HEADER OXIDOREDUCTASE 30-JAN-18 6FMD TITLE TARGETING MYELOID DIFFERENTIATION USING POTENT HUMAN DIHYDROOROTATE TITLE 2 DEHYDROGENASE (HDHODH) INHIBITORS BASED ON 2-HYDROXYPYRAZOLO[1,5- TITLE 3 A]PYRIDINE SCAFFOLD COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE (QUINONE), MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DHODEHASE,DIHYDROOROTATE OXIDASE; COMPND 5 EC: 1.3.5.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DHODH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DHODH, INHIBITOR COMPLEX, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR P.GOYAL,M.JARVA,M.ANDERSSON,M.L.LOLLI,R.FRIEMANN REVDAT 4 17-JAN-24 6FMD 1 REMARK REVDAT 3 08-AUG-18 6FMD 1 JRNL REVDAT 2 18-JUL-18 6FMD 1 JRNL REVDAT 1 11-JUL-18 6FMD 0 JRNL AUTH S.SAINAS,A.C.PIPPIONE,E.LUPINO,M.GIORGIS,P.CIRCOSTA, JRNL AUTH 2 V.GAIDANO,P.GOYAL,D.BONANNI,B.ROLANDO,A.CIGNETTI,A.DUCIME, JRNL AUTH 3 M.ANDERSSON,M.JARVA,R.FRIEMANN,M.PICCININI,C.RAMONDETTI, JRNL AUTH 4 B.BUCCINNA,S.AL-KARADAGHI,D.BOSCHI,G.SAGLIO,M.L.LOLLI JRNL TITL TARGETING MYELOID DIFFERENTIATION USING POTENT JRNL TITL 2 2-HYDROXYPYRAZOLO[1,5- A]PYRIDINE SCAFFOLD-BASED HUMAN JRNL TITL 3 DIHYDROOROTATE DEHYDROGENASE INHIBITORS. JRNL REF J. MED. CHEM. V. 61 6034 2018 JRNL REFN ISSN 1520-4804 JRNL PMID 29939742 JRNL DOI 10.1021/ACS.JMEDCHEM.8B00373 REMARK 2 REMARK 2 RESOLUTION. 1.58 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 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.32 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 75404 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) : 0.138 REMARK 3 R VALUE (WORKING SET) : 0.137 REMARK 3 FREE R VALUE : 0.160 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 4016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2731 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 181 REMARK 3 SOLVENT ATOMS : 155 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.057 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.052 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.039 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.644 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6FMD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1200008579. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-APR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97242 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 79465 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 78.324 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07100 REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.74000 REMARK 200 R SYM FOR SHELL (I) : 0.74000 REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5MUT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M KBR, 0.2M KSCN, 0.1M NAAC PH 5.2, REMARK 280 25% PEG 400, 