PDB Short entry for 5UOY HEADER HYDROLASE/HYDROLASE INHIBITOR 01-FEB-17 5UOY TITLE CRYSTAL STRUCTURE OF HUMAN PDE1B CATALYTIC DOMAIN IN COMPLEX WITH TITLE 2 INHIBITOR 16J (6-(4-METHOXYBENZYL)-9-((TETRAHYDRO-2H-PYRAN-4-YL) TITLE 3 METHYL)-8,9,10,11-TETRAHYDROPYRIDO[4',3':4,5]THIENO[3,2-E][1,2, TITLE 4 4]TRIAZOLO[1,5-C]PYRIMIDIN-5(6H)-ONE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALCIUM/CALMODULIN-DEPENDENT 3',5'-CYCLIC NUCLEOTIDE COMPND 3 PHOSPHODIESTERASE 1B; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: CAM-PDE 1B,63 KDA CAM-PDE; 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: PDE1B, PDE1B1, PDES1B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, HYDROLASE INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.P.CEDERVALL,C.K.ALLERSTON,R.XU,V.SRIDHAR,R.BARKER,K.AERTGEERTS REVDAT 3 04-OCT-23 5UOY 1 LINK REVDAT 2 10-MAY-17 5UOY 1 JRNL REVDAT 1 26-APR-17 5UOY 0 JRNL AUTH B.DYCK,B.BRANSTETTER,T.GHARBAOUI,A.R.HUDSON, JRNL AUTH 2 J.G.BREITENBUCHER,L.GOMEZ,I.BOTROUS,T.MARRONE,R.BARIDO, JRNL AUTH 3 C.K.ALLERSTON,E.P.CEDERVALL,R.XU,V.SRIDHAR,R.BARKER, JRNL AUTH 4 K.AERTGEERTS,K.SCHMELZER,D.NEUL,D.LEE,M.E.MASSARI, JRNL AUTH 5 C.B.ANDERSEN,K.SEBRING,X.ZHOU,R.PETROSKI,J.LIMBERIS, JRNL AUTH 6 M.AUGUSTIN,L.E.CHUN,T.E.EDWARDS,M.PETERS,A.TABATABAEI JRNL TITL DISCOVERY OF SELECTIVE PHOSPHODIESTERASE 1 INHIBITORS WITH JRNL TITL 2 MEMORY ENHANCING PROPERTIES. JRNL REF J. MED. CHEM. V. 60 3472 2017 JRNL REFN ISSN 1520-4804 JRNL PMID 28406621 JRNL DOI 10.1021/ACS.JMEDCHEM.7B00302 REMARK 2 REMARK 2 RESOLUTION. 1.82 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.82 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 46918 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.870 REMARK 3 FREE R VALUE TEST SET COUNT : 2285 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 61.9125 - 4.5855 0.99 3044 165 0.1629 0.1732 REMARK 3 2 4.5855 - 3.6398 0.99 2870 149 0.1491 0.1924 REMARK 3 3 3.6398 - 3.1797 0.99 2894 125 0.1684 0.2142 REMARK 3 4 3.1797 - 2.8890 0.98 2804 152 0.1814 0.2109 REMARK 3 5 2.8890 - 2.6819 0.99 2807 139 0.1810 0.2604 REMARK 3 6 2.6819 - 2.5238 0.99 2790 150 0.1843 0.1752 REMARK 3 7 2.5238 - 2.3974 0.99 2832 120 0.1789 0.2449 REMARK 3 8 2.3974 - 2.2930 0.99 2778 153 0.1871 0.2126 REMARK 3 9 2.2930 - 2.2048 0.97 2721 131 0.2295 0.2769 REMARK 3 10 2.2048 - 2.1287 0.99 2758 153 0.2165 0.2324 REMARK 3 11 2.1287 - 2.0621 0.99 2758 162 0.2382 0.2533 REMARK 3 12 2.0621 - 2.0032 0.99 2797 132 0.2568 0.2763 REMARK 3 13 2.0032 - 1.9504 0.99 2731 152 0.2838 0.3125 REMARK 3 14 1.9504 - 1.9028 0.98 2688 150 0.3478 0.4449 REMARK 3 15 1.9028 - 1.8596 0.95 2701 128 0.3849 0.4175 REMARK 3 16 1.8596 - 1.8200 0.96 2660 124 0.4033 0.4231 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.030 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.53 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 2730 REMARK 3 ANGLE : 1.014 3705 REMARK 3 CHIRALITY : 0.042 418 REMARK 3 PLANARITY : 0.005 472 REMARK 3 DIHEDRAL : 14.198 962 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 