HEADER NUCLEAR PROTEIN 16-FEB-22 7YXN TITLE CRYSTAL STRUCTURE OF WT ANCGR2-LBD BOUND TO DEXAMETHASONE AND SHP TITLE 2 COREGULATOR FRAGMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANCESTRAL GLUCOCORTICOID RECEPTOR2; COMPND 3 CHAIN: A, C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: SHP NR BOX 1 PEPTIDE; COMPND 7 CHAIN: R, S; COMPND 8 SYNONYM: ORPHAN NUCLEAR RECEPTOR SHP,SMALL HETERODIMER PARTNER, COMPND 9 NUCLEAR RECEPTOR SUBFAMILY 0 GROUP B MEMBER 2; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 3 ORGANISM_TAXID: 32644; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606 KEYWDS NUCLEAR RECEPTOR, TRANSCRIPTION FACTOR, DEXAMETHASONE, NUCLEAR KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.JIMENEZ-PANIZO,E.ESTEBANEZ-PERPINA,P.FUENTES-PRIOR REVDAT 4 31-JAN-24 7YXN 1 REMARK REVDAT 3 18-JAN-23 7YXN 1 JRNL REVDAT 2 14-DEC-22 7YXN 1 JRNL REVDAT 1 07-DEC-22 7YXN 0 JRNL AUTH A.JIMENEZ-PANIZO,A.ALEGRE-MARTI,T.T.TETTEY,G.FETTWEIS, JRNL AUTH 2 M.ABELLA,R.ANTON,T.A.JOHNSON,S.KIM,R.L.SCHILTZ, JRNL AUTH 3 I.NUNEZ-BARRIOS,J.FONT-DIAZ,C.CAELLES,A.F.VALLEDOR,P.PEREZ, JRNL AUTH 4 A.M.ROJAS,J.FERNANDEZ-RECIO,D.M.PRESMAN,G.L.HAGER, JRNL AUTH 5 P.FUENTES-PRIOR,E.ESTEBANEZ-PERPINA JRNL TITL THE MULTIVALENCY OF THE GLUCOCORTICOID RECEPTOR JRNL TITL 2 LIGAND-BINDING DOMAIN EXPLAINS ITS MANIFOLD PHYSIOLOGICAL JRNL TITL 3 ACTIVITIES. JRNL REF NUCLEIC ACIDS RES. V. 50 13063 2022 JRNL REFN ESSN 1362-4962 JRNL PMID 36464162 JRNL DOI 10.1093/NAR/GKAC1119 REMARK 2 REMARK 2 RESOLUTION. 2.46 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 2.46 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 94.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 31272 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) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1692 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.46 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.52 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2385 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.3620 REMARK 3 BIN FREE R VALUE SET COUNT : 123 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4115 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 68 REMARK 3 SOLVENT ATOMS : 5 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.27000 REMARK 3 B22 (A**2) : 0.27000 REMARK 3 B33 (A**2) : -0.89000 REMARK 3 B12 (A**2) : 0.14000 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): 0.294 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.229 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.254 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.749 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4275 ; 0.007 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5784 ; 1.655 ; 1.625 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 503 ; 7.281 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 201 ;37.314 ;22.438 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 786 ;21.404 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;20.414 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 541 ; 0.130 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3096 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 3 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 527 704 C 527 704 5764 0.100 0.050 REMARK 3 2 A 711 774 C 711 774 1919 0.090 0.050 REMARK 3 3 R 17 27 S 17 27 264 0.150 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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: U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7YXN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1292121141. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-DEC-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33009 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.460 REMARK 200 RESOLUTION RANGE LOW (A) : 94.810 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.46 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.700 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: 5UFS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M PIPES, PH 7.0, 0.1 M AMMONIUM REMARK 280 ACETATE, 2.5 M SODIUM FORMATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 45.92700 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 91.85400 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 68.89050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 114.81750 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 22.96350 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, R 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, S 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 GLU A 705 REMARK 465 GLY A 706 REMARK 465 ASN A 707 REMARK 465 SER A 708 REMARK 465 SER A 709 REMARK 465 GLN A 710 REMARK 465 GLN A 776 REMARK 465 GLU C 705 REMARK 465 GLY C 706 REMARK 465 ASN C 707 REMARK 465 SER C 708 REMARK 465 SER C 709 REMARK 465 GLN C 710 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 633 CG - CD - NE ANGL. DEV. = -14.5 DEGREES REMARK 500 ARG A 633 CD - NE - CZ ANGL. DEV. = 9.1 DEGREES REMARK 500 ARG A 633 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 690 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASN A 711 CB - CA - C ANGL. DEV. = 12.2 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 GLU A 528 90.05 101.93 REMARK 500 ALA A 580 5.90 -69.89 REMARK 500 CYS A 622 78.80 -104.89 REMARK 500 LEU A 627 90.57 -166.98 REMARK 500 GLU A 632 -78.67 -71.28 REMARK 500 TYR A 638 -11.44 88.88 REMARK 500 LYS A 681 -71.44 -66.24 REMARK 500 LYS A 703 -2.75 -49.52 REMARK 500 SER A 768 37.55 -97.46 REMARK 500 ALA C 580 6.13 -68.63 REMARK 500 LEU C 627 92.05 -166.67 REMARK 500 TYR C 638 -12.90 89.66 REMARK 500 LYS C 681 -77.71 -72.19 REMARK 500 LYS C 703 -2.42 -49.64 REMARK 500 PRO R 18 93.15 -55.74 REMARK 500 PRO S 18 90.74 -55.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 631 GLU A 632 113.33 REMARK 500 GLU A 632 ARG A 633 -137.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ASN A 711 -10.45 REMARK 500 REMARK 500 REMARK: NULL DBREF1 7YXN A 530 776 UNP A0A1X8XLE9_9ZZZZ DBREF2 7YXN A A0A1X8XLE9 2 248 DBREF1 7YXN C 530 776 UNP A0A1X8XLE9_9ZZZZ DBREF2 7YXN C A0A1X8XLE9 2 248 DBREF 7YXN R 17 27 UNP Q15466 NR0B2_HUMAN 17 27 DBREF 7YXN S 17 27 UNP Q15466 NR0B2_HUMAN 17 27 SEQADV 7YXN GLY A 527 UNP A0A1X8XLE EXPRESSION TAG SEQADV 7YXN GLU A 528 UNP A0A1X8XLE EXPRESSION TAG SEQADV 7YXN PHE A 529 UNP A0A1X8XLE EXPRESSION TAG SEQADV 7YXN GLY C 527 UNP A0A1X8XLE EXPRESSION TAG SEQADV 7YXN GLU C 528 UNP A0A1X8XLE EXPRESSION TAG SEQADV 7YXN PHE C 529 UNP A0A1X8XLE EXPRESSION TAG SEQRES 1 A 250 GLY GLU PHE PRO THR LEU ILE SER LEU LEU GLU VAL ILE SEQRES 2 A 250 GLU PRO GLU VAL LEU TYR SER GLY TYR ASP SER THR LEU SEQRES 3 A 250 PRO ASP THR SER THR ARG LEU MET SER THR LEU ASN ARG SEQRES 4 A 250 LEU GLY GLY ARG GLN VAL VAL SER ALA VAL LYS TRP ALA SEQRES 5 A 250 LYS ALA LEU PRO GLY PHE ARG ASN LEU HIS LEU ASP ASP SEQRES 6 A 250 GLN MET THR LEU LEU GLN TYR SER TRP MET SER LEU MET SEQRES 7 A 250 ALA PHE SER LEU GLY TRP ARG SER TYR LYS GLN SER ASN SEQRES 8 A 250 GLY ASN MET LEU CYS PHE ALA PRO ASP LEU VAL ILE ASN SEQRES 9 A 250 GLU GLU ARG MET GLN LEU PRO TYR MET TYR ASP GLN CYS SEQRES 10 A 250 GLN GLN MET LEU LYS ILE SER SER GLU PHE VAL ARG LEU SEQRES 11 A 250 GLN VAL SER TYR ASP GLU TYR LEU CYS MET LYS VAL LEU SEQRES 12 A 250 LEU LEU LEU SER THR VAL PRO LYS