2% PGA-LM, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 81.63067 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 40.81533 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 40.81533 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 81.63067 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 13.0 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 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 2 REMARK 465 ALA A 3 REMARK 465 TRP A 4 REMARK 465 ARG A 5 REMARK 465 HIS A 6 REMARK 465 LEU A 7 REMARK 465 LYS A 8 REMARK 465 LYS A 9 REMARK 465 ARG A 10 REMARK 465 ALA A 11 REMARK 465 GLN A 12 REMARK 465 ASP A 13 REMARK 465 ALA A 14 REMARK 465 VAL A 15 REMARK 465 ILE A 16 REMARK 465 ILE A 17 REMARK 465 LEU A 18 REMARK 465 GLY A 19 REMARK 465 GLY A 20 REMARK 465 GLY A 21 REMARK 465 GLY A 22 REMARK 465 LEU A 23 REMARK 465 LEU A 24 REMARK 465 PHE A 25 REMARK 465 ALA A 26 REMARK 465 SER A 27 REMARK 465 TYR A 28 REMARK 465 LEU A 29 REMARK 465 MET A 30 REMARK 465 ASN A 217 REMARK 465 THR A 218 REMARK 465 ALA A 219 REMARK 465 GLY A 220 REMARK 465 LEU A 221 REMARK 465 ARG A 222 REMARK 465 SER A 223 REMARK 465 LEU A 224 REMARK 465 GLN A 225 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 ARG A 249 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 249 NE - CZ - NH2 ANGL. DEV. = -3.2 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 HIS A 41 -57.22 -126.04 REMARK 500 ASP A 99 78.62 -100.36 REMARK 500 ALA A 104 23.82 -140.76 REMARK 500 TYR A 356 -64.10 -144.36 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 DUH A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMN A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ORO A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 418 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 419 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 420 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 421 DBREF 6FMD A 2 396 UNP Q02127 PYRD_HUMAN 1 395 SEQRES 1 A 395 MET ALA TRP ARG HIS LEU LYS LYS ARG ALA GLN ASP ALA SEQRES 2 A 395 VAL ILE ILE LEU GLY GLY GLY GLY LEU LEU PHE ALA SER SEQRES 3 A 395 TYR LEU MET ALA THR GLY ASP GLU ARG PHE TYR ALA GLU SEQRES 4 A 395 HIS LEU MET PRO THR LEU GLN GLY LEU LEU ASP PRO GLU SEQRES 5 A 395 SER ALA HIS ARG LEU ALA VAL ARG PHE THR SER LEU GLY SEQRES 6 A 395 LEU LEU PRO ARG ALA ARG PHE GLN ASP SER ASP MET LEU SEQRES 7 A 395 GLU VAL ARG VAL LEU GLY HIS LYS PHE ARG ASN PRO VAL SEQRES 8 A 395 GLY ILE ALA ALA GLY PHE ASP LYS HIS GLY GLU ALA VAL SEQRES 9 A 395 ASP GLY LEU TYR LYS MET GLY PHE GLY PHE VAL GLU ILE SEQRES 10 A 395 GLY SER VAL THR PRO LYS PRO GLN GLU GLY ASN PRO ARG SEQRES 11 A 395 PRO ARG VAL PHE ARG LEU PRO GLU ASP GLN ALA VAL ILE SEQRES 12 A 395 ASN ARG TYR GLY PHE ASN SER HIS GLY LEU SER VAL VAL SEQRES 13 A 395 GLU HIS ARG