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 5 23-AUG-23 1TBF 1 REMARK
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 <I/SIGMA(I)> 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 <I/SIGMA(I)> 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