ASP GLY LEU LYS SER SEQRES 13 A 250 GLN ALA VAL PHE ASP GLU ILE ARG MET THR TYR ILE LYS SEQRES 14 A 250 GLU LEU GLY LYS ALA ILE VAL LYS ARG GLU GLY ASN SER SEQRES 15 A 250 SER GLN ASN TRP GLN ARG PHE TYR GLN LEU THR LYS LEU SEQRES 16 A 250 LEU ASP SER MET HIS GLU MET VAL GLY GLY LEU LEU GLN SEQRES 17 A 250 PHE CYS PHE TYR THR PHE VAL ASN LYS SER LEU SER VAL SEQRES 18 A 250 GLU PHE PRO GLU MET LEU ALA GLU ILE ILE SER ASN GLN SEQRES 19 A 250 LEU PRO LYS PHE LYS ALA GLY SER VAL LYS PRO LEU LEU SEQRES 20 A 250 PHE HIS GLN SEQRES 1 C 250 GLY GLU PHE PRO THR LEU ILE SER LEU LEU GLU VAL ILE SEQRES 2 C 250 GLU PRO GLU VAL LEU TYR SER GLY TYR ASP SER THR LEU SEQRES 3 C 250 PRO ASP THR SER THR ARG LEU MET SER THR LEU ASN ARG SEQRES 4 C 250 LEU GLY GLY ARG GLN VAL VAL SER ALA VAL LYS TRP ALA SEQRES 5 C 250 LYS ALA LEU PRO GLY PHE ARG ASN LEU HIS LEU ASP ASP SEQRES 6 C 250 GLN MET THR LEU LEU GLN TYR SER TRP MET SER LEU MET SEQRES 7 C 250 ALA PHE SER LEU GLY TRP ARG SER TYR LYS GLN SER ASN SEQRES 8 C 250 GLY ASN MET LEU CYS PHE ALA PRO ASP LEU VAL ILE ASN SEQRES 9 C 250 GLU GLU ARG MET GLN LEU PRO TYR MET TYR ASP GLN CYS SEQRES 10 C 250 GLN GLN MET LEU LYS ILE SER SER GLU PHE VAL ARG LEU SEQRES 11 C 250 GLN VAL SER TYR ASP GLU TYR LEU CYS MET LYS VAL LEU SEQRES 12 C 250 LEU LEU LEU SER THR VAL PRO LYS ASP GLY LEU LYS SER SEQRES 13 C 250 GLN ALA VAL PHE ASP GLU ILE ARG MET THR TYR ILE LYS SEQRES 14 C 250 GLU LEU GLY LYS ALA ILE VAL LYS ARG GLU GLY ASN SER SEQRES 15 C 250 SER GLN ASN TRP GLN ARG PHE TYR GLN LEU THR LYS LEU SEQRES 16 C 250 LEU ASP SER MET HIS GLU MET VAL GLY GLY LEU LEU GLN SEQRES 17 C 250 PHE CYS PHE TYR THR PHE VAL ASN LYS SER LEU SER VAL SEQRES 18 C 250 GLU PHE PRO GLU MET LEU ALA GLU ILE ILE SER ASN GLN SEQRES 19 C 250 LEU PRO LYS PHE LYS ALA GLY SER VAL LYS PRO LEU LEU SEQRES 20 C 250 PHE HIS GLN SEQRES 1 R 11 ARG PRO ALA ILE LEU TYR ALA LEU LEU SER SER SEQRES 1 S 11 ARG PRO ALA ILE LEU TYR ALA LEU LEU SER SER HET DEX A1001 28 HET FMT A1002 3 HET FMT A1003 3 HET DEX C1001 28 HET FMT C1002 3 HET FMT C1003 3 HETNAM DEX DEXAMETHASONE HETNAM FMT FORMIC ACID HETSYN DEX 9A-FLUORO-16BETA-METHYLPREDNISOLONE FORMUL 5 DEX 2(C22 H29 F O5) FORMUL 6 FMT 4(C H2 O2) FORMUL 11 HOH *5(H2 O) HELIX 1 AA1 THR A 531 GLU A 540 1 10 HELIX 2 AA2 THR A 555 ALA A 580 1 26 HELIX 3 AA3 GLY A 583 LEU A 587 5 5 HELIX 4 AA4 HIS A 588 ASN A 617 1 30 HELIX 5 AA5 TYR A 638 LEU A 656 1 19 HELIX 6 AA6 SER A 659 LEU A 672 1 14 HELIX 7 AA7 SER A 682 LYS A 703 1 22 HELIX 8 AA8 TRP A 712 ASN A 742 1 31 HELIX 9 AA9 LYS A 743 SER A 746 5 4 HELIX 10 AB1 PRO A 750 ALA A 766 1 17 HELIX 11 AB2 THR C 531 GLU C 540 1 10 HELIX 12 AB3 THR C 555 ALA C 580 1 26 HELIX 13 AB4 GLY C 583 LEU C 587 5 5 HELIX 14 AB5 HIS C 588 ASN C 617 1 30 HELIX 15 AB6 TYR C 638 LEU C 656 1 19 HELIX 16 AB7 SER C 659 LEU C 672 1 14 HELIX 17 AB8 SER C 682 LYS C 703 1 22 HELIX 18 AB9 TRP C 712 ASN C 742 1 31 HELIX 19 AC1 LYS C 743 SER C 746 5 4 HELIX 20 AC2 PRO C 750 ALA C 766 1 17 HELIX 21 AC3 PRO R 18 SER R 27 1 10 HELIX 22 AC4 PRO S 18 SER S 27 1 10 SHEET 1 AA1 2 LEU A 621 ALA A 624 0 SHEET 2 AA1 2 LEU A 627 ILE A 629 -1 O ILE A 629 N LEU A 621 SHEET 1 AA2 2 THR A 674 PRO A 676 0 SHEET 2 AA2 2 VAL A 769 PRO A 771 -1 O LYS A 770 N VAL A 675 SHEET 1 AA3 2 LEU C 621 ALA C 624 0 SHEET 2 AA3 2 LEU C 627 ILE C 629 -1 O ILE C 629 N LEU C 621 SHEET 1 AA4 2 THR C 674 PRO C 676 0 SHEET 2 AA4 2 VAL C 769 PRO C 771 -1 O LYS C 770 N VAL C 675 CRYST1 109.479 109.479 137.781 90.00 90.00 120.00 P 61 12 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 0.009134 0.005274 0.000000 0.00000 SCALE2 0.000000 0.010547 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007258 0.00000