REMARK 3 ORIGIN FOR THE GROUP (A): -38.5940 80.1010 135.0430 REMARK 3 T TENSOR REMARK 3 T11: 0.0991 T22: 0.0979 REMARK 3 T33: 0.2145 T12: 0.0246 REMARK 3 T13: 0.0140 T23: 0.0706 REMARK 3 L TENSOR REMARK 3 L11: 1.6334 L22: 5.8412 REMARK 3 L33: 4.9323 L12: -1.9226 REMARK 3 L13: 0.7158 L23: 1.4650 REMARK 3 S TENSOR REMARK 3 S11: 0.0135 S12: -0.1088 S13: -0.2619 REMARK 3 S21: 0.2197 S22: 0.0452 S23: -0.3025 REMARK 3 S31: 0.5631 S32: 0.2494 S33: -0.0588 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 191 A 279 REMARK 3 ORIGIN FOR THE GROUP (A): -50.8680 87.9600 132.7450 REMARK 3 T TENSOR REMARK 3 T11: 0.0188 T22: 0.0122 REMARK 3 T33: 0.0160 T12: -0.0008 REMARK 3 T13: -0.0002 T23: 0.0076 REMARK 3 L TENSOR REMARK 3 L11: 1.6652 L22: 1.2323 REMARK 3 L33: 1.3407 L12: 0.1349 REMARK 3 L13: -0.1960 L23: -0.3697 REMARK 3 S TENSOR REMARK 3 S11: -0.0190 S12: -0.1095 S13: -0.0353 REMARK 3 S21: 0.1033 S22: 0.0025 S23: 0.0227 REMARK 3 S31: 0.0668 S32: -0.0230 S33: 0.0166 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 280 A 300 REMARK 3 ORIGIN FOR THE GROUP (A): -58.1780 90.1940 107.7730 REMARK 3 T TENSOR REMARK 3 T11: 0.0719 T22: 0.0640 REMARK 3 T33: 0.0492 T12: -0.0297 REMARK 3 T13: -0.0016 T23: -0.0083 REMARK 3 L TENSOR REMARK 3 L11: 3.5799 L22: 4.3785 REMARK 3 L33: 3.2899 L12: -2.9021 REMARK 3 L13: -1.2093 L23: 0.9520 REMARK 3 S TENSOR REMARK 3 S11: -0.0543 S12: 0.2740 S13: -0.1997 REMARK 3 S21: -0.2611 S22: -0.0013 S23: 0.1114 REMARK 3 S31: -0.0529 S32: -0.0011 S33: 0.0556 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 301 A 485 REMARK 3 ORIGIN FOR THE GROUP (A): -44.8720 95.4230 121.1270 REMARK 3 T TENSOR REMARK 3 T11: 0.0524 T22: 0.0234 REMARK 3 T33: 0.0311 T12: 0.0008 REMARK 3 T13: -0.0165 T23: 0.0216 REMARK 3 L TENSOR REMARK 3 L11: 2.2778 L22: 0.6871 REMARK 3 L33: 1.0360 L12: 0.2119 REMARK 3 L13: -0.3784 L23: -0.1551 REMARK 3 S TENSOR REMARK 3 S11: -0.0258 S12: 0.0978 S13: 0.0549 REMARK 3 S21: -0.0646 S22: -0.0016 S23: -0.0210 REMARK 3 S31: -0.0551 S32: 0.0179 S33: 0.0274 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4KP6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000079619. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : FIXED-EXIT LN2 COOLED DOUBLE REMARK 200 CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : RH COATED MERIDIONALLY FOCUSSING REMARK 200 MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48537 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 57.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.3 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 89.3 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ETHYLENE GLYCOLE, PEG1K, PH 5.9, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 114.52400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 26.66600 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 26.66600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 171.78600 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 