HEADER HYDROLASE 01-APR-09 3GWT
TITLE CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B2B IN COMPLEX WITH A
TITLE 2 QUINOLINE INHIBITOR
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: CAMP-SPECIFIC 3',5'-CYCLIC PHOSPHODIESTERASE 4B;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 324-675;
COMPND 5 SYNONYM: DPDE4, PDE32;
COMPND 6 EC: 3.1.4.17;
COMPND 7 ENGINEERED: YES;
COMPND 8 MUTATION: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606;
SOURCE 5 GENE: PDE4B, DPDE4;
SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS
KEYWDS PDE, PHOSPHODIESTERASE, CAMP, HYDROLASE
EXPDTA X-RAY DIFFRACTION
AUTHOR D.O.SOMERS,M.NEU
REVDAT 4 06-SEP-23 3GWT 1 REMARK
REVDAT 3 13-OCT-21 3GWT 1 REMARK SEQADV LINK
REVDAT 2 01-NOV-17 3GWT 1 REMARK
REVDAT 1 07-APR-10 3GWT 0
JRNL AUTH M.D.WOODROW,S.P.BALLANTINE,M.D.BARKER,B.J.CLARKE,J.DAWSON,
JRNL AUTH 2 T.W.DEAN,C.J.DELVES,B.EVANS,S.L.GOUGH,S.B.GUNTRIP,S.HOLMAN,
JRNL AUTH 3 D.S.HOLMES,M.KRANZ,M.K.LINDVAAL,F.S.LUCAS,M.NEU,L.E.RANSHAW,
JRNL AUTH 4 Y.E.SOLANKE,D.O.SOMERS,P.WARD,J.O.WISEMAN
JRNL TITL QUINOLINES AS A NOVEL STRUCTURAL CLASS OF POTENT AND
JRNL TITL 2 SELECTIVE PDE4 INHIBITORS. OPTIMISATION FOR INHALED
JRNL TITL 3 ADMINISTRATION.
JRNL REF BIOORG.MED.CHEM.LETT. V. 19 5261 2009
JRNL REFN ISSN 0960-894X
JRNL PMID 19656678
JRNL DOI 10.1016/J.BMCL.2009.04.012
REMARK 2
REMARK 2 RESOLUTION. 1.75 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC
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) : 1.75
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0
REMARK 3 NUMBER OF REFLECTIONS : 42764
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) : 0.207
REMARK 3 R VALUE (WORKING SET) : 0.205
REMARK 3 FREE R VALUE : 0.250
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000
REMARK 3 FREE R VALUE TEST SET COUNT : 2272
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) : 1.75
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80
REMARK 3 REFLECTION IN BIN (WORKING SET) : 2997
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0
REMARK 3 BIN R VALUE (WORKING SET) : 0.2920
REMARK 3 BIN FREE R VALUE SET COUNT : 165
REMARK 3 BIN FREE R VALUE : 0.3460
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 2711
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 61
REMARK 3 SOLVENT ATOMS : 321
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.87
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -2.08000
REMARK 3 B22 (A**2) : -0.11000
REMARK 3 B33 (A**2) : 2.19000
REMARK 3 B12 (A**2) : 0.00000
REMARK 3 B13 (A**2) : 0.00000
REMARK 3 B23 (A**2) : 0.00000
REMARK 3
REMARK 3 ESTIMATED OVERALL COORDINATE ERROR.
REMARK 3 ESU BASED ON R VALUE (A): 0.117
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.120
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.996
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2826 ; 0.016 ; 0.021
REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3834 ; 1.529 ; 1.959
REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 337 ; 4.911 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 140 ;34.762 ;25.000
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 491 ;15.039 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;25.604 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 429 ; 0.104 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2132 ; 0.008 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL
REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL
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): NULL ; NULL ; NULL
REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL
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): 1681 ; 2.120 ; 3.000
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2726 ; 3.145 ; 4.000
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1145 ; 4.096 ; 5.000
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1107 ; 5.808 ; 7.000
REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3
REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT
REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL
REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3
REMARK 3 NCS RESTRAINTS STATISTICS
REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : NULL
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 : 1.20
REMARK 3 ION PROBE RADIUS : 0.80
REMARK 3 SHRINKAGE RADIUS : 0.80
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 3GWT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-09.