150 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.7007 1.1317 -28.9283 REMARK 3 T TENSOR REMARK 3 T11: 0.4880 T22: 0.5164 REMARK 3 T33: 0.3510 T12: 0.1329 REMARK 3 T13: -0.0229 T23: 0.1559 REMARK 3 L TENSOR REMARK 3 L11: 2.1153 L22: 4.7689 REMARK 3 L33: 1.8443 L12: -0.0614 REMARK 3 L13: -0.2545 L23: -0.1409 REMARK 3 S TENSOR REMARK 3 S11: 0.2620 S12: 0.7316 S13: 0.5063 REMARK 3 S21: -0.7407 S22: -0.0995 S23: 0.3896 REMARK 3 S31: -0.4231 S32: -0.5028 S33: -0.1594 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 179 THROUGH 262 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.2885 -1.5147 -15.0951 REMARK 3 T TENSOR REMARK 3 T11: 0.3040 T22: 0.2384 REMARK 3 T33: 0.2706 T12: 0.0781 REMARK 3 T13: -0.0104 T23: 0.0830 REMARK 3 L TENSOR REMARK 3 L11: 1.1140 L22: 1.8100 REMARK 3 L33: 2.4345 L12: -0.2043 REMARK 3 L13: -0.5320 L23: 0.3641 REMARK 3 S TENSOR REMARK 3 S11: 0.1253 S12: 0.1390 S13: 0.2401 REMARK 3 S21: -0.1827 S22: -0.0091 S23: 0.2144 REMARK 3 S31: -0.4336 S32: -0.3878 S33: -0.1160 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 263 THROUGH 290 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.0304 -15.5452 -9.3938 REMARK 3 T TENSOR REMARK 3 T11: 0.2735 T22: 0.2359 REMARK 3 T33: 0.2804 T12: 0.0587 REMARK 3 T13: -0.0057 T23: 0.0190 REMARK 3 L TENSOR REMARK 3 L11: 1.9571 L22: 1.2855 REMARK 3 L33: 3.2914 L12: -0.2115 REMARK 3 L13: 0.3914 L23: -0.8705 REMARK 3 S TENSOR REMARK 3 S11: 0.0508 S12: -0.0527 S13: -0.1138 REMARK 3 S21: -0.1613 S22: -0.0411 S23: -0.2338 REMARK 3 S31: 0.3134 S32: 0.3585 S33: -0.0047 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 291 THROUGH 316 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.9844 -0.9181 -3.8610 REMARK 3 T TENSOR REMARK 3 T11: 0.3058 T22: 0.2293 REMARK 3 T33: 0.2641 T12: 0.0455 REMARK 3 T13: -0.0073 T23: 0.0378 REMARK 3 L TENSOR REMARK 3 L11: 2.4311 L22: 3.5624 REMARK 3 L33: 1.2980 L12: -2.0555 REMARK 3 L13: -0.6318 L23: 0.1386 REMARK 3 S TENSOR REMARK 3 S11: -0.0959 S12: -0.1752 S13: 0.2934 REMARK 3 S21: 0.3486 S22: 0.1699 S23: -0.1443 REMARK 3 S31: -0.3294 S32: 0.0204 S33: -0.0726 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 317 THROUGH 377 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.9810 -17.2890 -10.0186 REMARK 3 T TENSOR REMARK 3 T11: 0.2845 T22: 0.2661 REMARK 3 T33: 0.3118 T12: -0.0262 REMARK 3 T13: 0.0092 T23: 0.0565 REMARK 3 L TENSOR REMARK 3 L11: 1.4267 L22: 3.0046 REMARK 3 L33: 2.5947 L12: -0.2709 REMARK 3 L13: 0.3117 L23: 1.1633 REMARK 3 S TENSOR REMARK 3 S11: -0.0523 S12: -0.0531 S13: -0.2348 REMARK 3 S21: 0.2943 S22: -0.0133 S23: 0.4039 REMARK 3 S31: 0.5083 S32: -0.3357 S33: 0.0354 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 378 THROUGH 401 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.7137 -15.6840 -27.8405 REMARK 3 T TENSOR REMARK 3 T11: 0.4361 T22: 0.5047 REMARK 3 T33: 0.2818 T12: 0.0540 REMARK 3 T13: 0.0917 T23: 0.0067 REMARK 3 L TENSOR REMARK 3 L11: 2.0107 L22: 2.8054 REMARK 3 L33: 4.7148 L12: -3.2404 REMARK 3 L13: 5.6201 L23: -1.7752 REMARK 3 S TENSOR