PDB Short entry for 2VCZ HEADER ISOMERASE 28-SEP-07 2VCZ TITLE COMPLEX STRUCTURE OF PROSTAGLANDIN D2 SYNTHASE AT 1.95A. COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTATHIONE-REQUIRING PROSTAGLANDIN D SYNTHASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: GLUTATHIONE-DEPENDENT PGD SYNTHETASE, PROSTAGLANDIN-H2 D- COMPND 5 ISOMERASE, HEMATOPOIETIC PROSTAGLANDIN D SYNTHASE, H-PGDS, COMPND 6 PROSTAGLANDIN D2 SYNTHASE; COMPND 7 EC: 5.3.99.2; COMPND 8 ENGINEERED: YES; COMPND 9 OTHER_DETAILS: THE PROTEIN CONTAIN A GLUTATHIONE CO-FACTOR. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS PROSTAGLANDIN BIOSYNTHESIS, FATTY ACID BIOSYNTHESIS, PROSTAGLANDIN D2 KEYWDS 2 SYNTHASE, PGDS, ASTHMA, CYTOPLASM, ISOMERASE, LIPID SYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR M.HOHWY,L.SPADOLA,B.LUNDQUIST,K.VON WACHENFELDT,S.PERSDOTTER, AUTHOR 2 P.HAWTIN,J.DAHMEN,I.GROTH-CLAUSEN,R.H.A.FOLMER,K.EDMAN REVDAT 3 13-DEC-23 2VCZ 1 REMARK REVDAT 2 24-FEB-09 2VCZ 1 VERSN REVDAT 1 15-APR-08 2VCZ 0 JRNL AUTH M.HOHWY,L.SPADOLA,B.LUNDQUIST,P.HAWTIN,J.DAHMEN, JRNL AUTH 2 I.GROTH-CLAUSEN,E.NILSSON,S.PERSDOTTER,K.VON WACHENFELDT, JRNL AUTH 3 R.H.A.FOLMER,K.EDMAN JRNL TITL NOVEL PROSTAGLANDIN D SYNTHASE INHIBITORS GENERATED BY JRNL TITL 2 FRAGMENT-BASED DRUG DESIGN. JRNL REF J.MED.CHEM. V. 51 2178 2008 JRNL REFN ISSN 0022-2623 JRNL PMID 18341273 JRNL DOI 10.1021/JM701509K REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 54985 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2931 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4081 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 191 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6369 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 94 REMARK 3 SOLVENT ATOMS : 314 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.26000 REMARK 3 B22 (A**2) : 0.26000 REMARK 3 B33 (A**2) : -0.52000 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): 0.194 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.171 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.114 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.856 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6626 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9005 ; 1.283 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 766 ; 2.776 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 321 ;29.019 ;24.112 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1129 ;10.761 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;13.371 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 988 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5038 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3129 ; 0.198 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4545 ; 0.309 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 422 ; 0.132 ; 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): 73 ; 0.202 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.181 ; 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): 4011 ; 0.740 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6285 ; 1.210 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3069 ; 1.561 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2720 ; 2.425 ; 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): 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 : 1.40 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 2VCZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1290033999. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.4 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) : 0.9392 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57930 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 39.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.300 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.38000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1PD2 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG6000, 1% DIOXANE, 5MM DTT, 5MM REMARK 280 GSH, 0.05 M TRISHCL PH8.4 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y,Z REMARK 290 7555 -Y+1/2,X,Z+3/4 REMARK 290 8555 Y,-X+1/2,Z+1/4 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 61.71450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 61.71450 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.13650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 61.71450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 26.56825 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 61.71450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 79.70475 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 61.71450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 61.71450 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 53.13650 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 61.71450 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 79.70475 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 61.71450 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 26.56825 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 3110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 1410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 1 REMARK 465 MET B 1 REMARK 465 MET C 1 REMARK 465 SER C 100 REMARK 465 CYS C 101 REMARK 465 PHE C 102 REMARK 465 PRO C 103 REMARK 465 TRP C 104 REMARK 465 ALA C 105 REMARK 465 GLU C 106 REMARK 465 LYS C 107 REMARK 465 LYS C 108 REMARK 465 GLN C 109 REMARK 465 ASP C 110 REMARK 465 VAL C 111 REMARK 465 LYS C 112 REMARK 465 GLU C 113 REMARK 465 GLN C 114 REMARK 465 MET C 115 REMARK 465 PHE C 116 REMARK 465 ASN C 117 REMARK 465 GLU C 118 REMARK 465 LEU C 119 REMARK 465 LEU C 120 REMARK 465 MET D 1 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN D 109 CG CD OE1 NE2 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 GLN A 63 100.96 75.29 REMARK 500 TYR A 122 -62.75 -105.85 REMARK 500 ASP B 57 -124.66 52.87 REMARK 500 GLN B 63 105.16 71.64 REMARK 500 GLN C 63 99.91 71.69 REMARK 500 ASP D 57 -124.42 49.60 REMARK 500 GLN D 63 105.06 76.33 REMARK 500 GLN D 109 -76.82 -49.