HEADER TRANSCRIPTION 31-JUL-17 5Y41 TITLE CRYSTAL STRUCTURE OF LIGAND-BOUND NURR1-LBD COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEAR RECEPTOR SUBFAMILY 4 GROUP A MEMBER 2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 328-598; COMPND 5 SYNONYM: IMMEDIATE-EARLY RESPONSE PROTEIN NOT,ORPHAN NUCLEAR RECEPTOR COMPND 6 NURR1,TRANSCRIPTIONALLY-INDUCIBLE NUCLEAR RECEPTOR; 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: NR4A2, NOT, NURR1, TINUR; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-SUMO KEYWDS NURR1, LBD, PROSTAGLANDIN, TRANSCRIPTION, MICHAEL ADDITION EXPDTA X-RAY DIFFRACTION AUTHOR R.SREEKANTH,J.LESCAR,H.S.YOON REVDAT 3 22-NOV-23 5Y41 1 LINK REVDAT 2 10-JUN-20 5Y41 1 JRNL REVDAT 1 26-DEC-18 5Y41 0 JRNL AUTH S.RAJAN,Y.JANG,C.H.KIM,W.KIM,H.T.TOH,J.JEON,B.SONG,A.SERRA, JRNL AUTH 2 J.LESCAR,J.Y.YOO,S.BELDAR,H.YE,C.KANG,X.W.LIU,M.FEITOSA, JRNL AUTH 3 Y.KIM,D.HWANG,G.GOH,K.L.LIM,H.M.PARK,C.H.LEE,S.F.OH, JRNL AUTH 4 G.A.PETSKO,H.S.YOON,K.S.KIM JRNL TITL PGE1 AND PGA1 BIND TO NURR1 AND ACTIVATE ITS TRANSCRIPTIONAL JRNL TITL 2 FUNCTION. JRNL REF NAT.CHEM.BIOL. 2020 JRNL REFN ESSN 1552-4469 JRNL PMID 32451509 JRNL DOI 10.1038/S41589-020-0553-6 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 34059 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) : 0.206 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1071 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2393 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.5010 REMARK 3 BIN FREE R VALUE SET COUNT : 83 REMARK 3 BIN FREE R VALUE : 0.4170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3696 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 68 REMARK 3 SOLVENT ATOMS : 318 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.20000 REMARK 3 B22 (A**2) : -1.19000 REMARK 3 B33 (A**2) : 1.39000 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): 0.205 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.182 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.174 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.609 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3839 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5186 ; 1.786 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 460 ; 5.291 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 176 ;31.519 ;24.318 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 660 ;16.743 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;20.205 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 588 ; 0.113 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2868 ; 0.008 ; 0.021 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): 1852 ; 1.071 ; 2.197 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2308 ; 1.738 ; 3.284 