HEADER HYDROLASE 19-FEB-20 6LZZ TITLE CRYSTAL STRUCTURE OF THE PDE9 CATALYTIC DOMAIN IN COMPLEX WITH TITLE 2 INHIBITOR 4A COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIGH AFFINITY CGMP-SPECIFIC 3',5'-CYCLIC PHOSPHODIESTERASE COMPND 3 9A; COMPND 4 CHAIN: A, B; COMPND 5 EC: 3.1.4.35; COMPND 6 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: PDE9A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS HYDROLASE-INHIBITOR COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.Y.HUANG,Y.WU,H.B.LUO REVDAT 3 30-OCT-24 6LZZ 1 REMARK REVDAT 2 29-NOV-23 6LZZ 1 REMARK REVDAT 1 24-FEB-21 6LZZ 0 JRNL AUTH Y.J.TIAN,Q.ZHOU,P.ZHANG,M.Y.JIANG,B.ZHANG,X.N.WU,C.ZHANG, JRNL AUTH 2 Z.LI,Y.WU,Z.CHEN,H.B.LUO JRNL TITL IDENTIFICATION OF PHOSPHODIESTERASE-9 AS A NOVEL TARGET FOR JRNL TITL 2 PULMONARY ARTERIAL HYPERTENSION BY USING HIGHLY SELECTIVE JRNL TITL 3 AND ORALLY BIOAVAILABLE INHIBITORS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10_2155 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.014 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 57569 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.255 REMARK 3 R VALUE (WORKING SET) : 0.253 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.923 REMARK 3 FREE R VALUE TEST SET COUNT : 2834 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 21.8710 - 6.4611 0.99 2971 154 0.1822 0.2155 REMARK 3 2 6.4611 - 5.1504 1.00 2821 150 0.2096 0.2428 REMARK 3 3 5.1504 - 4.5058 0.99 2775 135 0.2003 0.2459 REMARK 3 4 4.5058 - 4.0968 0.99 2754 134 0.2128 0.2260 REMARK 3 5 4.0968 - 3.8048 0.99 2756 134 0.2379 0.2817 REMARK 3 6 3.8048 - 3.5815 0.99 2731 152 0.2345 0.3043 REMARK 3 7 3.5815 - 3.4028 1.00 2741 121 0.2542 0.2987 REMARK 3 8 3.4028 - 3.2552 1.00 2728 134 0.2640 0.2780 REMARK 3 9 3.2552 - 3.1303 1.00 2723 150 0.2797 0.3613 REMARK 3 10 3.1303 - 3.0225 1.00 2721 148 0.2911 0.3116 REMARK 3 11 3.0225 - 2.9282 1.00 2717 143 0.2991 0.3807 REMARK 3 12 2.9282 - 2.8447 1.00 2714 149 0.3021 0.3481 REMARK 3 13 2.8447 - 2.7700 1.00 2703 151 0.3119 0.3273 REMARK 3 14 2.7700 - 2.7025 1.00 2684 155 0.2986 0.3625 REMARK 3 15 2.7025 - 2.6412 1.00 2695 155 0.3138 0.3537 REMARK 3 16 2.6412 - 2.5851 1.00 2679 141 0.3284 0.3751 REMARK 3 17 2.5851 - 2.5334 1.00 2707 139 0.3325 0.3645 REMARK 3 18 2.5334 - 2.4857 1.00 2718 125 0.3297 0.3654 REMARK 3 19 2.4857 - 2.4414 1.00 2702 134 0.3198 0.3406 REMARK 3 20 2.4414 - 2.4001 1.00 2695 130 0.3354 0.3726 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.425 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.385 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.49 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.81 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 : 0.010 5463 REMARK 3 ANGLE : 1.049 7410 REMARK 3 CHIRALITY : 0.053 796 REMARK 3 PLANARITY : 0.008 975 REMARK 3 DIHEDRAL : 17.941 3331 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 6LZZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-FEB-20. REMARK 100 THE DEPOSITION ID IS D_1300015787. