HEADER TRANSCRIPTION/DNA 19-DEC-16 5UAN TITLE CRYSTAL STRUCTURE OF MULTI-DOMAIN RAR-BETA-RXR-ALPHA HETERODIMER ON TITLE 2 DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RETINOIC ACID RECEPTOR RXR-ALPHA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 98-462; COMPND 5 SYNONYM: NUCLEAR RECEPTOR SUBFAMILY 2 GROUP B MEMBER 1,RETINOID X COMPND 6 RECEPTOR ALPHA; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: RETINOIC ACID RECEPTOR BETA; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: UNP RESIDUES 98-462; COMPND 12 SYNONYM: RAR-BETA,HBV-ACTIVATED PROTEIN,NUCLEAR RECEPTOR SUBFAMILY 1 COMPND 13 GROUP B MEMBER 2,RAR-EPSILON; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: NUCLEAR RECEPTOR COACTIVATOR 2; COMPND 17 CHAIN: C, D; COMPND 18 FRAGMENT: UNP RESIDUES 687-696; COMPND 19 ENGINEERED: YES; COMPND 20 MOL_ID: 4; COMPND 21 MOLECULE: DNA (5'- COMPND 22 D(*CP*TP*AP*GP*GP*TP*CP*AP*AP*AP*GP*GP*TP*CP*AP*GP*C)-3'); COMPND 23 CHAIN: E; COMPND 24 ENGINEERED: YES; COMPND 25 MOL_ID: 5; COMPND 26 MOLECULE: DNA (5'- COMPND 27 D(*GP*CP*TP*GP*AP*CP*CP*TP*TP*TP*GP*AP*CP*CP*TP*AP*G)-3'); COMPND 28 CHAIN: F; COMPND 29 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: RXRA, NR2B1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: RARB, HAP, NR1B2; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 18 ORGANISM_COMMON: HUMAN; SOURCE 19 ORGANISM_TAXID: 9606; SOURCE 20 MOL_ID: 4; SOURCE 21 SYNTHETIC: YES; SOURCE 22 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 23 ORGANISM_COMMON: HUMAN; SOURCE 24 ORGANISM_TAXID: 9606; SOURCE 25 MOL_ID: 5; SOURCE 26 SYNTHETIC: YES; SOURCE 27 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 28 ORGANISM_COMMON: HUMAN; SOURCE 29 ORGANISM_TAXID: 9606 KEYWDS NUCLEAR RECEPTORS, TRANSCRIPTION, PROTEIN-DNA COMPLEX, TRANSCRIPTION- KEYWDS 2 DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR V.CHANDRA,D.WU,Y.KIM,F.RASTINEJAD REVDAT 3 04-OCT-23 5UAN 1 REMARK REVDAT 2 18-APR-18 5UAN 1 JRNL REVDAT 1 18-OCT-17 5UAN 0 JRNL AUTH V.CHANDRA,D.WU,S.LI,N.POTLURI,Y.KIM,F.RASTINEJAD JRNL TITL THE QUATERNARY ARCHITECTURE OF RAR BETA-RXR ALPHA JRNL TITL 2 HETERODIMER FACILITATES DOMAIN-DOMAIN SIGNAL TRANSMISSION. JRNL REF NAT COMMUN V. 8 868 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 29021580 JRNL DOI 10.1038/S41467-017-00981-Y REMARK 2 REMARK 2 RESOLUTION. 3.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 60.7 REMARK 3 NUMBER OF REFLECTIONS : 13381 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1341 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 47.4089 - 7.5480 0.97 1928 218 0.1908 0.2201 REMARK 3 2 7.5480 - 5.9949 0.99 1978 227 0.2439 0.2897 REMARK 3 3 5.9949 - 5.2382 0.93 1813 191 0.2325 0.2635 REMARK 3 4 5.2382 - 4.7597 0.80 1580 193 0.2029 0.2872 REMARK 3 5 4.7597 - 4.4189 0.67 1317 134 0.2084 0.2956 REMARK 3 6 4.4189 - 4.1585 0.54 1093 128 0.2064 0.2696 REMARK 3 7 4.1585 - 3.9503 0.45 892 94 0.2309 0.2829 REMARK 3 8 3.9503 - 3.7785 0.33 669 67 0.2312 0.2627 REMARK 3 9 3.7785 - 3.6330 0.23 457 54 0.2680 0.3162 REMARK 3 10 3.6330 - 3.5077 0.16 313 35 0.3054 0.3477 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.430 