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1987 ; 1.913 ; 2.489 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5936 ; 6.459 ;32.115 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 362 598 B 362 598 14694 0.10 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 362 A 598 REMARK 3 ORIGIN FOR THE GROUP (A): 11.9655 -25.1537 -19.7749 REMARK 3 T TENSOR REMARK 3 T11: 0.0092 T22: 0.0234 REMARK 3 T33: 0.1030 T12: 0.0085 REMARK 3 T13: -0.0255 T23: -0.0459 REMARK 3 L TENSOR REMARK 3 L11: 1.6333 L22: 3.0283 REMARK 3 L33: 1.8998 L12: -0.0172 REMARK 3 L13: -0.1350 L23: -1.4725 REMARK 3 S TENSOR REMARK 3 S11: -0.0060 S12: -0.0761 S13: 0.1024 REMARK 3 S21: 0.0621 S22: -0.0336 S23: -0.0528 REMARK 3 S31: -0.0820 S32: 0.0520 S33: 0.0396 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 360 B 598 REMARK 3 ORIGIN FOR THE GROUP (A): 22.8522 -55.7218 -13.7993 REMARK 3 T TENSOR REMARK 3 T11: 0.0121 T22: 0.0541 REMARK 3 T33: 0.1276 T12: -0.0208 REMARK 3 T13: -0.0281 T23: 0.0682 REMARK 3 L TENSOR REMARK 3 L11: 2.2033 L22: 3.7101 REMARK 3 L33: 2.5891 L12: -1.3661 REMARK 3 L13: -0.7373 L23: 1.1976 REMARK 3 S TENSOR REMARK 3 S11: -0.0195 S12: -0.0400 S13: -0.0468 REMARK 3 S21: 0.0790 S22: 0.0324 S23: -0.0826 REMARK 3 S31: 0.1066 S32: -0.1694 S33: -0.0130 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 5Y41 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1300004623. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-SEP-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00003 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35308 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 75.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.61600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: PHASER REMARK 200 STARTING MODEL: 1OVL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, MES PH 5.5 AND MGCL2, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 44.26000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 65.73000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.26000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 65.73000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 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 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 B 844 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 328 REMARK 465 VAL A 329 REMARK 465 LYS A 330 REMARK 465 GLU A 331 REMARK 465 VAL A 332 REMARK 465 VAL A 333 REMARK 465 ARG A 334 REMARK 465 THR A 335 REMARK 465 ASP A 336 REMARK 465 SER A 337 REMARK 465 LEU A 338 REMARK 465 LYS A 339 REMARK 465 GLY A 340 REMARK 465 ARG A 341 REMARK 465 ARG A 342 REMARK 465 GLY A 343 REMARK 465 ARG A 344 REMARK 465 LEU A 345 REMARK 465 PRO A 346 REMARK 465 SER A 347 REMARK 465 LYS A 348 REMARK 465 PRO A 349 