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE VC3 B1200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GSH A1200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GSH B1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GSH C1200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GSH D1200 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1V40 RELATED DB: PDB REMARK 900 FIRST INHIBITOR COMPLEX STRUCTURE OF HUMAN REMARK 900 HEMATOPOIETICPROSTAGLANDIN D SYNTHASE REMARK 900 RELATED ID: 2VCQ RELATED DB: PDB REMARK 900 COMPLEX STRUCTURE OF PROSTAGLANDIN D2 SYNTHASE AT 1.95A. REMARK 900 RELATED ID: 2VCW RELATED DB: PDB REMARK 900 COMPLEX STRUCTURE OF PROSTAGLANDIN D2 SYNTHASE AT 1.95A. REMARK 900 RELATED ID: 2VCX RELATED DB: PDB REMARK 900 COMPLEX STRUCTURE OF PROSTAGLANDIN D2 SYNTHASE AT 2.1A. REMARK 900 RELATED ID: 1IYH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HEMATOPOIETIC PROSTAGLANDIN D SYNTHASE REMARK 900 RELATED ID: 1IYI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HEMATOPOIETIC PROSTAGLANDIN D SYNTHASE REMARK 900 RELATED ID: 2VD0 RELATED DB: PDB REMARK 900 COMPLEX STRUCTURE OF PROSTAGLANDIN D2 SYNTHASE AT 2.2A. REMARK 900 RELATED ID: 2VD1 RELATED DB: PDB REMARK 900 COMPLEX STRUCTURE OF PROSTAGLANDIN D2 SYNTHASE AT 2.25A. DBREF 2VCZ A 1 199 UNP O60760 PTGD2_HUMAN 1 199 DBREF 2VCZ B 1 199 UNP O60760 PTGD2_HUMAN 1 199 DBREF 2VCZ C 1 199 UNP O60760 PTGD2_HUMAN 1 199 DBREF 2VCZ D 1 199 UNP O60760 PTGD2_HUMAN 1 199 SEQRES 1 A 199 MET PRO ASN TYR LYS LEU THR TYR PHE ASN MET ARG GLY SEQRES 2 A 199 ARG ALA GLU ILE ILE ARG TYR ILE PHE ALA TYR LEU ASP SEQRES 3 A 199 ILE GLN TYR GLU ASP HIS ARG ILE GLU GLN ALA ASP TRP SEQRES 4 A 199 PRO GLU ILE LYS SER THR LEU PRO PHE GLY LYS ILE PRO SEQRES 5 A 199 ILE LEU GLU VAL ASP GLY LEU THR LEU HIS GLN SER LEU SEQRES 6 A 199 ALA ILE ALA ARG TYR LEU THR LYS ASN THR ASP LEU ALA SEQRES 7 A 199 GLY ASN THR GLU MET GLU GLN CYS HIS VAL ASP ALA ILE SEQRES 8 A 199 VAL ASP THR LEU ASP ASP PHE MET SER CYS PHE PRO TRP SEQRES 9 A 199 ALA GLU LYS LYS GLN ASP VAL LYS GLU GLN MET PHE ASN SEQRES 10 A 199 GLU LEU LEU THR TYR ASN ALA PRO HIS LEU MET GLN ASP SEQRES 11 A 199 LEU ASP THR TYR LEU GLY GLY ARG GLU TRP LEU ILE GLY SEQRES 12 A 199 ASN SER VAL THR TRP ALA ASP PHE TYR TRP GLU ILE CYS SEQRES 13 A 199 SER THR THR LEU LEU VAL PHE LYS PRO ASP LEU LEU ASP SEQRES 14 A 199 ASN HIS PRO ARG LEU VAL THR LEU ARG LYS LYS VAL GLN SEQRES 15 A 199 ALA ILE PRO ALA VAL ALA ASN TRP ILE LYS ARG ARG PRO SEQRES 16 A 199 GLN THR LYS LEU SEQRES 1 B 199 MET PRO ASN TYR LYS LEU THR TYR PHE ASN MET ARG GLY SEQRES 2 B 199 ARG ALA GLU ILE ILE ARG TYR ILE PHE ALA TYR LEU ASP SEQRES 3 B 199 ILE GLN TYR GLU ASP HIS ARG ILE GLU GLN ALA ASP TRP SEQRES 4 B 199 PRO GLU ILE LYS SER THR LEU PRO PHE GLY LYS ILE PRO SEQRES 5 B 199 ILE LEU GLU VAL ASP GLY LEU THR LEU HIS GLN SER LEU SEQRES 6 B 199 ALA ILE ALA ARG TYR LEU THR LYS ASN THR ASP LEU ALA SEQRES 7 B 199 GLY ASN THR GLU MET GLU GLN CYS HIS VAL ASP ALA ILE SEQRES 8 B 199 VAL ASP THR LEU ASP ASP PHE MET SER CYS PHE PRO TRP SEQRES 9 B 199 ALA GLU