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.810 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 5745 REMARK 3 ANGLE : 0.546 7848 REMARK 3 CHIRALITY : 0.037 882 REMARK 3 PLANARITY : 0.003 881 REMARK 3 DIHEDRAL : 14.372 3394 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -9.6616 20.0592 -31.9392 REMARK 3 T TENSOR REMARK 3 T11: 0.0417 T22: 0.2190 REMARK 3 T33: 0.2954 T12: 0.1826 REMARK 3 T13: -0.0296 T23: -0.1120 REMARK 3 L TENSOR REMARK 3 L11: 1.4051 L22: 1.6757 REMARK 3 L33: 1.9401 L12: -0.1855 REMARK 3 L13: 0.3545 L23: -0.7645 REMARK 3 S TENSOR REMARK 3 S11: -0.5157 S12: -0.0691 S13: -0.0527 REMARK 3 S21: 0.4562 S22: 0.4112 S23: -0.2450 REMARK 3 S31: -0.1285 S32: -0.0068 S33: 0.0636 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5UAN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1000225577. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID 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 : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9550 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 84.0 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 52.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.43100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: 1DSZ, 1XDK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MES, PEG300, PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 38.70150 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -96.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 98 REMARK 465 ASN A 99 REMARK 465 PRO A 100 REMARK 465 VAL A 101 REMARK 465 SER A 102 REMARK 465 SER A 103 REMARK 465 SER A 104 REMARK 465 GLU A 105 REMARK 465 ASP A 106 REMARK 465 ILE A 107 REMARK 465 LYS A 108 REMARK 465 PRO A 109 REMARK 465 PRO A 110 REMARK 465 LEU A 111 REMARK 465 GLY A 112 REMARK 465 LEU A 113 REMARK 465 ASN A 114 REMARK 465 GLY A 115 REMARK 465 VAL A 116 REMARK 465 LEU A 117 REMARK 465 LYS A 118 REMARK 465 VAL A 119 REMARK 465 PRO A 120 REMARK 465 ALA A 121 REMARK 465 HIS A 122 REMARK 465 PRO A 123 REMARK 465 SER A 124 REMARK 465 GLY A 125 REMARK 465 ASN A 126 REMARK 465 MET A 127 REMARK 465 ALA A 128 REMARK 465 SER A 129 REMARK 465 PHE A 130 REMARK 465 THR A 131 REMARK 465 LYS A 132 REMARK 465 LEU A 167 REMARK 465 THR A 168 REMARK 465 TYR A 169 REMARK 465 THR A 170 REMARK 465 CYS A 171 REMARK 465 ARG A 172 REMARK 465 ASP A 173 REMARK 465 ASN A 174 REMARK 465 LYS A 175 REMARK 465 ASP A 176 REMARK 465 ARG A 186 REMARK 465 GLN A 210 REMARK 465 ARG A 211 REMARK 465 GLY A 212 REMARK 465 LYS A 213 REMARK 465 ASP A 214 REMARK 465 ARG A 215 REMARK 465 ASN A 216 REMARK 465 GLU A 217 REMARK 465 ASN A 218 REMARK 465 GLU A 219 REMARK 465 VAL A 220 REMARK 465 GLU A 221 REMARK 465 SER A 222 REMARK 465 THR A 223 REMARK 465 SER A 224 REMARK 465 SER A 225 REMARK 465 PRO A 244 REMARK 465 LYS A 245 REMARK 465 THR A 246 REMARK 465 GLU A 247 REMARK 465 THR A 248 REMARK 465 TYR A 249 REMARK 465 VAL A 250 REMARK 465 GLU A 251 REMARK 465 ALA A 252 REMARK 465 ASN A 253 REMARK 465 MET A 254 REMARK 465 GLY A 255 REMARK 465 LEU A 256 REMARK 465 ASN A 257 REMARK 465 PRO A 258 REMARK 465 SER A 259 REMARK 465 SER A 260 REMARK 465 PRO A 261 REMARK 465 