REMARK 100 THE DEPOSITION ID IS D_1000052405.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 30-NOV-03
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 6.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : ESRF
REMARK 200 BEAMLINE : ID14-4
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.9393
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO
REMARK 200 DATA SCALING SOFTWARE : SCALEPACK
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45051
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750
REMARK 200 RESOLUTION RANGE LOW (A) : 24.910
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9
REMARK 200 DATA REDUNDANCY : NULL
REMARK 200 R MERGE (I) : 0.06000
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.9000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81
REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0
REMARK 200 DATA REDUNDANCY IN SHELL : NULL
REMARK 200 R MERGE FOR SHELL (I) : 0.58900
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.100
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS
REMARK 200 SOFTWARE USED: REFMAC
REMARK 200 STARTING MODEL: 3FRG
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 55.19
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 14-18% PEG 3000, 10% GLYCEROL, 50MM
REMARK 280 SODIUM CACODYLATE PH 6.5, 100MM SODIUM ACETATE, 1M SODIUM
REMARK 280 CHLORIDE, 1% DMF, 5MM DTT , VAPOR DIFFUSION, SITTING DROP,
REMARK 280 TEMPERATURE 277K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 21 21 21
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -X+1/2,-Y,Z+1/2
REMARK 290 3555 -X,Y+1/2,-Z+1/2
REMARK 290 4555 X+1/2,-Y+1/2,-Z
REMARK 290 5555 X+1/2,Y+1/2,Z+1/2
REMARK 290 6555 -X,-Y+1/2,Z
REMARK 290 7555 -X+1/2,Y,-Z
REMARK 290 8555 X,-Y,-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 44.35300
REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.99750
REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.39150
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.99750
REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.35300
REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.39150
REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 44.35300
REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.39150
REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 52.99750
REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.39150
REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 44.35300
REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 52.99750
REMARK 290
REMARK 290 REMARK: NULL
REMARK 300
REMARK 300 BIOMOLECULE: 1, 2
REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM
REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN
REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON
REMARK 300 BURIED SURFACE AREA.
REMARK 350
REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN
REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE
REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS
REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND
REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN.
REMARK 350
REMARK 350 BIOMOLECULE: 1
REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC
REMARK 350 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
REMARK 350 BIOMOLECULE: 2
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 2040 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 29560 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 88.70600
REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 47.39150
REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000
REMARK 375
REMARK 375 SPECIAL POSITION
REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS
REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL
REMARK 375 POSITIONS.
REMARK 375
REMARK 375 ATOM RES CSSEQI
REMARK 375 HOH A 100 LIES ON A SPECIAL POSITION.
REMARK 375 HOH A 101 LIES ON A SPECIAL POSITION.
REMARK 375 HOH A 131 LIES ON A SPECIAL POSITION.
REMARK 375 HOH A 600 LIES ON A SPECIAL POSITION.