REMARK 3 S11: 0.3973 S12: 1.2959 S13: 0.3072 REMARK 3 S21: -0.4323 S22: -0.3365 S23: -0.3385 REMARK 3 S31: 0.2172 S32: 1.1291 S33: -0.1064 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 402 THROUGH 428 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.2159 -25.3906 -26.1809 REMARK 3 T TENSOR REMARK 3 T11: 0.5247 T22: 0.3642 REMARK 3 T33: 0.4367 T12: 0.0939 REMARK 3 T13: 0.0196 T23: -0.0649 REMARK 3 L TENSOR REMARK 3 L11: 0.9355 L22: 1.7334 REMARK 3 L33: 2.4779 L12: 0.6792 REMARK 3 L13: 0.7290 L23: 0.4229 REMARK 3 S TENSOR REMARK 3 S11: -0.1463 S12: 0.2518 S13: -0.5357 REMARK 3 S21: -0.1755 S22: 0.1941 S23: -0.4474 REMARK 3 S31: 0.5844 S32: 0.5552 S33: -0.0506 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 429 THROUGH 501 ) REMARK 3 ORIGIN FOR THE GROUP (A): -34.9203 -20.9355 -27.3802 REMARK 3 T TENSOR REMARK 3 T11: 0.4513 T22: 0.4857 REMARK 3 T33: 0.3940 T12: -0.0871 REMARK 3 T13: -0.1533 T23: -0.0241 REMARK 3 L TENSOR REMARK 3 L11: 5.7403 L22: 3.1803 REMARK 3 L33: 6.0605 L12: -0.6016 REMARK 3 L13: -2.9570 L23: 1.0034 REMARK 3 S TENSOR REMARK 3 S11: -0.0235 S12: 1.0360 S13: -0.3613 REMARK 3 S21: -0.5367 S22: -0.1377 S23: 0.5426 REMARK 3 S31: 0.2415 S32: -1.1259 S33: 0.1804 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5UOY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1000226220. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-NOV-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47503 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.820 REMARK 200 RESOLUTION RANGE LOW (A) : 61.880 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 10.40 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.82 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.87 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : 1.93200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1TAZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.1 M NACL, 0.1 M HEPES PH 6.9, VAPOR REMARK 280 DIFFUSION, HANGING 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 67.35700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 43.75350 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 43.75350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 101.03550 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 43.75350 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 43.75350 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 33.67850 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 43.75350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.75350 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 101.03550 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 43.75350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.75350 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 33.67850 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 67.35700 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 VAL A 146 REMARK 465 GLY A 147 REMARK 465 PRO A 148 REMARK 465 THR A 149 REMARK 465 GLN A 445 REMARK 465 PRO A 446 REMARK 465 LEU A 447 REMARK 465 ALA