HEADER HYDROLASE 20-MAY-04 1TBF TITLE CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN COMPLEX WITH TITLE 2 SILDENAFIL COMPND MOL_ID: 1; COMPND 2 MOLECULE: CGMP-SPECIFIC 3',5'-CYCLIC PHOSPHODIESTERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN; COMPND 5 SYNONYM: CGB-PDE, CGMP-BINDING CGMP-SPECIFIC PHOSPHODIESTERASE; 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: PDE5A, PDE5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON PLUS(RIL); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS PDE5A, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.Y.J.ZHANG,G.L.CARD,Y.SUZUKI,D.R.ARTIS,D.FONG,S.GILLETTE,D.HSIEH, AUTHOR 2 J.NEIMAN,B.L.WEST,C.ZHANG,M.V.MILBURN,S.-H.KIM,J.SCHLESSINGER, AUTHOR 3 G.BOLLAG REVDAT 4 27-OCT-21 1TBF 1 REMARK SEQADV HETSYN LINK REVDAT 3 13-JUL-11 1TBF 1 VERSN REVDAT 2 24-FEB-09 1TBF 1 VERSN REVDAT 1 03-AUG-04 1TBF 0 JRNL AUTH K.Y.J.ZHANG,G.L.CARD,Y.SUZUKI,D.R.ARTIS,D.FONG,S.GILLETTE, JRNL AUTH 2 D.HSIEH,J.NEIMAN,B.L.WEST,C.ZHANG,M.V.MILBURN,S.-H.KIM, JRNL AUTH 3 J.SCHLESSINGER,G.BOLLAG JRNL TITL A GLUTAMINE SWITCH MECHANISM FOR NUCLEOTIDE SELECTIVITY BY JRNL TITL 2 PHOSPHODIESTERASES JRNL REF MOL.CELL V. 15 279 2004 JRNL REFN ISSN 1097-2765 JRNL PMID 15260978 JRNL DOI 10.1016/J.MOLCEL.2004.07.005 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.25 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 65.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 77378 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) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4085 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) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5465 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.3790 REMARK 3 BIN FREE R VALUE SET COUNT : 282 REMARK 3 BIN FREE R VALUE : 0.4110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2637 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 323 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.32000 REMARK 3 B22 (A**2) : -0.32000 REMARK 3 B33 (A**2) : 0.48000 REMARK 3 B12 (A**2) : -0.16000 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): 0.051 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.049 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.033 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.816 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.966 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2759 ; 0.025 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2509 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3710 ; 2.000 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5863 ; 1.485 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 325 ; 4.326 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 415 ; 0.135 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2980 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 529 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 637 ; 0.236 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2766 ; 0.241 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1456 ; 0.093 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 194 ; 0.197 ; 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): 15 ; 0.380 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 72 ; 0.425 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 26 ; 0.392 ; 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): 1638 ; 1.880 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2638 ; 2.594 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1121 ; 4.018 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1072 ; 5.819 ; 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): 2759 ; 2.172 ; 2.