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 151
REMARK 465 PRO A 488
REMARK 465 ALA A 489
REMARK 465 PRO A 490
REMARK 465 PRO A 491
REMARK 465 LEU A 492
REMARK 465 ASP A 493
REMARK 465 GLU A 494
REMARK 465 GLN A 495
REMARK 465 ASN A 496
REMARK 465 ARG A 497
REMARK 465 ASP A 498
REMARK 465 CYS A 499
REMARK 465 GLN A 500
REMARK 465 GLY A 501
REMARK 465 LEU A 502
REMARK 465 MET A 503
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 SG CYS A 320 AS ARS A 2 2.01
REMARK 500 O ILE A 484 O HOH A 584 2.09
REMARK 500 O HOH A 113 O HOH A 597 2.09
REMARK 500 OD2 ASP A 172 O HOH A 544 2.10
REMARK 500 O HOH A 586 O HOH A 623 2.14
REMARK 500 O HOH A 540 O HOH A 588 2.16
REMARK 500 SG CYS A 432 AS ARS A 3 2.16
REMARK 500 OD1 ASN A 478 O HOH A 630 2.18
REMARK 500 NE ARG A 422 O HOH A 144 2.18
REMARK 500 O HOH A 26 O HOH A 568 2.18
REMARK 500 O HOH A 574 O HOH A 606 2.19
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 CYS A 320 CB CYS A 320 SG 0.128
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 A 320 CA - CB - SG ANGL. DEV. = 9.7 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 LEU A 393 42.26 -103.39
REMARK 500 ILE A 450 -58.00 -124.91
REMARK 500 GLN A 463 134.62 -28.58
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 MG A 505 MG
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 HOH A 72 O
REMARK 620 2 HOH A 73 O 82.9
REMARK 620 3 HOH A 74 O 173.4 96.3
REMARK 620 4 HOH A 75 O 80.4 87.4 106.1
REMARK 620 5 HOH A 78 O 87.2 83.2 86.3 165.2
REMARK 620 6 ASP A 275 OD1 83.2 165.2 98.1 85.1 101.4
REMARK 620 N 1 2 3 4 5
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 ZN A 504 ZN
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 HOH A 74 O
REMARK 620 2 HIS A 238 NE2 155.1
REMARK 620 3 HIS A 274 NE2 101.1 103.7
REMARK 620 4 ASP A 275 OD2 90.0 87.9 91.6
REMARK 620 5 ASP A 392 OD1 91.6 90.3 88.8 178.2
REMARK 620 6 HOH A 523 O 66.8 88.4 167.7 90.6 89.3
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 066 A 1
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 504
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 505
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ARS A 506
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ARS A 2
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC6
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ARS A 3
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC7
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ARS A 4
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC8
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 507
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC9
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 508
REMARK 800