A 448 REMARK 465 ASP A 449 REMARK 465 GLU A 450 REMARK 465 ASP A 451 REMARK 465 SER A 452 REMARK 465 LYS A 453 REMARK 465 SER A 454 REMARK 465 LYS A 455 REMARK 465 ASN A 456 REMARK 465 GLN A 457 REMARK 465 PRO A 458 REMARK 465 SER A 459 REMARK 465 PHE A 460 REMARK 465 GLN A 461 REMARK 465 TRP A 462 REMARK 465 ARG A 463 REMARK 465 GLN A 464 REMARK 465 PRO A 465 REMARK 465 SER A 466 REMARK 465 LEU A 467 REMARK 465 ASP A 468 REMARK 465 VAL A 469 REMARK 465 GLU A 470 REMARK 465 VAL A 471 REMARK 465 GLY A 472 REMARK 465 ASP A 473 REMARK 465 PRO A 474 REMARK 465 ASN A 475 REMARK 465 SER A 502 REMARK 465 GLY A 503 REMARK 465 ILE A 504 REMARK 465 THR A 505 REMARK 465 ASN A 506 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 ND2 ASN A 156 OE2 GLU A 252 3454 2.19 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 LEU A 353 18.52 52.65 REMARK 500 LEU A 409 -1.62 76.94 REMARK 500 SER A 414 -3.41 -171.23 REMARK 500 ALA A 500 10.79 -67.78 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 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 227 NE2 REMARK 620 2 HIS A 263 NE2 97.6 REMARK 620 3 ASP A 264 OD2 92.3 84.2 REMARK 620 4 ASP A 370 OD1 85.9 89.9 173.6 REMARK 620 5 HOH A 712 O 163.5 98.8 90.3 93.1 REMARK 620 6 HOH A 755 O 88.3 173.3 98.7 87.4 75.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 264 OD1 REMARK 620 2 HOH A 712 O 98.8 REMARK 620 3 HOH A 740 O 86.6 97.7 REMARK 620 4 HOH A 743 O 170.8 86.7 85.4 REMARK 620 5 HOH A 746 O 88.2 171.2 87.9 87.0 REMARK 620 6 HOH A 803 O 98.0 86.3 173.4 89.7 87.5 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 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 8HM A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 8HM A 604 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5UP0 RELATED DB: PDB DBREF 5UOY A 146 506 UNP Q01064 PDE1B_HUMAN 126 486 SEQRES 1 A 361 VAL GLY PRO THR TYR SER THR ALA VAL LEU ASN CYS LEU SEQRES 2 A 361 LYS ASN LEU ASP LEU TRP CYS PHE ASP VAL PHE SER LEU SEQRES 3 A 361 ASN GLN ALA ALA ASP ASP HIS ALA LEU ARG THR ILE VAL SEQRES 4 A 361 PHE GLU LEU LEU THR ARG HIS ASN LEU ILE SER ARG PHE SEQRES 5 A 361 LYS ILE PRO THR VAL PHE LEU MET SER PHE LEU ASP ALA SEQRES 6 A 361 LEU GLU THR GLY TYR GLY LYS TYR LYS ASN PRO TYR HIS SEQRES 7 A 361 ASN GLN ILE HIS ALA ALA ASP VAL THR GLN THR VAL HIS SEQRES 8 A 361 CYS PHE LEU LEU ARG THR GLY MET VAL HIS CYS LEU SER SEQRES 9 A 361 GLU ILE GLU LEU LEU ALA ILE ILE PHE ALA ALA ALA ILE SEQRES 10 A 361 HIS ASP TYR GLU HIS THR GLY THR THR ASN SER PHE HIS SEQRES 11 A 361 ILE GLN THR LYS SER GLU CYS ALA ILE VAL TYR ASN ASP SEQRES 12 A 361 ARG SER VAL LEU GLU ASN HIS HIS ILE SER SER VAL PHE SEQRES 13 A 361 ARG LEU MET GLN ASP ASP GLU MET ASN ILE PHE ILE ASN SEQRES 14 A 361 LEU THR LYS ASP GLU PHE VAL GLU LEU ARG ALA LEU VAL SEQRES 15 A 361 ILE GLU MET VAL LEU ALA THR ASP MET SER CYS HIS PHE SEQRES 16 A 361 GLN GLN VAL LYS THR MET LYS THR ALA LEU GLN GLN LEU SEQRES 17 A 361 GLU ARG ILE ASP LYS PRO LYS ALA LEU SER LEU LEU LEU SEQRES 18 A 361 HIS ALA ALA ASP ILE SER HIS PRO THR LYS