REMARK 465 LYS A 350 REMARK 465 SER A 351 REMARK 465 PRO A 352 REMARK 465 GLN A 353 REMARK 465 GLU A 354 REMARK 465 PRO A 355 REMARK 465 SER A 356 REMARK 465 PRO A 357 REMARK 465 PRO A 358 REMARK 465 SER A 359 REMARK 465 PRO A 360 REMARK 465 PRO A 361 REMARK 465 TYR A 393 REMARK 465 GLN A 394 REMARK 465 MET A 395 REMARK 465 SER A 396 REMARK 465 GLY A 397 REMARK 465 MET B 328 REMARK 465 VAL B 329 REMARK 465 LYS B 330 REMARK 465 GLU B 331 REMARK 465 VAL B 332 REMARK 465 VAL B 333 REMARK 465 ARG B 334 REMARK 465 THR B 335 REMARK 465 ASP B 336 REMARK 465 SER B 337 REMARK 465 LEU B 338 REMARK 465 LYS B 339 REMARK 465 GLY B 340 REMARK 465 ARG B 341 REMARK 465 ARG B 342 REMARK 465 GLY B 343 REMARK 465 ARG B 344 REMARK 465 LEU B 345 REMARK 465 PRO B 346 REMARK 465 SER B 347 REMARK 465 LYS B 348 REMARK 465 PRO B 349 REMARK 465 LYS B 350 REMARK 465 SER B 351 REMARK 465 PRO B 352 REMARK 465 GLN B 353 REMARK 465 GLU B 354 REMARK 465 PRO B 355 REMARK 465 SER B 356 REMARK 465 PRO B 357 REMARK 465 PRO B 358 REMARK 465 SER B 359 REMARK 465 ASP B 392 REMARK 465 TYR B 393 REMARK 465 GLN B 394 REMARK 465 MET B 395 REMARK 465 SER B 396 REMARK 465 GLY B 397 REMARK 465 ASP B 398 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 454 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 454 NE - CZ - NH2 ANGL. DEV. = -8.2 DEGREES REMARK 500 LEU A 546 CA - CB - CG ANGL. DEV. = 15.2 DEGREES REMARK 500 LEU A 578 CA - CB - CG ANGL. DEV. = 14.9 DEGREES REMARK 500 LEU A 578 CB - CG - CD2 ANGL. DEV. = -12.1 DEGREES REMARK 500 ARG B 454 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG B 454 NE - CZ - NH2 ANGL. DEV. = -6.0 DEGREES REMARK 500 LEU B 462 CA - CB - CG ANGL. DEV. = -17.3 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 ASN A 390 69.37 -157.79 REMARK 500 ASN B 390 46.71 -147.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 868 DISTANCE = 8.20 ANGSTROMS REMARK 525 HOH A 869 DISTANCE = 8.35 ANGSTROMS REMARK 525 HOH B 848 DISTANCE = 6.71 ANGSTROMS REMARK 525 HOH B 849 DISTANCE = 7.66 ANGSTROMS 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 605 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 598 O REMARK 620 2 HOH A 736 O 90.6 REMARK 620 3 HOH A 784 O 72.8 143.3 REMARK 620 4 ASP B 594 OD1 85.5 5.3 141.9 REMARK 620 5 HOH B 729 O 175.7 93.7 104.0 98.7 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RPG A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide RPG B 601 and CYS B REMARK 800 566 DBREF 5Y41 A 328 598 UNP P43354 NR4A2_HUMAN 328 598 DBREF 5Y41 B 328 598 UNP P43354 NR4A2_HUMAN 328 598 SEQRES 1 A 271 MET VAL LYS GLU VAL VAL ARG THR ASP SER LEU LYS GLY SEQRES 2 A 271 ARG ARG GLY ARG LEU PRO SER LYS PRO LYS SER PRO GLN SEQRES 3 A 271 GLU PRO SER PRO PRO SER PRO PRO VAL SER LEU ILE SER SEQRES 4 