ASN A 262 REMARK 465 ASP A 263 REMARK 465 PRO A 458 REMARK 465 HIS A 459 REMARK 465 GLN A 460 REMARK 465 MET A 461 REMARK 465 THR A 462 REMARK 465 MET B 52 REMARK 465 GLY B 53 REMARK 465 SER B 54 REMARK 465 SER B 55 REMARK 465 HIS B 56 REMARK 465 HIS B 57 REMARK 465 HIS B 58 REMARK 465 HIS B 59 REMARK 465 HIS B 60 REMARK 465 HIS B 61 REMARK 465 SER B 62 REMARK 465 SER B 63 REMARK 465 GLY B 64 REMARK 465 LEU B 65 REMARK 465 VAL B 66 REMARK 465 PRO B 67 REMARK 465 ARG B 68 REMARK 465 GLY B 69 REMARK 465 SER B 70 REMARK 465 HIS B 71 REMARK 465 MET B 72 REMARK 465 PRO B 73 REMARK 465 PRO B 74 REMARK 465 PRO B 75 REMARK 465 ARG B 76 REMARK 465 VAL B 77 REMARK 465 TYR B 78 REMARK 465 LYS B 79 REMARK 465 ASN B 153 REMARK 465 ASP B 154 REMARK 465 ARG B 155 REMARK 465 ASN B 156 REMARK 465 LYS B 157 REMARK 465 LYS B 158 REMARK 465 LYS B 159 REMARK 465 LYS B 160 REMARK 465 GLU B 161 REMARK 465 THR B 162 REMARK 465 SER B 163 REMARK 465 LYS B 164 REMARK 465 GLN B 165 REMARK 465 GLU B 166 REMARK 465 CYS B 167 REMARK 465 THR B 168 REMARK 465 GLU B 169 REMARK 465 SER B 170 REMARK 465 TYR B 171 REMARK 465 GLU B 172 REMARK 465 MET B 173 REMARK 465 ASN B 409 REMARK 465 SER B 410 REMARK 465 GLU B 411 REMARK 465 GLY B 412 REMARK 465 HIS B 413 REMARK 465 GLU B 414 REMARK 465 PRO B 415 REMARK 465 LEU B 416 REMARK 465 THR B 417 REMARK 465 PRO B 418 REMARK 465 SER B 419 REMARK 465 SER B 420 REMARK 465 SER B 421 REMARK 465 GLY B 422 REMARK 465 ASN B 423 REMARK 465 THR B 424 REMARK 465 ALA B 425 REMARK 465 GLU B 426 REMARK 465 HIS B 427 REMARK 465 SER B 428 REMARK 465 PRO B 429 REMARK 465 SER B 430 REMARK 465 ILE B 431 REMARK 465 SER B 432 REMARK 465 PRO B 433 REMARK 465 SER B 434 REMARK 465 SER B 435 REMARK 465 VAL B 436 REMARK 465 GLU B 437 REMARK 465 ASN B 438 REMARK 465 SER B 439 REMARK 465 GLY B 440 REMARK 465 VAL B 441 REMARK 465 SER B 442 REMARK 465 GLN B 443 REMARK 465 SER B 444 REMARK 465 PRO B 445 REMARK 465 LEU B 446 REMARK 465 VAL B 447 REMARK 465 GLN B 448 REMARK 465 ASP D 696 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OG SER B 280 O1 REA B 503 2.19 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 GLN A 183 25.78 -143.82 REMARK 500 TYR A 189 -71.45 -61.79 REMARK 500 GLU A 207 -162.80 -76.23 REMARK 500 ASN A 227 -153.90 -77.03 REMARK 500 GLU A 228 14.09 -140.19 REMARK 500 LYS A 321 -74.53 -86.13 REMARK 500 ARG A 334 -137.91 69.23 REMARK 500 ALA A 340 40.86 -93.46 REMARK 500 LEU A 353 -62.43 -123.88 REMARK 500 TYR A 408 76.48 -119.60 REMARK 500 ARG B 119 -144.51 -126.07 REMARK 500 CYS B 123 109.05 -43.09 REMARK 500 ASN B 126 -146.11 -147.90 REMARK 500 ASN B 131 -124.91 62.63 REMARK 500 ARG B 132 -57.81 71.66 REMARK 500 PHE B 192 96.62 -164.58 REMARK 500 ASP B 208 -80.04 -90.18 REMARK 500 LEU B 213 140.69 -172.02 REMARK 500 PRO B 364 31.90 -82.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 135 SG REMARK 620 2 CYS A 138 SG 108.7 REMARK 620 3 CYS A 152 SG 116.6 102.0 REMARK 620 4 CYS A 155 SG 117.3 109.3 101.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 177 SG REMARK 620 2 CYS A 187 SG 108.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 81 SG REMARK 620 2 CYS B 84 SG 112.5 REMARK 620 3 CYS B 98 SG 108.7 103.2 REMARK 620 4 CYS B 101 SG 124.6 101.8 103.