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 322 ; 8.461 ; 2.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2699 ; 4.158 ; 2.000 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 : 1 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 534 A 858 REMARK 3 ORIGIN FOR THE GROUP (A): 31.5990 38.7590 74.7870 REMARK 3 T TENSOR REMARK 3 T11: 0.1086 T22: 0.0805 REMARK 3 T33: 0.0116 T12: -0.0155 REMARK 3 T13: 0.0276 T23: -0.0229 REMARK 3 L TENSOR REMARK 3 L11: 1.2096 L22: 0.7141 REMARK 3 L33: 1.6511 L12: 0.2906 REMARK 3 L13: -0.1156 L23: -0.4445 REMARK 3 S TENSOR REMARK 3 S11: 0.1127 S12: -0.0913 S13: 0.1048 REMARK 3 S21: 0.1269 S22: -0.0222 S23: 0.0534 REMARK 3 S31: -0.2237 S32: 0.1081 S33: -0.0905 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 1TBF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUN-04. REMARK 100 THE DEPOSITION ID IS D_1000022526. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-OCT-03 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : BLU-ICE REMARK 200 DATA SCALING SOFTWARE : ELVES REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77378 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 65.940 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.80300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: PDB ENTRY 1T9R REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: (NH4)2SO4, PEG 400, PH 7.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 33.09067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 66.18133 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 66.18133 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 33.09067 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS ONE MONOMER. 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 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 MET A 513 REMARK 465 GLY A 514 REMARK 465 SER A 515 REMARK 465 SER A 516 REMARK 465 HIS A 517 REMARK 465 HIS A 518 REMARK 465 HIS A 519 REMARK 465 HIS A 520 REMARK 465 HIS A 521 REMARK 465 HIS A 522 REMARK 465 SER A 523 REMARK 465 SER A 524 REMARK 465 GLY A 525 REMARK 465 LEU A 526 REMARK 465 VAL A 527 REMARK 465 PRO A 528 REMARK 465 ARG A 529 REMARK 465 GLY A 530 REMARK 465 SER A 531 REMARK 465 HIS A 532 REMARK 465 MET A 533 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 OE1 GLU A 671 O HOH A 1122 1.91 REMARK 500 O HOH A 870 O HOH A 1105 1.93 REMARK 500 O HOH A 1149 O HOH A 1161 2.01 REMARK 500 OE1 GLU A 830 O HOH A 900 2.05 REMARK 500 OE2 GLU A 534 OE2 GLU A 536 2.09 REMARK 500 O HOH A 997 O HOH A 1061 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 NH2 ARG A 847 O HOH A 908 2655 1.13 REMARK 500 O HOH A 908 O HOH A 984 3664 2.00 REMARK 500 CZ ARG A 847 O HOH A 908 2655 2.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 670 CB SER A 670 OG -0.086 REMARK 500 HIS A 685 CE1 HIS A 685 NE2 -0.068 REMARK 500 ASN A 798 CB ASN A 798 CG -0.145 REMARK 500 GLU A 830 CD GLU A 830 OE2 -0.077 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 MET A 805 CA - CB - CG ANGL. DEV. = 14.7 DEGREES REMARK 500 MET A 805 CG - SD - CE ANGL. DEV. = 13.8 DEGREES REMARK 500 MET A 816 CG - SD - CE ANGL. DEV. = 19.6 DEGREES REMARK 500 ARG A 850 NE - CZ - NH2 ANGL. DEV. = 3.3 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 LYS A 630 -75.59 -91.24 REMARK 500 SER A 679 55.42 38.26 REMARK 500 ILE A 824 -51.37 -121.77 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 1 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 617 NE2 REMARK 620 2 HIS A 653 NE2 95.1 REMARK 620 3 ASP A 654 OD2 85.8 84.2 REMARK 620 4 ASP A 764 OD1 88.3 89.5 170.9 REMARK 620 5 HOH A1175 O 168.4 96.0 91.8 95.3 REMARK 620 6 HOH A1180 O 88.3 174.6 100.2 86.4 80.