26.66600 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 26.66600 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 57.26200 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 26.66600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 26.66600 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 171.78600 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 26.66600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 26.66600 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 57.26200 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 114.52400 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: 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 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 148 REMARK 465 ALA A 149 REMARK 465 MET A 150 REMARK 465 GLY A 151 REMARK 465 SER A 152 REMARK 465 ILE A 153 REMARK 465 SER A 154 REMARK 465 ARG A 155 REMARK 465 PHE A 156 REMARK 465 GLY A 157 REMARK 465 VAL A 158 REMARK 465 ASN A 159 REMARK 465 THR A 160 REMARK 465 GLU A 161 REMARK 465 GLN A 486 REMARK 465 SER A 487 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 163 CG CD OE1 OE2 REMARK 480 LYS A 168 CD CE NZ REMARK 480 GLN A 284 CD OE1 NE2 REMARK 480 GLU A 318 CG CD OE1 OE2 REMARK 480 MET A 351 CE REMARK 480 LYS A 365 CD CE NZ REMARK 480 SER A 368 OG REMARK 480 SER A 369 OG REMARK 480 TYR A 377 CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 GLU A 423 CD OE1 OE2 REMARK 480 GLU A 427 CG CD OE1 OE2 REMARK 480 LYS A 441 NZ REMARK 480 PRO A 485 CA C O CB CG CD 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 301 55.82 38.64 REMARK 500 ASP A 375 -78.09 -39.36 REMARK 500 LEU A 393 30.23 -99.12 REMARK 500 ILE A 450 -59.95 -125.33 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 503 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 238 NE2 REMARK 620 2 HIS A 274 NE2 98.0 REMARK 620 3 ASP A 275 OD2 87.8 87.2 REMARK 620 4 ASP A 392 OD1 92.5 89.2 176.4 REMARK 620 5 HOH A 711 O 87.1 174.7 94.2 89.4 REMARK 620 6 HOH A 712 O 166.1 95.3 88.8 91.7 79.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 275 OD1 REMARK 620 2 HOH A 612 O 84.8 REMARK 620 3 HOH A 613 O 87.7 91.6 REMARK 620 4 HOH A 709 O 170.6 87.8 86.7 REMARK 620 5 HOH A 712 O 93.8 94.4 173.9 92.5 REMARK 620 6 HOH A 726 O 96.3 178.8 89.0 91.1 85.0 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 1S1 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 513 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 514 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 515 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 516 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 517 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 518 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 519 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 520 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 521 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 522 DBREF 4KP6 A 