LEU ARG ALA ARG GLN GLN LYS GLN ALA LYS SEQRES 14 A 395 LEU THR GLU ASP GLY LEU PRO LEU GLY VAL ASN LEU GLY SEQRES 15 A 395 LYS ASN LYS THR SER VAL ASP ALA ALA GLU ASP TYR ALA SEQRES 16 A 395 GLU GLY VAL ARG VAL LEU GLY PRO LEU ALA ASP TYR LEU SEQRES 17 A 395 VAL VAL ASN VAL SER SER PRO ASN THR ALA GLY LEU ARG SEQRES 18 A 395 SER LEU GLN GLY LYS ALA GLU LEU ARG ARG LEU LEU THR SEQRES 19 A 395 LYS VAL LEU GLN GLU ARG ASP GLY LEU ARG ARG VAL HIS SEQRES 20 A 395 ARG PRO ALA VAL LEU VAL LYS ILE ALA PRO ASP LEU THR SEQRES 21 A 395 SER GLN ASP LYS GLU ASP ILE ALA SER VAL VAL LYS GLU SEQRES 22 A 395 LEU GLY ILE ASP GLY LEU ILE VAL THR ASN THR THR VAL SEQRES 23 A 395 SER ARG PRO ALA GLY LEU GLN GLY ALA LEU ARG SER GLU SEQRES 24 A 395 THR GLY GLY LEU SER GLY LYS PRO LEU ARG ASP LEU SER SEQRES 25 A 395 THR GLN THR ILE ARG GLU MET TYR ALA LEU THR GLN GLY SEQRES 26 A 395 ARG VAL PRO ILE ILE GLY VAL GLY GLY VAL SER SER GLY SEQRES 27 A 395 GLN ASP ALA LEU GLU LYS ILE ARG ALA GLY ALA SER LEU SEQRES 28 A 395 VAL GLN LEU TYR THR ALA LEU THR PHE TRP GLY PRO PRO SEQRES 29 A 395 VAL VAL GLY LYS VAL LYS ARG GLU LEU GLU ALA LEU LEU SEQRES 30 A 395 LYS GLU GLN GLY PHE GLY GLY VAL THR ASP ALA ILE GLY SEQRES 31 A 395 ALA ASP HIS ARG ARG HET DUH A 401 29 HET CL A 402 1 HET CL A 403 1 HET FMN A 404 31 HET ACT A 405 4 HET ACT A 406 4 HET ACT A 407 4 HET ACT A 408 4 HET ACT A 409 4 HET ACT A 410 4 HET ORO A 411 11 HET GOL A 412 6 HET GOL A 413 6 HET GOL A 414 6 HET GOL A 415 6 HET PGE A 416 10 HET PGE A 417 10 HET PGE A 418 10 HET PGE A 419 10 HET PGE A 420 10 HET PGE A 421 10 HETNAM DUH 2-OXIDANYL-~{N}-[2,3,5,6-TETRAKIS(FLUORANYL)-4-PHENYL- HETNAM 2 DUH PHENYL]PYRAZOLO[1,5-A]PYRIDINE-3-CARBOXAMIDE HETNAM CL CHLORIDE ION HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ACT ACETATE ION HETNAM ORO OROTIC ACID HETNAM GOL GLYCEROL HETNAM PGE TRIETHYLENE GLYCOL HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 DUH C20 H11 F4 N3 O2 FORMUL 3 CL 2(CL 1-) FORMUL 5 FMN C17 H21 N4 O9 P FORMUL 6 ACT 6(C2 H3 O2 1-) FORMUL 12 ORO C5 H4 N2 O4 FORMUL 13 GOL 4(C3 H8 O3) FORMUL 17 PGE 6(C6 H14 O4) FORMUL 23 HOH *155(H2 O) HELIX 1 AA1 THR A 32 HIS A 41 1 10 HELIX 2 AA2 HIS A 41 LEU A 50 1 10 HELIX 3 AA3 ASP A 51 LEU A 65 1 15 HELIX 4 AA4 SER A 76 GLU A 80 5 5 HELIX 5 AA5 ALA A 104 MET A 111 1 8 HELIX 6 AA6 PRO A 138 ASP A 140 5 3 HELIX 7 AA7 GLY A 153 ALA A 163 1 11 HELIX 8 AA8 ARG A 164 ASP A 174 1 11 HELIX 9 AA9 ASP A 190 GLY A 203 1 14 HELIX 10 AB1 PRO A 204 ALA A 206 5 3 HELIX 11 AB2 LYS A 227 GLY A 243 1 17 HELIX 12 AB3 LEU A 244 ARG A 249 5 6 HELIX 13 AB4 THR A 261 GLY A 276 1 16 HELIX 14 AB5 LEU A 309 THR A 324 1 16 HELIX 15 AB6 SER A 338 GLY A 349 1 12 HELIX 16 AB7 TYR A 356 GLY A 363 1 8 HELIX 17 AB8 PRO A 365 GLN A 381 1 17 HELIX 18 AB9 GLY A 385 ILE A 390 1 6 HELIX 