LYS LYS GLN ASP VAL LYS GLU GLN MET PHE ASN SEQRES 10 B 199 GLU LEU LEU THR TYR ASN ALA PRO HIS LEU MET GLN ASP SEQRES 11 B 199 LEU ASP THR TYR LEU GLY GLY ARG GLU TRP LEU ILE GLY SEQRES 12 B 199 ASN SER VAL THR TRP ALA ASP PHE TYR TRP GLU ILE CYS SEQRES 13 B 199 SER THR THR LEU LEU VAL PHE LYS PRO ASP LEU LEU ASP SEQRES 14 B 199 ASN HIS PRO ARG LEU VAL THR LEU ARG LYS LYS VAL GLN SEQRES 15 B 199 ALA ILE PRO ALA VAL ALA ASN TRP ILE LYS ARG ARG PRO SEQRES 16 B 199 GLN THR LYS LEU SEQRES 1 C 199 MET PRO ASN TYR LYS LEU THR TYR PHE ASN MET ARG GLY SEQRES 2 C 199 ARG ALA GLU ILE ILE ARG TYR ILE PHE ALA TYR LEU ASP SEQRES 3 C 199 ILE GLN TYR GLU ASP HIS ARG ILE GLU GLN ALA ASP TRP SEQRES 4 C 199 PRO GLU ILE LYS SER THR LEU PRO PHE GLY LYS ILE PRO SEQRES 5 C 199 ILE LEU GLU VAL ASP GLY LEU THR LEU HIS GLN SER LEU SEQRES 6 C 199 ALA ILE ALA ARG TYR LEU THR LYS ASN THR ASP LEU ALA SEQRES 7 C 199 GLY ASN THR GLU MET GLU GLN CYS HIS VAL ASP ALA ILE SEQRES 8 C 199 VAL ASP THR LEU ASP ASP PHE MET SER CYS PHE PRO TRP SEQRES 9 C 199 ALA GLU LYS LYS GLN ASP VAL LYS GLU GLN MET PHE ASN SEQRES 10 C 199 GLU LEU LEU THR TYR ASN ALA PRO HIS LEU MET GLN ASP SEQRES 11 C 199 LEU ASP THR TYR LEU GLY GLY ARG GLU TRP LEU ILE GLY SEQRES 12 C 199 ASN SER VAL THR TRP ALA ASP PHE TYR TRP GLU ILE CYS SEQRES 13 C 199 SER THR THR LEU LEU VAL PHE LYS PRO ASP LEU LEU ASP SEQRES 14 C 199 ASN HIS PRO ARG LEU VAL THR LEU ARG LYS LYS VAL GLN SEQRES 15 C 199 ALA ILE PRO ALA VAL ALA ASN TRP ILE LYS ARG ARG PRO SEQRES 16 C 199 GLN THR LYS LEU SEQRES 1 D 199 MET PRO ASN TYR LYS LEU THR TYR PHE ASN MET ARG GLY SEQRES 2 D 199 ARG ALA GLU ILE ILE ARG TYR ILE PHE ALA TYR LEU ASP SEQRES 3 D 199 ILE GLN TYR GLU ASP HIS ARG ILE GLU GLN ALA ASP TRP SEQRES 4 D 199 PRO GLU ILE LYS SER THR LEU PRO PHE GLY LYS ILE PRO SEQRES 5 D 199 ILE LEU GLU VAL ASP GLY LEU THR LEU HIS GLN SER LEU SEQRES 6 D 199 ALA ILE ALA ARG TYR LEU THR LYS ASN THR ASP LEU ALA SEQRES 7 D 199 GLY ASN THR GLU MET GLU GLN CYS HIS VAL ASP ALA ILE SEQRES 8 D 199 VAL ASP THR LEU ASP ASP PHE MET SER CYS PHE PRO TRP SEQRES 9 D 199 ALA GLU LYS LYS GLN ASP VAL LYS GLU GLN MET PHE ASN SEQRES 10 D 199 GLU LEU LEU THR TYR ASN ALA PRO HIS LEU MET GLN ASP SEQRES 11 D 199 LEU ASP THR TYR LEU GLY GLY ARG GLU TRP LEU ILE GLY SEQRES 12 D 199 ASN SER VAL THR TRP ALA ASP PHE TYR TRP GLU ILE CYS SEQRES 13 D 199 SER THR THR LEU LEU VAL PHE LYS PRO ASP LEU LEU ASP SEQRES 14 D 199 ASN HIS PRO ARG LEU VAL THR LEU ARG LYS LYS VAL GLN SEQRES 15 D 199 ALA ILE PRO ALA VAL ALA ASN TRP ILE LYS ARG ARG PRO SEQRES 16 D 199 GLN THR LYS LEU HET GSH A1200 20 HET VC3 B1200 14 HET GSH B1201 20 HET GSH C1200 20 HET GSH D1200 20 HETNAM GSH GLUTATHIONE HETNAM VC3 3-(4-NITROPHENYL)-1H-PYRAZOLE FORMUL 5 GSH 4(C10 H17 N3 O6 S) FORMUL 6 VC3 C9 H7 N3 O2 FORMUL 10 HOH *314(H2 O) HELIX 1 1 ALA A 15 ASP A 26 1 12 HELIX 2 2 GLU A 35 ALA A 37 5 3 HELIX 3 3 ASP A 38 LEU A 46 1 9 HELIX 4 4 GLN A 63 LYS A 73 1 11 HELIX 5 5 THR A 75 GLY A 79 5 5 HELIX 6 6 THR A 81 SER A 100 1 20 HELIX 7 7 LYS A 108 TYR A 122 1 15 HELIX 8 8 