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER IMUS MICROFOCUS REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : OXFORD ONYX CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSALISPRO 38.41 REMARK 200 DATA SCALING SOFTWARE : CRYSALISPRO 38.41 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57569 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 21.872 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : 0.17700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.71600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 1.10 REMARK 200 STARTING MODEL: 2HD1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES (PH 7.5), 2.5M NA FORMATE, REMARK 280 5% XYLITOL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 134.18300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 51.69150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 51.69150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 67.09150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 51.69150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 51.69150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 201.27450 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 51.69150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 51.69150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 67.09150 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 51.69150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 51.69150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 201.27450 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 134.18300 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -109.0 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 51.69150 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -51.69150 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -67.09150 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 LYS A 185 REMARK 465 TYR A 186 REMARK 465 LYS B 185 REMARK 465 GLN B 504 REMARK 465 LYS B 505 REMARK 465 LYS B 506 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU B 492 NH1 ARG B 495 2.15 REMARK 500 REMARK 500 REMARK: NULL 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 CYS B 241 CA - CB - SG ANGL. DEV. = 7.7 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 PHE A 251 -61.43 -123.70 REMARK 500 LEU A 273 -19.50 -49.55 REMARK 500 SER A 319 56.88 32.86 REMARK 500 ASN A 381 68.59 -157.43 REMARK 500 GLU A 431 -7.85 -57.59 REMARK 500 MET A 479 -52.74 -136.85 REMARK 500 LYS A 505 86.92 54.11 REMARK 500 PHE B 251 -58.14 -123.99 REMARK 500 ASN B 300 -169.05 -72.80 REMARK 500 SER B 319 54.39 27.97 REMARK 500 ILE B 340 5.80 -68.89 REMARK 500 ASN B 381 66.59 -162.58 REMARK 500 LYS B 446 -30.30 -134.94 REMARK 500 VAL B 