152 487 UNP Q07343 PDE4B_HUMAN 324 659 SEQADV 4KP6 GLY A 148 UNP Q07343 EXPRESSION TAG SEQADV 4KP6 ALA A 149 UNP Q07343 EXPRESSION TAG SEQADV 4KP6 MET A 150 UNP Q07343 EXPRESSION TAG SEQADV 4KP6 GLY A 151 UNP Q07343 EXPRESSION TAG SEQRES 1 A 340 GLY ALA MET GLY SER ILE SER ARG PHE GLY VAL ASN THR SEQRES 2 A 340 GLU ASN GLU ASP HIS LEU ALA LYS GLU LEU GLU ASP LEU SEQRES 3 A 340 ASN LYS TRP GLY LEU ASN ILE PHE ASN VAL ALA GLY TYR SEQRES 4 A 340 SER HIS ASN ARG PRO LEU THR CYS ILE MET TYR ALA ILE SEQRES 5 A 340 PHE GLN GLU ARG ASP LEU LEU LYS THR PHE ARG ILE SER SEQRES 6 A 340 SER ASP THR PHE ILE THR TYR MET MET THR LEU GLU ASP SEQRES 7 A 340 HIS TYR HIS SER ASP VAL ALA TYR HIS ASN SER LEU HIS SEQRES 8 A 340 ALA ALA ASP VAL ALA GLN SER THR HIS VAL LEU LEU SER SEQRES 9 A 340 THR PRO ALA LEU ASP ALA VAL PHE THR ASP LEU GLU ILE SEQRES 10 A 340 LEU ALA ALA ILE PHE ALA ALA ALA ILE HIS ASP VAL ASP SEQRES 11 A 340 HIS PRO GLY VAL SER ASN GLN PHE LEU ILE ASN THR ASN SEQRES 12 A 340 SER GLU LEU ALA LEU MET TYR ASN ASP GLU SER VAL LEU SEQRES 13 A 340 GLU ASN HIS HIS LEU ALA VAL GLY PHE LYS LEU LEU GLN SEQRES 14 A 340 GLU GLU HIS CYS ASP ILE PHE MET ASN LEU THR LYS LYS SEQRES 15 A 340 GLN ARG GLN THR LEU ARG LYS MET VAL ILE ASP MET VAL SEQRES 16 A 340 LEU ALA THR ASP MET SER LYS HIS MET SER LEU LEU ALA SEQRES 17 A 340 ASP LEU LYS THR MET VAL GLU THR LYS LYS VAL THR SER SEQRES 18 A 340 SER GLY VAL LEU LEU LEU ASP ASN TYR THR ASP ARG ILE SEQRES 19 A 340 GLN VAL LEU ARG ASN MET VAL HIS CYS ALA ASP LEU SER SEQRES 20 A 340 ASN PRO THR LYS SER LEU GLU LEU TYR ARG GLN TRP THR SEQRES 21 A 340 ASP ARG ILE MET GLU GLU PHE PHE GLN GLN GLY ASP LYS SEQRES 22 A 340 GLU ARG GLU ARG GLY MET GLU ILE SER PRO MET CYS ASP SEQRES 23 A 340 LYS HIS THR ALA SER VAL GLU LYS SER GLN VAL GLY PHE SEQRES 24 A 340 ILE ASP TYR ILE VAL HIS PRO LEU TRP GLU THR TRP ALA SEQRES 25 A 340 ASP LEU VAL GLN PRO ASP ALA GLN ASP ILE LEU ASP THR SEQRES 26 A 340 LEU GLU ASP ASN ARG ASN TRP TYR GLN SER MET ILE PRO SEQRES 27 A 340 GLN SER HET 1S1 A 501 21 HET MG A 502 1 HET ZN A 503 1 HET EDO A 504 4 HET EDO A 505 4 HET EDO A 506 4 HET EDO A 507 5 HET EDO A 508 4 HET EDO A 509 4 HET EDO A 510 4 HET EDO A 511 4 HET EDO A 512 4 HET EDO A 513 4 HET EDO A 514 4 HET EDO A 515 4 HET EDO A 516 4 HET EDO A 517 4 HET EDO A 518 4 HET EDO A 519 4 HET EDO A 520 4 HET EDO A 521 4 HET EDO A 522 4 HETNAM 1S1 2-ETHYL-2-{[4-(METHYLAMINO)-6-(1H-1,2,4-TRIAZOL-1-YL)- HETNAM 2 1S1 1,3,5-TRIAZIN-2-YL]AMINO}BUTANENITRILE HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 1S1 C12 H17 N9 FORMUL 3 MG MG 2+ FORMUL 4 ZN ZN 2+ FORMUL 5 EDO 19(C2 H6 O2) FORMUL 24 HOH *151(H2 O) HELIX 1 1 ASN A 162 GLU A 171 1 10 HELIX 2 2 ASN A 179 SER A 187 1 9 HELIX 3 3 ARG A 190 ARG A 203 1 14 HELIX 4 4 ASP A 204 PHE A 209 1 6 HELIX 5 5 SER A 212 HIS A 226 1 15 HELIX 6 6 ASN A 235 SER A 251 1 17 HELIX 7 7 THR A 252 ASP A 256 5 5 HELIX 8 8 THR A 260 HIS A 274 1 15 HELIX 9 9 SER A 282 THR A 289 1 