REMARK 800 SITE_IDENTIFIER: BC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 509
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 3FRG RELATED DB: PDB
REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 4B2B IN COMPLEX WITH A
REMARK 900 QUINOLINE INHIBITOR
DBREF 3GWT A 152 503 UNP Q07343 PDE4B_HUMAN 324 675
SEQADV 3GWT MET A 151 UNP Q07343 EXPRESSION TAG
SEQADV 3GWT ALA A 482 UNP Q07343 SER 654 ENGINEERED MUTATION
SEQADV 3GWT ALA A 487 UNP Q07343 SER 659 ENGINEERED MUTATION
SEQADV 3GWT ALA A 489 UNP Q07343 SER 661 ENGINEERED MUTATION
SEQRES 1 A 353 MET SER ILE SER ARG PHE GLY VAL ASN THR GLU ASN GLU
SEQRES 2 A 353 ASP HIS LEU ALA LYS GLU LEU GLU ASP LEU ASN LYS TRP
SEQRES 3 A 353 GLY LEU ASN ILE PHE ASN VAL ALA GLY TYR SER HIS ASN
SEQRES 4 A 353 ARG PRO LEU THR CYS ILE MET TYR ALA ILE PHE GLN GLU
SEQRES 5 A 353 ARG ASP LEU LEU LYS THR PHE ARG ILE SER SER ASP THR
SEQRES 6 A 353 PHE ILE THR TYR MET MET THR LEU GLU ASP HIS TYR HIS
SEQRES 7 A 353 SER ASP VAL ALA TYR HIS ASN SER LEU HIS ALA ALA ASP
SEQRES 8 A 353 VAL ALA GLN SER THR HIS VAL LEU LEU SER THR PRO ALA
SEQRES 9 A 353 LEU ASP ALA VAL PHE THR ASP LEU GLU ILE LEU ALA ALA
SEQRES 10 A 353 ILE PHE ALA ALA ALA ILE HIS ASP VAL ASP HIS PRO GLY
SEQRES 11 A 353 VAL SER ASN GLN PHE LEU ILE ASN THR ASN SER GLU LEU
SEQRES 12 A 353 ALA LEU MET TYR ASN ASP GLU SER VAL LEU GLU ASN HIS
SEQRES 13 A 353 HIS LEU ALA VAL GLY PHE LYS LEU LEU GLN GLU GLU HIS
SEQRES 14 A 353 CYS ASP ILE PHE MET ASN LEU THR LYS LYS GLN ARG GLN
SEQRES 15 A 353 THR LEU ARG LYS MET VAL ILE ASP MET VAL LEU ALA THR
SEQRES 16 A 353 ASP MET SER LYS HIS MET SER LEU LEU ALA ASP LEU LYS
SEQRES 17 A 353 THR MET VAL GLU THR LYS LYS VAL THR SER SER GLY VAL
SEQRES 18 A 353 LEU LEU LEU ASP ASN TYR THR ASP ARG ILE GLN VAL LEU
SEQRES 19 A 353 ARG ASN MET VAL HIS CYS ALA ASP LEU SER ASN PRO THR
SEQRES 20 A 353 LYS SER LEU GLU LEU TYR ARG GLN TRP THR ASP ARG ILE
SEQRES 21 A 353 MET GLU GLU PHE PHE GLN GLN GLY ASP LYS GLU ARG GLU
SEQRES 22 A 353 ARG GLY MET GLU ILE SER PRO MET CYS ASP LYS HIS THR
SEQRES 23 A 353 ALA SER VAL GLU LYS SER GLN VAL GLY PHE ILE ASP TYR
SEQRES 24 A 353 ILE VAL HIS PRO LEU TRP GLU THR TRP ALA ASP LEU VAL
SEQRES 25 A 353 GLN PRO ASP ALA GLN ASP ILE LEU ASP THR LEU GLU ASP
SEQRES 26 A 353 ASN ARG ASN TRP TYR GLN ALA MET ILE PRO GLN ALA PRO
SEQRES 27 A 353 ALA PRO PRO LEU ASP GLU GLN ASN ARG ASP CYS GLN GLY
SEQRES 28 A 353 LEU MET
HET 066 A 1 37
HET ZN A 504 1
HET MG A 505 1
HET ARS A 506 2
HET ARS A 2 1
HET ARS A 3 1
HET ARS A 4 1
HET GOL A 507 6
HET GOL A 508 6
HET GOL A 509 6
HETNAM 066 6-{[3-(DIMETHYLCARBAMOYL)PHENYL]SULFONYL}-4-[(3-
HETNAM 2 066 METHOXYPHENYL)AMINO]-8-METHYLQUINOLINE-3-CARBOXAMIDE