460 -48.86 -130.81 REMARK 500 GLU B 502 55.26 -145.16 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 256 NE2 REMARK 620 2 ASP A 293 OD2 81.5 REMARK 620 3 ASP A 402 OD1 96.6 147.8 REMARK 620 4 HOH A 732 O 158.0 82.0 105.1 REMARK 620 N 1 2 3 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 293 OD1 REMARK 620 2 HOH A 706 O 79.2 REMARK 620 3 HOH A 716 O 157.9 86.2 REMARK 620 4 HOH A 723 O 92.9 108.1 107.5 REMARK 620 5 HOH A 732 O 86.0 92.7 78.1 158.6 REMARK 620 6 HOH A 763 O 106.1 160.9 82.9 90.2 69.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 256 NE2 REMARK 620 2 HIS B 292 NE2 80.1 REMARK 620 3 ASP B 293 OD2 89.6 69.0 REMARK 620 4 ASP B 402 OD1 94.0 74.8 142.4 REMARK 620 5 HOH B 769 O 148.3 131.2 105.3 90.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 293 OD1 REMARK 620 2 HOH B 701 O 96.9 REMARK 620 3 HOH B 710 O 160.6 81.9 REMARK 620 4 HOH B 735 O 75.8 90.3 84.8 REMARK 620 5 HOH B 768 O 93.5 150.5 79.2 65.7 REMARK 620 6 HOH B 769 O 129.1 124.5 64.1 125.8 65.5 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 EZU A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EZU B 603 DBREF 6LZZ A 185 506 UNP O76083 PDE9A_HUMAN 245 566 DBREF 6LZZ B 185 506 UNP O76083 PDE9A_HUMAN 245 566 SEQRES 1 A 322 LYS TYR LEU LEU SER PRO GLU THR ILE GLU ALA LEU ARG SEQRES 2 A 322 LYS PRO THR PHE ASP VAL TRP LEU TRP GLU PRO ASN GLU SEQRES 3 A 322 MET LEU SER CYS LEU GLU HIS MET TYR HIS ASP LEU GLY SEQRES 4 A 322 LEU VAL ARG ASP PHE SER ILE ASN PRO VAL THR LEU ARG SEQRES 5 A 322 ARG TRP LEU PHE CYS VAL HIS ASP ASN TYR ARG ASN ASN SEQRES 6 A 322 PRO PHE HIS ASN PHE ARG HIS CYS PHE CYS VAL ALA GLN SEQRES 7 A 322 MET MET TYR SER MET VAL TRP LEU CYS SER LEU GLN GLU SEQRES 8 A 322 LYS PHE SER GLN THR ASP ILE LEU ILE LEU MET THR ALA SEQRES 9 A 322 ALA ILE CYS HIS ASP LEU ASP HIS PRO GLY TYR ASN ASN SEQRES 10 A 322 THR TYR GLN ILE ASN ALA ARG THR GLU LEU ALA VAL ARG SEQRES 11 A 322 TYR ASN ASP ILE SER PRO LEU GLU ASN HIS HIS CYS ALA SEQRES 12 A 322 VAL ALA PHE GLN ILE LEU ALA GLU PRO GLU CYS ASN ILE SEQRES 13 A 322 PHE SER ASN ILE PRO PRO ASP GLY PHE LYS GLN ILE ARG SEQRES 14 A 322 GLN GLY MET ILE THR LEU ILE LEU ALA THR ASP MET ALA SEQRES 15 A 322 ARG HIS ALA GLU ILE MET ASP SER PHE LYS GLU LYS MET SEQRES 16 A 322 GLU ASN PHE ASP TYR SER ASN GLU GLU HIS MET THR LEU SEQRES 17 A 322 LEU LYS MET ILE LEU ILE LYS CYS CYS ASP ILE SER ASN SEQRES 18 A 322 GLU VAL ARG PRO MET GLU VAL ALA GLU PRO TRP VAL ASP SEQRES 19 A 322 CYS LEU LEU GLU GLU TYR PHE MET GLN SER ASP ARG GLU SEQRES 20 A 322 LYS SER GLU GLY LEU PRO VAL ALA PRO PHE MET ASP ARG SEQRES 21 A 322 ASP LYS VAL THR LYS ALA THR ALA GLN ILE GLY PHE ILE SEQRES 22 A 322 LYS PHE VAL LEU ILE PRO MET PHE GLU THR VAL THR LYS SEQRES 23 A 322 LEU PHE PRO MET VAL GLU GLU ILE MET LEU GLN PRO LEU SEQRES 24 A 322 TRP GLU SER ARG ASP ARG TYR GLU GLU LEU LYS ARG ILE SEQRES 25 A 322 