8 HELIX 10 10 SER A 291 TYR A 297 1 7 HELIX 11 11 SER A 301 LEU A 315 1 15 HELIX 12 12 THR A 327 ALA A 344 1 18 HELIX 13 13 THR A 345 SER A 348 5 4 HELIX 14 14 LYS A 349 THR A 363 1 15 HELIX 15 15 ASN A 376 LEU A 393 1 18 HELIX 16 16 SER A 394 LYS A 398 5 5 HELIX 17 17 SER A 399 ARG A 424 1 26 HELIX 18 18 SER A 438 ILE A 450 1 13 HELIX 19 19 ILE A 450 VAL A 462 1 13 HELIX 20 20 ALA A 466 MET A 483 1 18 LINK NE2 HIS A 238 ZN ZN A 503 1555 1555 2.14 LINK NE2 HIS A 274 ZN ZN A 503 1555 1555 2.15 LINK OD1 ASP A 275 MG MG A 502 1555 1555 2.10 LINK OD2 ASP A 275 ZN ZN A 503 1555 1555 2.11 LINK OD1 ASP A 392 ZN ZN A 503 1555 1555 2.13 LINK MG MG A 502 O HOH A 612 1555 1555 2.06 LINK MG MG A 502 O HOH A 613 1555 1555 2.09 LINK MG MG A 502 O HOH A 709 1555 1555 2.15 LINK MG MG A 502 O HOH A 712 1555 1555 2.01 LINK MG MG A 502 O HOH A 726 1555 1555 2.14 LINK ZN ZN A 503 O HOH A 711 1555 1555 2.24 LINK ZN ZN A 503 O HOH A 712 1555 1555 2.22 CISPEP 1 GLN A 463 PRO A 464 0 4.41 SITE 1 AC1 11 HIS A 234 MET A 347 ASN A 395 THR A 407 SITE 2 AC1 11 ILE A 410 MET A 431 SER A 442 GLN A 443 SITE 3 AC1 11 PHE A 446 HOH A 635 HOH A 646 SITE 1 AC2 6 ASP A 275 HOH A 612 HOH A 613 HOH A 709 SITE 2 AC2 6 HOH A 712 HOH A 726 SITE 1 AC3 6 HIS A 238 HIS A 274 ASP A 275 ASP A 392 SITE 2 AC3 6 HOH A 711 HOH A 712 SITE 1 AC4 6 THR A 208 PHE A 209 ASN A 325 LEU A 326 SITE 2 AC4 6 GLN A 330 EDO A 521 SITE 1 AC5 10 ARG A 210 ILE A 211 SER A 212 THR A 215 SITE 2 AC5 10 ASP A 321 ILE A 322 MET A 324 ASN A 325 SITE 3 AC5 10 EDO A 514 HOH A 605 SITE 1 AC6 7 ASN A 283 ASP A 299 SER A 301 VAL A 302 SITE 2 AC6 7 ASP A 346 SER A 348 EDO A 522 SITE 1 AC7 8 GLY A 177 LEU A 178 ILE A 180 ASP A 241 SITE 2 AC7 8 LYS A 398 LEU A 402 TRP A 406 HOH A 611 SITE 1 AC8 4 SER A 251 PRO A 253 ASP A 256 HOH A 669 SITE 1 AC9 4 LEU A 249 THR A 252 TRP A 458 ASP A 465 SITE 1 BC1 3 ASP A 340 LYS A 349 ARG A 385 SITE 1 BC2 3 TYR A 297 HIS A 306 ALA A 309 SITE 1 BC3 7 HIS A 234 GLY A 280 GLU A 413 PHE A 414 SITE 2 BC3 7 GLN A 417 EDO A 518 HOH A 625 SITE 1 BC4 3 SER A 212 HOH A 647 HOH A 671 SITE 1 BC5 5 SER A 212 ASP A 214 THR A 215 HIS A 319 SITE 2 BC5 5 EDO A 505 SITE 1 BC6 3 ARG A 331 ARG A 335 EDO A 516 SITE 1 BC7 5 ASP A 321 ARG A 331 ARG A 335 EDO A 515 SITE 2 BC7 5 HOH A 653 SITE 1 BC8 4 ASN A 174 GLU A 202 HIS A 247 SER A 251 SITE 1 BC9 6 SER A 282 PRO A 430 CYS A 432 EDO A 512 SITE 2 BC9 6 HOH A 693 HOH A 710 SITE 1 CC1 5 LEU A 250 LEU A 255 ALA A 257 VAL A 258 SITE 2 CC1 5 PHE A 259 SITE 1 CC2 7 ARG A 203 ASP A 204 LEU A 205 THR A 208 SITE 2 CC2 7 ASP A 261 ILE A 264 HOH A 609 SITE 1 CC3 5 THR A 208 ASP A 261 GLN A 330 EDO A 504 SITE 2 CC3 5 HOH A 746 SITE 1 CC4 4 GLU A 300 ASP A 346 LYS A 349 EDO A 506 CRYST1 53.332 53.332 229.048 90.00 90.00 90.00 P 43 21 2 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 0.018750 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018750 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004366 0.00000