A 271 ALA LEU VAL ARG ALA HIS VAL ASP SER ASN PRO ALA MET SEQRES 5 A 271 THR SER LEU ASP TYR SER ARG PHE GLN ALA ASN PRO ASP SEQRES 6 A 271 TYR GLN MET SER GLY ASP ASP THR GLN HIS ILE GLN GLN SEQRES 7 A 271 PHE TYR ASP LEU LEU THR GLY SER MET GLU ILE ILE ARG SEQRES 8 A 271 GLY TRP ALA GLU LYS ILE PRO GLY PHE ALA ASP LEU PRO SEQRES 9 A 271 LYS ALA ASP GLN ASP LEU LEU PHE GLU SER ALA PHE LEU SEQRES 10 A 271 GLU LEU PHE VAL LEU ARG LEU ALA TYR ARG SER ASN PRO SEQRES 11 A 271 VAL GLU GLY LYS LEU ILE PHE CYS ASN GLY VAL VAL LEU SEQRES 12 A 271 HIS ARG LEU GLN CYS VAL ARG GLY PHE GLY GLU TRP ILE SEQRES 13 A 271 ASP SER ILE VAL GLU PHE SER SER ASN LEU GLN ASN MET SEQRES 14 A 271 ASN ILE ASP ILE SER ALA PHE SER CYS ILE ALA ALA LEU SEQRES 15 A 271 ALA MET VAL THR GLU ARG HIS GLY LEU LYS GLU PRO LYS SEQRES 16 A 271 ARG VAL GLU GLU LEU GLN ASN LYS ILE VAL ASN CYS LEU SEQRES 17 A 271 LYS ASP HIS VAL THR PHE ASN ASN GLY GLY LEU ASN ARG SEQRES 18 A 271 PRO ASN TYR LEU SER LYS LEU LEU GLY LYS LEU PRO GLU SEQRES 19 A 271 LEU ARG THR LEU CYS THR GLN GLY LEU GLN ARG ILE PHE SEQRES 20 A 271 TYR LEU LYS LEU GLU ASP LEU VAL PRO PRO PRO ALA ILE SEQRES 21 A 271 ILE ASP LYS LEU PHE LEU ASP THR LEU PRO PHE SEQRES 1 B 271 MET VAL LYS GLU VAL VAL ARG THR ASP SER LEU LYS GLY SEQRES 2 B 271 ARG ARG GLY ARG LEU PRO SER LYS PRO LYS SER PRO GLN SEQRES 3 B 271 GLU PRO SER PRO PRO SER PRO PRO VAL SER LEU ILE SER SEQRES 4 B 271 ALA LEU VAL ARG ALA HIS VAL ASP SER ASN PRO ALA MET SEQRES 5 B 271 THR SER LEU ASP TYR SER ARG PHE GLN ALA ASN PRO ASP SEQRES 6 B 271 TYR GLN MET SER GLY ASP ASP THR GLN HIS ILE GLN GLN SEQRES 7 B 271 PHE TYR ASP LEU LEU THR GLY SER MET GLU ILE ILE ARG SEQRES 8 B 271 GLY TRP ALA GLU LYS ILE PRO GLY PHE ALA ASP LEU PRO SEQRES 9 B 271 LYS ALA ASP GLN ASP LEU LEU PHE GLU SER ALA PHE LEU SEQRES 10 B 271 GLU LEU PHE VAL LEU ARG LEU ALA TYR ARG SER ASN PRO SEQRES 11 B 271 VAL GLU GLY LYS LEU ILE PHE CYS ASN GLY VAL VAL LEU SEQRES 12 B 271 HIS ARG LEU GLN CYS VAL ARG GLY PHE GLY GLU TRP ILE SEQRES 13 B 271 ASP SER ILE VAL GLU PHE SER SER ASN LEU GLN ASN MET SEQRES 14 B 271 ASN ILE ASP ILE SER ALA PHE SER CYS ILE ALA ALA LEU SEQRES 15 B 271 ALA MET VAL THR GLU ARG HIS GLY LEU LYS GLU PRO LYS SEQRES 16 B 271 ARG VAL GLU GLU LEU GLN ASN LYS ILE VAL ASN CYS LEU SEQRES 17 B 271 LYS ASP HIS VAL THR PHE ASN ASN GLY GLY LEU ASN ARG SEQRES 18 B 271 PRO ASN TYR LEU SER LYS LEU LEU GLY LYS LEU PRO GLU SEQRES 19 B 271 LEU ARG THR LEU CYS THR GLN GLY LEU GLN ARG ILE PHE SEQRES 20 B 271 TYR LEU LYS LEU GLU ASP LEU VAL PRO PRO PRO ALA ILE SEQRES 21 B 271 ILE ASP LYS LEU PHE LEU ASP THR LEU PRO PHE HET RPG A 601 24 HET PGE A 602 10 HET PEG A 603 7 HET CL A 604 1 HET MG A 605 1 HET RPG B 601 24 HET CL B 602 1 HETNAM RPG (13E,15S)-15-HYDROXY-9-OXOPROSTA-10,13-DIEN-1-OIC ACID HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETSYN RPG PROSTAGLANDIN A1 (PGA1) FORMUL 3 RPG 2(C20 H32 O4) FORMUL 4 PGE C6 H14 O4 FORMUL 5 PEG C4 H10 O3 FORMUL 6 CL 2(CL 1-) FORMUL 7 MG MG 2+ FORMUL 10 HOH *318(H2 O) HELIX 1 AA1 SER A 363 ASP A 374 1 12 HELIX 2 AA2 ALA A 378 LEU A 382 5 5 HELIX 3 AA3 ASP A 399 LYS A 423 1 25 HELIX 4 AA4 PRO A 431 SER A 455 1 25 HELIX 5 AA5 ASN A 456 GLU A 459 5 4 HELIX 6 AA6 ARG A 472 GLY A 480 1 9 HELIX 7 AA7 GLU A 481 ASN A 495 1 15 HELIX 8 AA8 ASP A 499 VAL A 512 1 14 HELIX 9 AA9 GLU A 520 ASN A 543 1 24 HELIX 10 AB1 ARG A 548 GLY A 557 1 10 HELIX 11 AB2 GLY A 557 ASP A 580 1 24 HELIX 12 AB3 PRO A 585 LEU A 596 1 12 HELIX 13 AB4 SER B 363 ASP B 374 1 12 HELIX 14 AB5 ALA B 378 LEU B 382 5 5 HELIX 15 AB6 THR B 400 LYS B 423 1 24 HELIX 16 AB7 GLY B 426 LEU B 430 5 5 HELIX 17 AB8 PRO B 431 SER B 455 1 25 HELIX 18 AB9 ASN B 456 GLU B 459 5 4 HELIX 19 AC1 ARG B 472 GLY B 480 1 9 HELIX 20 AC2 GLU B 481 ASN B 495 1 15 HELIX 21 AC3 ASP B 499 VAL B 512 1 14 HELIX 22 AC4 GLU B 520 ASN B 543 1 24 HELIX 23 AC5 ARG B 548 ASP B 580 1 33 HELIX 24 AC6 PRO B 585 LEU B 596 1 12 SHEET 1 AA1 2 LYS A 461 ILE A 463 0 SHEET 2 AA1 2 VAL A 469 HIS A 471 -1 O LEU A 470 N LEU A 462 SHEET 1 AA2 2 LYS B 461 ILE B 463 0 SHEET 2 AA2 2 VAL B 469 HIS B 471 -1 O LEU B 470 N LEU B 462 LINK SG CYS A 566 C11 RPG A 601 1555 1555 1.64 LINK SG CYS B 566 C11 RPG B 601 1555 1555 1.62 LINK O PHE A 598 MG MG A 605 1555 1555 2.22 LINK MG MG A 605 O HOH A 736 1555 1555 2.23 LINK MG MG A 605 O HOH A 784 1555 1555 2.78 LINK MG MG A 605 OD1 ASP B 594 4544 1555 2.18 LINK MG MG A 605 O HOH B 729 1555 3554 1.93 SITE 1 AC1 13 GLU A 440 SER A 441 PHE A 443 LEU A 444 SITE 2 AC1 13 ARG A 563 CYS A 566 THR A 567 LEU A 591 SITE 3 AC1 13 PHE A 592 THR A 595 PRO A 597 HOH A 799 SITE 4 AC1 13 ALA B 586 SITE 1 AC2 12 ASP A 499 ILE A 500 SER A 501 HIS A 538 SITE 2 AC2 12 PHE A 541 ASN A 542 HOH A 733 ILE B 365 SITE 3 AC2 12 SER B 366 SER B 501 HIS B 538 PHE B 541 SITE 1 AC3 6 SER A 413 ILE A 417 ARG A 450 ARG A 454 SITE 2 AC3 6 CYS A 465 HOH A 769 SITE 1 AC4 6 PHE A 598 HOH A 736 HOH A 784 ASP B 594 SITE 2 AC4 6 PHE B 598 HOH B 729 SITE 1 AC5 6 SER B 413 ILE B 417 ARG B 450 ARG B 454 SITE 2 AC5 6 CYS B 465 HOH B 727 SITE 1 AC6 17 GLU B 440 SER B 441 PHE B 443 LEU B 444 SITE 2 AC6 17 ARG B 515 HIS B 516 LEU B 562 ARG B 563 SITE 3 AC6 17 THR B 564 LEU B 565 THR B 567 GLN B 568 SITE 4 AC6 17 GLY B 569 LEU B 570 ILE B 573 THR B 595 SITE 5 AC6 17 HOH B 757 CRYST1 88.520 131.460 47.130 90.00 90.00 90.00 P 21 21 2 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 0.011297 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007607 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021218 0.00000