ASP ASP ALA MET LYS GLU LEU GLN LYS LYS SEQRES 1 B 322 LYS TYR LEU LEU SER PRO GLU THR ILE GLU ALA LEU ARG SEQRES 2 B 322 LYS PRO THR PHE ASP VAL TRP LEU TRP GLU PRO ASN GLU SEQRES 3 B 322 MET LEU SER CYS LEU GLU HIS MET TYR HIS ASP LEU GLY SEQRES 4 B 322 LEU VAL ARG ASP PHE SER ILE ASN PRO VAL THR LEU ARG SEQRES 5 B 322 ARG TRP LEU PHE CYS VAL HIS ASP ASN TYR ARG ASN ASN SEQRES 6 B 322 PRO PHE HIS ASN PHE ARG HIS CYS PHE CYS VAL ALA GLN SEQRES 7 B 322 MET MET TYR SER MET VAL TRP LEU CYS SER LEU GLN GLU SEQRES 8 B 322 LYS PHE SER GLN THR ASP ILE LEU ILE LEU MET THR ALA SEQRES 9 B 322 ALA ILE CYS HIS ASP LEU ASP HIS PRO GLY TYR ASN ASN SEQRES 10 B 322 THR TYR GLN ILE ASN ALA ARG THR GLU LEU ALA VAL ARG SEQRES 11 B 322 TYR ASN ASP ILE SER PRO LEU GLU ASN HIS HIS CYS ALA SEQRES 12 B 322 VAL ALA PHE GLN ILE LEU ALA GLU PRO GLU CYS ASN ILE SEQRES 13 B 322 PHE SER ASN ILE PRO PRO ASP GLY PHE LYS GLN ILE ARG SEQRES 14 B 322 GLN GLY MET ILE THR LEU ILE LEU ALA THR ASP MET ALA SEQRES 15 B 322 ARG HIS ALA GLU ILE MET ASP SER PHE LYS GLU LYS MET SEQRES 16 B 322 GLU ASN PHE ASP TYR SER ASN GLU GLU HIS MET THR LEU SEQRES 17 B 322 LEU LYS MET ILE LEU ILE LYS CYS CYS ASP ILE SER ASN SEQRES 18 B 322 GLU VAL ARG PRO MET GLU VAL ALA GLU PRO TRP VAL ASP SEQRES 19 B 322 CYS LEU LEU GLU GLU TYR PHE MET GLN SER ASP ARG GLU SEQRES 20 B 322 LYS SER GLU GLY LEU PRO VAL ALA PRO PHE MET ASP ARG SEQRES 21 B 322 ASP LYS VAL THR LYS ALA THR ALA GLN ILE GLY PHE ILE SEQRES 22 B 322 LYS PHE VAL LEU ILE PRO MET PHE GLU THR VAL THR LYS SEQRES 23 B 322 LEU PHE PRO MET VAL GLU GLU ILE MET LEU GLN PRO LEU SEQRES 24 B 322 TRP GLU SER ARG ASP ARG TYR GLU GLU LEU LYS ARG ILE SEQRES 25 B 322 ASP ASP ALA MET LYS GLU LEU GLN LYS LYS HET ZN A 601 1 HET MG A 602 1 HET EZU A 603 27 HET ZN B 601 1 HET MG B 602 1 HET EZU B 603 27 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM EZU 1-CYCLOPENTYL-6-[[(2R)-1-(2-OXA-6-AZASPIRO[3.3]HEPTAN- HETNAM 2 EZU 6-YL)-1-OXIDANYLIDENE-PROPAN-2-YL]AMINO]-5H- HETNAM 3 EZU PYRAZOLO[3,4-D]PYRIMIDIN-4-ONE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 MG 2(MG 2+) FORMUL 5 EZU 2(C18 H24 N6 O3) FORMUL 9 HOH *180(H2 O) HELIX 1 AA1 SER A 189 LEU A 196 1 8 HELIX 2 AA2 ASP A 202 TRP A 206 5 5 HELIX 3 AA3 GLU A 207 LEU A 222 1 16 HELIX 4 AA4 GLY A 223 PHE A 228 1 6 HELIX 5 AA5 ASN A 231 ASN A 245 1 15 HELIX 6 AA6 ASN A 253 CYS A 271 1 19 HELIX 7 AA7 SER A 272 PHE A 277 1 6 HELIX 8 AA8 SER A 278 HIS A 292 1 15 HELIX 9 AA9 ASN A 300 ALA A 307 1 8 HELIX 10 AB1 THR A 309 TYR A 315 1 7 HELIX 11 AB2 SER A 319 ALA A 334 1 16 HELIX 12 AB3 GLU A 335 ASN A 339 5 5 HELIX 13 AB4 PRO A 345 ALA A 362 1 18 HELIX 14 AB5 THR A 363 ALA A 366 5 4 HELIX 15 AB6 ARG A 367 GLU A 380 1 14 HELIX 16 AB7 ASN A 386 ILE A 403 1 18 HELIX 17 AB8 SER A 404 ARG A 408 5 5 HELIX 18 AB9 PRO A 409 GLU A 434 1 26 HELIX 19 AC1 ALA A 439 ASP A 443 5 5 HELIX 20 