TYR A 122 GLY A 136 1 15 HELIX 9 9 THR A 147 LYS A 164 1 18 HELIX 10 10 HIS A 171 ALA A 183 1 13 HELIX 11 11 ILE A 184 ARG A 194 1 11 HELIX 12 12 ALA B 15 LEU B 25 1 11 HELIX 13 13 GLU B 35 ALA B 37 5 3 HELIX 14 14 ASP B 38 SER B 44 1 7 HELIX 15 15 GLN B 63 LYS B 73 1 11 HELIX 16 16 THR B 81 SER B 100 1 20 HELIX 17 17 LYS B 108 ASN B 123 1 16 HELIX 18 18 ASN B 123 GLY B 136 1 14 HELIX 19 19 THR B 147 LYS B 164 1 18 HELIX 20 20 HIS B 171 ILE B 184 1 14 HELIX 21 21 ILE B 184 ARG B 194 1 11 HELIX 22 22 ARG C 12 ARG C 14 5 3 HELIX 23 23 ALA C 15 LEU C 25 1 11 HELIX 24 24 ASP C 38 SER C 44 1 7 HELIX 25 25 GLN C 63 LYS C 73 1 11 HELIX 26 26 THR C 81 MET C 99 1 19 HELIX 27 27 ASN C 123 GLY C 136 1 14 HELIX 28 28 THR C 147 LYS C 164 1 18 HELIX 29 29 HIS C 171 ALA C 183 1 13 HELIX 30 30 ILE C 184 ARG C 194 1 11 HELIX 31 31 ALA D 15 ASP D 26 1 12 HELIX 32 32 ASP D 38 SER D 44 1 7 HELIX 33 33 GLN D 63 LYS D 73 1 11 HELIX 34 34 THR D 81 CYS D 101 1 21 HELIX 35 35 LYS D 108 ASN D 123 1 16 HELIX 36 36 ASN D 123 GLY D 136 1 14 HELIX 37 37 THR D 147 LYS D 164 1 18 HELIX 38 38 HIS D 171 ILE D 184 1 14 HELIX 39 39 ILE D 184 ARG D 194 1 11 SHEET 1 AA 4 GLU A 30 ILE A 34 0 SHEET 2 AA 4 TYR A 4 PHE A 9 1 O TYR A 4 N GLU A 30 SHEET 3 AA 4 ILE A 53 VAL A 56 -1 O ILE A 53 N THR A 7 SHEET 4 AA 4 LEU A 59 HIS A 62 -1 O LEU A 59 N VAL A 56 SHEET 1 BA 4 GLU B 30 ILE B 34 0 SHEET 2 BA 4 TYR B 4 PHE B 9 1 O TYR B 4 N GLU B 30 SHEET 3 BA 4 ILE B 53 VAL B 56 -1 O ILE B 53 N THR B 7 SHEET 4 BA 4 LEU B 59 HIS B 62 -1 O LEU B 59 N VAL B 56 SHEET 1 CA 4 TYR C 29 ILE C 34 0 SHEET 2 CA 4 TYR C 4 PHE C 9 1 O TYR C 4 N GLU C 30 SHEET 3 CA 4 ILE C 53 VAL C 56 -1 O ILE C 53 N THR C 7 SHEET 4 CA 4 LEU C 59 HIS C 62 -1 O LEU C 59 N VAL C 56 SHEET 1 DA 4 TYR D 29 ILE D 34 0 SHEET 2 DA 4 TYR D 4 PHE D 9 1 O TYR D 4 N GLU D 30 SHEET 3 DA 4 ILE D 53 VAL D 56 -1 O ILE D 53 N THR D 7 SHEET 4 DA 4 LEU D 59 HIS D 62 -1 O LEU D 59 N VAL D 56 CISPEP 1 ILE A 51 PRO A 52 0 4.43 CISPEP 2 ILE B 51 PRO B 52 0 7.43 CISPEP 3 ILE C 51 PRO C 52 0 3.17 CISPEP 4 ILE D 51 PRO D 52 0 4.71 SITE 1 AC1 10 MET B 11 GLY B 13 ARG B 14 ASP B 96 SITE 2 AC1 10 MET B 99 TRP B 104 TYR B 152 LEU B 199 SITE 3 AC1 10 HOH B2071 HOH B2095 SITE 1 AC2 11 TYR A 8 ARG A 14 TRP A 39 LYS A 43 SITE 2 AC2 11 GLY A 49 LYS A 50 ILE A 51 GLN A 63 SITE 3 AC2 11 SER A 64 HOH A2024 ASP B 97 SITE 1 AC3 11 ASP A 97 TYR B 8 ARG B 14 TRP B 39 SITE 2 AC3 11 LYS B 43 LYS B 50 ILE B 51 GLN B 63 SITE 3 AC3 11 SER B 64 HOH B2030 HOH B2053 SITE 1 AC4 13 TYR C 8 ARG C 14 TRP C 39 LYS C 43 SITE 2 AC4 13 LYS C 50 ILE C 51 GLN C 63 SER C 64 SITE 3 AC4 13 HOH C2008 HOH C2026 HOH C2078 HOH C2079 SITE 4 AC4 13 ASP D 97 SITE 1 AC5 11 ASP C 97 TYR D 8 ARG D 14 TRP D 39 SITE 2 AC5 11 LYS D 43 LYS D 50 ILE D 51 PRO D 52 SITE 3 AC5 11 GLN D 63 SER D 64 HOH D2017 CRYST1 123.429 123.429 106.273 90.00 90.00 90.00 I 41 32 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 0.008102 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008102 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009410 0.00000