GLN TRP LEU SEQRES 19 A 361 VAL HIS SER ARG TRP THR LYS ALA LEU MET GLU GLU PHE SEQRES 20 A 361 PHE ARG GLN GLY ASP LYS GLU ALA GLU LEU GLY LEU PRO SEQRES 21 A 361 PHE SER PRO LEU CYS ASP ARG THR SER THR LEU VAL ALA SEQRES 22 A 361 GLN SER GLN ILE GLY PHE ILE ASP PHE ILE VAL GLU PRO SEQRES 23 A 361 THR PHE SER VAL LEU THR ASP VAL ALA GLU LYS SER VAL SEQRES 24 A 361 GLN PRO LEU ALA ASP GLU ASP SER LYS SER LYS ASN GLN SEQRES 25 A 361 PRO SER PHE GLN TRP ARG GLN PRO SER LEU ASP VAL GLU SEQRES 26 A 361 VAL GLY ASP PRO ASN PRO ASP VAL VAL SER PHE ARG SER SEQRES 27 A 361 THR TRP VAL LYS ARG ILE GLN GLU ASN LYS GLN LYS TRP SEQRES 28 A 361 LYS GLU ARG ALA ALA SER GLY ILE THR ASN HET ZN A 601 1 HET MG A 602 1 HET 8HM A 603 33 HET 8HM A 604 33 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM 8HM 6-[(4-METHOXYPHENYL)METHYL]-9-[(OXAN-4-YL)METHYL]-8,9, HETNAM 2 8HM 10,11-TETRAHYDROPYRIDO[4',3':4,5]THIENO[3,2-E][1,2, HETNAM 3 8HM 4]TRIAZOLO[1,5-C]PYRIMIDIN-5(6H)-ONE FORMUL 2 ZN ZN 2+ FORMUL 3 MG MG 2+ FORMUL 4 8HM 2(C24 H27 N5 O3 S) FORMUL 6 HOH *140(H2 O) HELIX 1 AA1 SER A 151 LYS A 159 1 9 HELIX 2 AA2 ASP A 167 ALA A 175 1 9 HELIX 3 AA3 HIS A 178 HIS A 191 1 14 HELIX 4 AA4 ASN A 192 PHE A 197 1 6 HELIX 5 AA5 PRO A 200 GLY A 216 1 17 HELIX 6 AA6 ASN A 224 GLY A 243 1 20 HELIX 7 AA7 MET A 244 LEU A 248 5 5 HELIX 8 AA8 SER A 249 HIS A 263 1 15 HELIX 9 AA9 THR A 271 THR A 278 1 8 HELIX 10 AB1 SER A 280 TYR A 286 1 7 HELIX 11 AB2 SER A 290 MET A 304 1 15 HELIX 12 AB3 GLN A 305 ASN A 310 5 6 HELIX 13 AB4 THR A 316 ALA A 333 1 18 HELIX 14 AB5 THR A 334 SER A 337 5 4 HELIX 15 AB6 CYS A 338 GLN A 352 1 15 HELIX 16 AB7 ASP A 357 ILE A 371 1 15 HELIX 17 AB8 SER A 372 LYS A 376 5 5 HELIX 18 AB9 GLN A 377 LEU A 402 1 26 HELIX 19 AC1 LEU A 416 ILE A 428 1 13 HELIX 20 AC2 ILE A 428 VAL A 444 1 17 HELIX 21 AC3 ASP A 477 ALA A 500 1 24 LINK NE2 HIS A 227 ZN ZN A 601 1555 1555 2.27 LINK NE2 HIS A 263 ZN ZN A 601 1555 1555 2.19 LINK OD2 ASP A 264 ZN ZN A 601 1555 1555 2.08 LINK OD1 ASP A 264 MG MG A 602 1555 1555 2.09 LINK OD1 ASP A 370 ZN ZN A 601 1555 1555 2.12 LINK ZN ZN A 601 O HOH A 712 1555 1555 2.27 LINK ZN ZN A 601 O HOH A 755 1555 1555 2.45 LINK MG MG A 602 O HOH A 712 1555 1555 1.93 LINK MG MG A 602 O HOH A 740 1555 1555 2.15 LINK MG MG A 602 O HOH A 743 1555 1555 2.21 LINK MG MG A 602 O HOH A 746 1555 1555 2.17 LINK MG MG A 602 O HOH A 803 1555 1555 2.04 SITE 1 AC1 6 HIS A 227 HIS A 263 ASP A 264 ASP A 370 SITE 2 AC1 6 HOH A 712 HOH A 755 SITE 1 AC2 6 ASP A 264 HOH A 712 HOH A 740 HOH A 743 SITE 2 AC2 6 HOH A 746 HOH A 803 SITE 1 AC3 10 TYR A 222 HIS A 373 LEU A 388 MET A 389 SITE 2 AC3 10 PHE A 392 PRO A 408 LEU A 409 GLN A 421 SITE 3 AC3 10 PHE A 424 HOH A 704 SITE 1 AC4 9 TYR A 150 ARG A 181 THR A 182 PHE A 185 SITE 2 AC4 9 THR A 201 MET A 205 PRO A 408 PHE A 427 SITE 3 AC4 9 HOH A 721 CRYST1 87.507 87.507 134.714 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 0.011428 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011428 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007423 0.00000