AC2 THR A 448 VAL A 460 1 13 HELIX 21 AC3 VAL A 460 LYS A 470 1 11 HELIX 22 AC4 MET A 474 MET A 479 1 6 HELIX 23 AC5 MET A 479 GLN A 504 1 26 HELIX 24 AC6 SER B 189 LEU B 196 1 8 HELIX 25 AC7 GLU B 207 LEU B 222 1 16 HELIX 26 AC8 GLY B 223 PHE B 228 1 6 HELIX 27 AC9 ASN B 231 ASN B 245 1 15 HELIX 28 AD1 ASN B 253 CYS B 271 1 19 HELIX 29 AD2 SER B 272 PHE B 277 1 6 HELIX 30 AD3 SER B 278 HIS B 292 1 15 HELIX 31 AD4 ASN B 300 ALA B 307 1 8 HELIX 32 AD5 THR B 309 ASN B 316 1 8 HELIX 33 AD6 SER B 319 LEU B 333 1 15 HELIX 34 AD7 GLU B 335 ASN B 339 5 5 HELIX 35 AD8 PRO B 345 THR B 363 1 19 HELIX 36 AD9 ASP B 364 ALA B 366 5 3 HELIX 37 AE1 ARG B 367 GLU B 380 1 14 HELIX 38 AE2 ASN B 386 ILE B 403 1 18 HELIX 39 AE3 SER B 404 ARG B 408 5 5 HELIX 40 AE4 PRO B 409 GLY B 435 1 27 HELIX 41 AE5 ALA B 439 ASP B 443 5 5 HELIX 42 AE6 THR B 448 VAL B 460 1 13 HELIX 43 AE7 VAL B 460 PHE B 472 1 13 HELIX 44 AE8 PRO B 473 MET B 479 1 7 HELIX 45 AE9 MET B 479 LYS B 501 1 23 SSBOND 1 CYS A 241 CYS A 338 1555 1555 2.04 SSBOND 2 CYS B 241 CYS B 338 1555 1555 2.06 LINK NE2 HIS A 256 ZN ZN A 601 1555 1555 2.33 LINK OD2 ASP A 293 ZN ZN A 601 1555 1555 2.24 LINK OD1 ASP A 293 MG MG A 602 1555 1555 2.11 LINK OD1 ASP A 402 ZN ZN A 601 1555 1555 2.21 LINK ZN ZN A 601 O HOH A 732 1555 1555 2.41 LINK MG MG A 602 O HOH A 706 1555 1555 2.03 LINK MG MG A 602 O HOH A 716 1555 1555 2.23 LINK MG MG A 602 O HOH A 723 1555 1555 2.20 LINK MG MG A 602 O HOH A 732 1555 1555 1.85 LINK MG MG A 602 O HOH A 763 1555 1555 2.10 LINK NE2 HIS B 256 ZN ZN B 601 1555 1555 2.54 LINK NE2 HIS B 292 ZN ZN B 601 1555 1555 2.63 LINK OD2 ASP B 293 ZN ZN B 601 1555 1555 2.26 LINK OD1 ASP B 293 MG MG B 602 1555 1555 2.18 LINK OD1 ASP B 402 ZN ZN B 601 1555 1555 2.45 LINK ZN ZN B 601 O HOH B 769 1555 1555 2.47 LINK MG MG B 602 O HOH B 701 1555 1555 2.51 LINK MG MG B 602 O HOH B 710 1555 1555 2.44 LINK MG MG B 602 O HOH B 735 1555 1555 2.38 LINK MG MG B 602 O HOH B 768 1555 1555 2.01 LINK MG MG B 602 O HOH B 769 1555 1555 2.47 SITE 1 AC1 5 HIS A 256 HIS A 292 ASP A 293 ASP A 402 SITE 2 AC1 5 HOH A 732 SITE 1 AC2 7 ASP A 293 GLU A 322 HOH A 706 HOH A 716 SITE 2 AC2 7 HOH A 723 HOH A 732 HOH A 763 SITE 1 AC3 10 HIS A 252 LEU A 420 TYR A 424 PHE A 441 SITE 2 AC3 10 ALA A 452 GLN A 453 PHE A 456 HOH A 730 SITE 3 AC3 10 HOH A 742 HOH A 762 SITE 1 AC4 6 HIS B 256 HIS B 292 ASP B 293 ASP B 402 SITE 2 AC4 6 MG B 602 HOH B 769 SITE 1 AC5 7 ASP B 293 ZN B 601 HOH B 701 HOH B 710 SITE 2 AC5 7 HOH B 735 HOH B 768 HOH B 769 SITE 1 AC6 11 ILE A 496 MET A 500 LEU A 503 MET B 365 SITE 2 AC6 11 LEU B 420 TYR B 424 ALA B 452 GLN B 453 SITE 3 AC6 11 PHE B 456 HOH B 727 HOH B 755 CRYST1 103.383 103.383 268.366 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 0.009673 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009673 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003726 0.00000