19 AC1 GLY A 391 ARG A 396 5 6 SHEET 1 AA1 2 VAL A 81 VAL A 83 0 SHEET 2 AA1 2 HIS A 86 PHE A 88 -1 O PHE A 88 N VAL A 81 SHEET 1 AA2 9 VAL A 92 ILE A 94 0 SHEET 2 AA2 9 PHE A 115 VAL A 121 1 O PHE A 115 N ILE A 94 SHEET 3 AA2 9 LEU A 178 LEU A 182 1 O GLY A 179 N VAL A 116 SHEET 4 AA2 9 TYR A 208 VAL A 213 1 O VAL A 210 N LEU A 182 SHEET 5 AA2 9 ALA A 251 ILE A 256 1 O LYS A 255 N VAL A 213 SHEET 6 AA2 9 GLY A 279 VAL A 282 1 O ILE A 281 N VAL A 254 SHEET 7 AA2 9 ILE A 330 VAL A 333 1 O ILE A 331 N VAL A 282 SHEET 8 AA2 9 LEU A 352 LEU A 355 1 O LEU A 352 N GLY A 332 SHEET 9 AA2 9 VAL A 92 ILE A 94 1 N GLY A 93 O VAL A 353 SHEET 1 AA3 3 VAL A 134 LEU A 137 0 SHEET 2 AA3 3 ALA A 142 ASN A 145 -1 O ALA A 142 N LEU A 137 SHEET 3 AA3 3 GLY A 303 GLY A 306 -1 O GLY A 303 N ASN A 145 CISPEP 1 GLY A 119 SER A 120 0 5.30 CISPEP 2 ARG A 131 PRO A 132 0 0.19 CISPEP 3 VAL A 282 THR A 283 0 12.28 SITE 1 AC1 17 MET A 43 LEU A 46 GLN A 47 PRO A 52 SITE 2 AC1 17 ALA A 55 HIS A 56 ALA A 59 PHE A 62 SITE 3 AC1 17 LEU A 67 LEU A 68 VAL A 134 ARG A 136 SITE 4 AC1 17 TYR A 356 LEU A 359 THR A 360 PRO A 364 SITE 5 AC1 17 HOH A 597 SITE 1 AC2 4 GLN A 165 PRO A 204 ARG A 298 SER A 299 SITE 1 AC3 3 ARG A 245 THR A 301 GLY A 302 SITE 1 AC4 25 ALA A 95 ALA A 96 GLY A 97 LYS A 100 SITE 2 AC4 25 GLY A 119 SER A 120 ASN A 145 ASN A 181 SITE 3 AC4 25 ASN A 212 LYS A 255 THR A 283 ASN A 284 SITE 4 AC4 25 THR A 285 SER A 305 GLY A 306 LEU A 309 SITE 5 AC4 25 VAL A 333 GLY A 334 GLY A 335 LEU A 355 SITE 6 AC4 25 TYR A 356 THR A 357 ORO A 411 HOH A 522 SITE 7 AC4 25 HOH A 533 SITE 1 AC5 5 ALA A 169 THR A 172 LEU A 205 ASP A 207 SITE 2 AC5 5 HOH A 517 SITE 1 AC6 3 ARG A 241 ASP A 242 LEU A 275 SITE 1 AC7 1 ARG A 246 SITE 1 AC8 7 LYS A 307 PRO A 308 ASP A 311 THR A 314 SITE 2 AC8 7 GLN A 315 ARG A 318 HOH A 507 SITE 1 AC9 1 HIS A 41 SITE 1 AD1 4 GLN A 239 ASP A 242 GLY A 243 HOH A 503 SITE 1 AD2 9 LYS A 100 ASN A 145 TYR A 147 GLY A 148 SITE 2 AD2 9 PHE A 149 ASN A 212 ASN A 284 THR A 285 SITE 3 AD2 9 FMN A 404 SITE 1 AD3 4 GLY A 276 ARG A 327 HOH A 526 HOH A 565 SITE 1 AD4 3 TYR A 109 LYS A 110 HOH A 603 SITE 1 AD5 3 GLU A 127 ASN A 129 ARG A 131 SITE 1 AD6 3 LYS A 124 SER A 155 GLU A 197 SITE 1 AD7 6 HIS A 101 GLN A 126 GLU A 127 ASN A 150 SITE 2 AD7 6 SER A 151 PGE A 417 SITE 1 AD8 3 HIS A 152 ARG A 160 PGE A 416 SITE 1 AD9 4 ASP A 51 SER A 54 ARG A 57 HOH A 505 SITE 1 AE1 3 ARG A 82 GLY A 326 SER A 351 SITE 1 AE2 6 ARG A 246 ARG A 249 ASP A 278 HOH A 521 SITE 2 AE2 6 HOH A 567 HOH A 574 SITE 1 AE3 4 ARG A 245 VAL A 287 SER A 288 ARG A 289 CRYST1 90.441 90.441 122.446 90.00 90.00 120.00 P 32 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 0.011057 0.006384 0.000000 0.00000 SCALE2 0.000000 0.012767 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008167 0.00000