HETNAM ZN ZINC ION
HETNAM MG MAGNESIUM ION
HETNAM ARS ARSENIC
HETNAM GOL GLYCEROL
HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL
FORMUL 2 066 C27 H26 N4 O5 S
FORMUL 3 ZN ZN 2+
FORMUL 4 MG MG 2+
FORMUL 5 ARS 4(AS)
FORMUL 9 GOL 3(C3 H8 O3)
FORMUL 12 HOH *321(H2 O)
HELIX 1 1 ASN A 159 GLU A 171 1 13
HELIX 2 2 ASN A 179 SER A 187 1 9
HELIX 3 3 ARG A 190 ARG A 203 1 14
HELIX 4 4 ASP A 204 ARG A 210 1 7
HELIX 5 5 SER A 212 HIS A 226 1 15
HELIX 6 6 ASN A 235 SER A 251 1 17
HELIX 7 7 THR A 252 ASP A 256 5 5
HELIX 8 8 THR A 260 HIS A 274 1 15
HELIX 9 9 SER A 282 THR A 289 1 8
HELIX 10 10 SER A 291 ASN A 298 1 8
HELIX 11 11 SER A 301 LEU A 314 1 14
HELIX 12 12 LEU A 315 GLN A 316 5 2
HELIX 13 13 GLU A 317 ASP A 321 5 5
HELIX 14 14 THR A 327 ALA A 344 1 18
HELIX 15 15 THR A 345 SER A 348 5 4
HELIX 16 16 LYS A 349 THR A 363 1 15
HELIX 17 17 ASN A 376 LEU A 393 1 18
HELIX 18 18 SER A 394 LYS A 398 5 5
HELIX 19 19 SER A 399 ARG A 424 1 26
HELIX 20 20 SER A 429 ASP A 433 5 5
HELIX 21 21 SER A 438 ILE A 450 1 13
HELIX 22 22 ILE A 450 GLN A 463 1 14
HELIX 23 23 ALA A 466 ALA A 482 1 17
LINK O HOH A 72 MG MG A 505 1555 1555 2.51
LINK O HOH A 73 MG MG A 505 1555 1555 2.40
LINK O HOH A 74 ZN ZN A 504 1555 1555 2.10
LINK O HOH A 74 MG MG A 505 1555 1555 2.09
LINK O HOH A 75 MG MG A 505 1555 1555 2.23
LINK O HOH A 78 MG MG A 505 1555 1555 2.03
LINK NE2 HIS A 238 ZN ZN A 504 1555 1555 2.09
LINK NE2 HIS A 274 ZN ZN A 504 1555 1555 2.12
LINK OD2 ASP A 275 ZN ZN A 504 1555 1555 2.16
LINK OD1 ASP A 275 MG MG A 505 1555 1555 2.20
LINK OD1 ASP A 392 ZN ZN A 504 1555 1555 2.20
LINK ZN ZN A 504 O HOH A 523 1555 1555 2.19
CISPEP 1 GLN A 463 PRO A 464 0 -6.99
SITE 1 AC1 17 ARS A 4 HOH A 5 HOH A 56 TYR A 233
SITE 2 AC1 17 SER A 282 MET A 347 ASP A 392 ASN A 395
SITE 3 AC1 17 ILE A 410 PHE A 414 MET A 431 SER A 442
SITE 4 AC1 17 GLN A 443 PHE A 446 GOL A 508 HOH A 524
SITE 5 AC1 17 HOH A 527
SITE 1 AC2 6 HOH A 74 HIS A 238 HIS A 274 ASP A 275
SITE 2 AC2 6 ASP A 392 HOH A 523
SITE 1 AC3 6 HOH A 72 HOH A 73 HOH A 74 HOH A 75
SITE 2 AC3 6 HOH A 78 ASP A 275
SITE 1 AC4 1 CYS A 194
SITE 1 AC5 1 CYS A 320
SITE 1 AC6 2 SER A 429 CYS A 432
SITE 1 AC7 4 066 A 1 HIS A 234 HOH A 522 HOH A 523
SITE 1 AC8 7 HOH A 10 HOH A 36 HOH A 115 ASP A 277
SITE 2 AC8 7 LEU A 293 HOH A 554 HOH A 649
SITE 1 AC9 5 066 A 1 SER A 442 PHE A 446 HOH A 668
SITE 2 AC9 5 HOH A 683
SITE 1 BC1 5 THR A 208 PHE A 209 ARG A 210 ASN A 325
SITE 2 BC1 5 GLN A 330
CRYST1 88.706 94.783 105.995 90.00 90.00 90.00 I 21 21 21 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 0.011273 0.000000 0.000000 0.00000
SCALE2 0.000000 0.010550 0.000000 0.00000
SCALE3 0.000000 0.000000 0.009434 0.00000