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 2 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 654 OD1 REMARK 620 2 HOH A1175 O 95.0 REMARK 620 3 HOH A1176 O 84.0 96.6 REMARK 620 4 HOH A1177 O 88.0 173.3 89.6 REMARK 620 5 HOH A1178 O 99.9 88.5 173.3 85.1 REMARK 620 6 HOH A1179 O 167.7 93.0 85.8 85.1 89.6 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 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE VIA A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1T9R RELATED DB: PDB REMARK 900 RELATED ID: 1T9S RELATED DB: PDB REMARK 900 RELATED ID: 1TAZ RELATED DB: PDB REMARK 900 RELATED ID: 1TB5 RELATED DB: PDB REMARK 900 RELATED ID: 1TB7 RELATED DB: PDB REMARK 900 RELATED ID: 1TBB RELATED DB: PDB DBREF 1TBF A 534 858 UNP O76074 PDE5A_HUMAN 534 858 SEQADV 1TBF MET A 513 UNP O76074 EXPRESSION TAG SEQADV 1TBF GLY A 514 UNP O76074 EXPRESSION TAG SEQADV 1TBF SER A 515 UNP O76074 EXPRESSION TAG SEQADV 1TBF SER A 516 UNP O76074 EXPRESSION TAG SEQADV 1TBF HIS A 517 UNP O76074 EXPRESSION TAG SEQADV 1TBF HIS A 518 UNP O76074 EXPRESSION TAG SEQADV 1TBF HIS A 519 UNP O76074 EXPRESSION TAG SEQADV 1TBF HIS A 520 UNP O76074 EXPRESSION TAG SEQADV 1TBF HIS A 521 UNP O76074 EXPRESSION TAG SEQADV 1TBF HIS A 522 UNP O76074 EXPRESSION TAG SEQADV 1TBF SER A 523 UNP O76074 EXPRESSION TAG SEQADV 1TBF SER A 524 UNP O76074 EXPRESSION TAG SEQADV 1TBF GLY A 525 UNP O76074 EXPRESSION TAG SEQADV 1TBF LEU A 526 UNP O76074 EXPRESSION TAG SEQADV 1TBF VAL A 527 UNP O76074 EXPRESSION TAG SEQADV 1TBF PRO A 528 UNP O76074 EXPRESSION TAG SEQADV 1TBF ARG A 529 UNP O76074 EXPRESSION TAG SEQADV 1TBF GLY A 530 UNP O76074 EXPRESSION TAG SEQADV 1TBF SER A 531 UNP O76074 EXPRESSION TAG SEQADV 1TBF HIS A 532 UNP O76074 EXPRESSION TAG SEQADV 1TBF MET A 533 UNP O76074 EXPRESSION TAG SEQADV 1TBF PRO A 658 UNP O76074 ARG 658 ENGINEERED MUTATION SEQADV 1TBF SER A 661 UNP O76074 ASN 661 ENGINEERED MUTATION SEQADV 1TBF GLN A 663 UNP O76074 SER 663 ENGINEERED MUTATION SEQADV 1TBF PHE A 664 UNP O76074 TYR 664 ENGINEERED MUTATION SEQADV 1TBF LEU A 665 UNP O76074 ILE 665 ENGINEERED MUTATION SEQADV 1TBF ILE A 666 UNP O76074 GLN 666 ENGINEERED MUTATION SEQADV 1TBF ASN A 667 UNP O76074 ARG 667 ENGINEERED MUTATION SEQADV 1TBF THR A 668 UNP O76074 SER 668 ENGINEERED MUTATION SEQADV 1TBF ASN A 669 UNP O76074 GLU 669 ENGINEERED MUTATION SEQADV 1TBF SER A 670 UNP O76074 HIS 670 ENGINEERED MUTATION SEQADV 1TBF GLU A 671 UNP O76074 PRO 671 ENGINEERED MUTATION SEQADV 1TBF LEU A 674 UNP O76074 GLN 674 ENGINEERED MUTATION SEQADV 1TBF MET A 675 UNP O76074 LEU 675 ENGINEERED MUTATION SEQADV 1TBF ASN A 676A UNP O76074 CYS 677 ENGINEERED MUTATION SEQADV 1TBF ASP A 677 UNP O76074 ENGINEERED MUTATION SEQADV 1TBF GLU A 678 UNP O76074 HIS 678 ENGINEERED MUTATION SEQADV 1TBF VAL A 680 UNP O76074 ILE 680 ENGINEERED MUTATION SEQADV 1TBF LEU A 681 UNP O76074 MET 681 ENGINEERED MUTATION SEQRES 1 A 347 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 347 LEU VAL PRO ARG GLY SER HIS MET GLU GLU GLU THR ARG SEQRES 3 A 347 GLU LEU GLN SER LEU ALA ALA ALA VAL VAL PRO SER ALA SEQRES 4 A 347 GLN THR LEU LYS ILE THR ASP PHE SER PHE SER ASP PHE SEQRES 5 A 347 GLU LEU SER ASP LEU GLU THR ALA LEU CYS THR ILE ARG SEQRES 6 A 347 MET PHE THR ASP LEU ASN LEU VAL GLN ASN PHE GLN MET SEQRES 7 A 347 LYS HIS GLU VAL LEU CYS ARG TRP ILE LEU SER VAL LYS SEQRES 8 A 347 LYS ASN TYR ARG LYS ASN VAL ALA TYR HIS ASN TRP ARG SEQRES 9 A 347 HIS ALA PHE ASN THR ALA GLN CYS MET PHE ALA ALA LEU SEQRES 10 A 347 LYS ALA GLY LYS ILE GLN ASN LYS LEU THR ASP LEU GLU SEQRES 11 A 347 ILE LEU ALA LEU LEU ILE ALA ALA LEU SER HIS ASP LEU SEQRES 12 A 347 ASP HIS PRO GLY VAL SER ASN GLN PHE LEU ILE ASN THR SEQRES 13 A 347 ASN SER GLU LEU ALA LEU MET TYR ASN ASP GLU SER VAL SEQRES 14 A 347 LEU GLU HIS HIS HIS PHE ASP GLN CYS LEU MET ILE LEU SEQRES 15 A 347 ASN SER PRO GLY ASN GLN ILE LEU SER GLY LEU SER ILE SEQRES 16 A 347 GLU GLU TYR LYS THR THR LEU LYS ILE ILE LYS GLN ALA SEQRES 17 A 347 ILE LEU ALA THR ASP LEU ALA LEU TYR ILE LYS ARG ARG SEQRES 18 A 347 GLY GLU PHE PHE GLU LEU ILE ARG LYS ASN GLN PHE ASN SEQRES 19 A 347 LEU GLU ASP PRO HIS GLN LYS GLU LEU PHE LEU ALA MET SEQRES 20 A 347 LEU MET THR ALA CYS ASP LEU SER ALA ILE THR LYS PRO SEQRES 21 A 347 TRP PRO ILE GLN GLN ARG ILE ALA GLU LEU VAL ALA THR SEQRES 22 A 347 GLU PHE PHE ASP GLN GLY ASP ARG GLU ARG LYS GLU LEU SEQRES 23 A 347 ASN ILE GLU PRO THR ASP LEU MET ASN ARG GLU LYS LYS SEQRES 24 A 347 ASN LYS ILE PRO SER MET GLN VAL GLY PHE ILE ASP ALA SEQRES 25 A 347 ILE CYS LEU GLN LEU TYR GLU ALA LEU THR HIS VAL SER SEQRES 26 A 347 GLU ASP CYS PHE PRO LEU LEU ASP GLY CYS ARG LYS ASN SEQRES 27 A 347 ARG GLN LYS TRP GLN ALA LEU ALA GLU HET ZN A 1 1 HET MG A 2 1 HET VIA A 501 33 HET GOL A 502 6 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM VIA 5-{2-ETHOXY-5-[(4-METHYLPIPERAZIN-1-YL) HETNAM 2 VIA SULFONYL]PHENYL}-1-METHYL-3-PROPYL-1H,6H,7H- HETNAM 3 VIA PYRAZOLO[4,3-D]PYRIMIDIN-7-ONE HETNAM GOL GLYCEROL HETSYN VIA SILDENAFIL; VIAGRA HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN ZN 2+ FORMUL 3 MG MG 2+ FORMUL 4 VIA C22 H30 N6 O4 S FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *323(H2 O) HELIX 1 1 GLU A 534 ALA A 546 1 13 HELIX 2 2 SER A 550 LYS A 555 1 6 HELIX 3 3 SER A 567 LEU A 582 1 16 HELIX 4 4 ASN A 583 PHE A 588 1 6 HELIX 5 5 LYS A 591 ASN A 605 1 15 HELIX 6 6 ASN A 614 ALA A 631 1 18 HELIX 7 7 ILE A 634 LEU A 638 5 5 HELIX 8 8 THR A 639 HIS A 653 1 15 HELIX 9 9 SER A 661 THR A 668 1 8 HELIX 10 10 SER A 670 TYR A 676 1 7 HELIX 11 11 SER A 679 SER A 695 1 17 HELIX 12 12 SER A 705 THR A 723 1 19 HELIX 13 13 ASP A 724 LYS A 741 1 18 HELIX 14 14 ASP A 748 LEU A 765 1 18 HELIX 15 15 SER A 766 LYS A 770 5 5 HELIX 16 16 PRO A 771 LEU A 797 1 27 HELIX 17 17 THR A 802 ASN A 811 5 10 HELIX 18 18 LYS A 812 ILE A 824 1 13 HELIX 19 19 ILE A 824 SER A 836 1 13 HELIX 20 20 CYS A 839 GLU A 858 1 20 LINK ZN ZN A 1 NE2 HIS A 617 1555 1555 2.14 LINK ZN ZN A 1 NE2 HIS A 653 1555 1555 2.14 LINK ZN ZN A 1 OD2 ASP A 654 1555 1555 2.11 LINK ZN ZN A 1 OD1 ASP A 764 1555 1555 2.08 LINK ZN ZN A 1 O HOH A1175 1555 1555 2.05 LINK ZN ZN A 1 O HOH A1180 1555 1555 2.22 LINK MG MG A 2 OD1 ASP A 654 1555 1555 2.11 LINK MG MG A 2 O HOH A1175 1555 1555 2.07 LINK MG MG A 2 O HOH A1176 1555 1555 2.11 LINK MG MG A 2 O HOH A1177 1555 1555 2.13 LINK MG MG A 2 O HOH A1178 1555 1555 2.10 LINK MG MG A 2 O HOH A1179 1555 1555 2.12 SITE 1 AC1 7 MG A 2 HIS A 617 HIS A 653 ASP A 654 SITE 2 AC1 7 ASP A 764 HOH A1175 HOH A1180 SITE 1 AC2 7 ZN A 1 ASP A 654 HOH A1175 HOH A1176 SITE 2 AC2 7 HOH A1177 HOH A1178 HOH A1179 SITE 1 AC3 10 TYR A 612 ALA A 779 PHE A 786 LEU A 804 SITE 2 AC3 10 GLN A 817 PHE A 820 HOH A 890 HOH A 951 SITE 3 AC3 10 HOH A1027 HOH A1181 SITE 1 AC4 8 PHE A 664 ASN A 667 GLN A 789 GLU A 793 SITE 2 AC4 8 HIS A 834 HOH A 873 HOH A 884 HOH A 903 CRYST1 76.097 76.097 99.272 90.00 90.00 120.00 P 31 2 1 6 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 0.013141 0.007587 0.000000 0.00000 SCALE2 0.000000 0.015174 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010073 0.00000 MASTER 440 0 4 20 0 0 9 6 0 0 0 27 END