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 117 SG REMARK 620 2 CYS B 123 SG 165.5 REMARK 620 3 CYS B 133 SG 99.0 89.2 REMARK 620 4 CYS B 136 SG 84.1 95.4 147.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9CR A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue REA B 503 DBREF 5UAN A 98 462 UNP P19793 RXRA_HUMAN 98 462 DBREF 5UAN B 73 448 UNP P10826 RARB_HUMAN 80 455 DBREF 5UAN C 687 696 UNP E7EWM1 E7EWM1_HUMAN 687 696 DBREF 5UAN D 687 696 UNP E7EWM1 E7EWM1_HUMAN 687 696 DBREF 5UAN E 1 17 PDB 5UAN 5UAN 1 17 DBREF 5UAN F 1 17 PDB 5UAN 5UAN 1 17 SEQADV 5UAN MET B 52 UNP P10826 INITIATING METHIONINE SEQADV 5UAN GLY B 53 UNP P10826 EXPRESSION TAG SEQADV 5UAN SER B 54 UNP P10826 EXPRESSION TAG SEQADV 5UAN SER B 55 UNP P10826 EXPRESSION TAG SEQADV 5UAN HIS B 56 UNP P10826 EXPRESSION TAG SEQADV 5UAN HIS B 57 UNP P10826 EXPRESSION TAG SEQADV 5UAN HIS B 58 UNP P10826 EXPRESSION TAG SEQADV 5UAN HIS B 59 UNP P10826 EXPRESSION TAG SEQADV 5UAN HIS B 60 UNP P10826 EXPRESSION TAG SEQADV 5UAN HIS B 61 UNP P10826 EXPRESSION TAG SEQADV 5UAN SER B 62 UNP P10826 EXPRESSION TAG SEQADV 5UAN SER B 63 UNP P10826 EXPRESSION TAG SEQADV 5UAN GLY B 64 UNP P10826 EXPRESSION TAG SEQADV 5UAN LEU B 65 UNP P10826 EXPRESSION TAG SEQADV 5UAN VAL B 66 UNP P10826 EXPRESSION TAG SEQADV 5UAN PRO B 67 UNP P10826 EXPRESSION TAG SEQADV 5UAN ARG B 68 UNP P10826 EXPRESSION TAG SEQADV 5UAN GLY B 69 UNP P10826 EXPRESSION TAG SEQADV 5UAN SER B 70 UNP P10826 EXPRESSION TAG SEQADV 5UAN HIS B 71 UNP P10826 EXPRESSION TAG SEQADV 5UAN MET B 72 UNP P10826 EXPRESSION TAG SEQRES 1 A 365 MET ASN PRO VAL SER SER SER GLU ASP ILE LYS PRO PRO SEQRES 2 A 365 LEU GLY LEU ASN GLY VAL LEU LYS VAL PRO ALA HIS PRO SEQRES 3 A 365 SER GLY ASN MET ALA SER PHE THR LYS HIS ILE CYS ALA SEQRES 4 A 365 ILE CYS GLY ASP ARG SER SER GLY LYS HIS TYR GLY VAL SEQRES 5 A 365 TYR SER CYS GLU GLY CYS LYS GLY PHE PHE LYS ARG THR SEQRES 6 A 365 VAL ARG LYS ASP LEU THR TYR THR CYS ARG ASP ASN LYS SEQRES 7 A 365 ASP CYS LEU ILE ASP LYS ARG GLN ARG ASN ARG CYS GLN SEQRES 8 A 365 TYR CYS ARG TYR GLN LYS CYS LEU ALA MET GLY MET LYS SEQRES 9 A 365 ARG GLU ALA VAL GLN GLU GLU ARG GLN ARG GLY LYS ASP SEQRES 10 A 365 ARG ASN GLU ASN GLU VAL GLU SER THR SER SER ALA ASN SEQRES 11 A 365 GLU ASP MET PRO VAL GLU ARG ILE LEU GLU ALA GLU LEU SEQRES 12 A 365 ALA VAL GLU PRO LYS THR GLU THR TYR VAL GLU ALA ASN SEQRES 13 A 365 MET GLY LEU ASN PRO SER SER PRO ASN ASP PRO VAL THR SEQRES 14 A 365 ASN ILE CYS GLN ALA ALA ASP LYS GLN LEU PHE THR LEU SEQRES 15 A 365 VAL GLU TRP ALA LYS ARG ILE PRO HIS PHE SER GLU LEU SEQRES 16 A 365 PRO LEU ASP ASP GLN VAL ILE LEU LEU ARG ALA GLY TRP SEQRES 17 A 365 ASN GLU LEU LEU ILE ALA SER PHE SER HIS ARG SER ILE SEQRES 18 A 365 ALA VAL LYS ASP GLY ILE LEU LEU ALA THR GLY LEU HIS SEQRES 19 A 365 VAL HIS ARG ASN SER ALA HIS SER ALA GLY VAL GLY ALA SEQRES 20 A 365 ILE PHE ASP ARG VAL LEU THR GLU LEU VAL SER LYS MET SEQRES 21 A 365 ARG ASP MET GLN MET ASP LYS THR GLU LEU GLY CYS LEU SEQRES 22 A 365 ARG ALA ILE VAL LEU PHE ASN PRO ASP SER LYS GLY LEU SEQRES 23 A 365 SER ASN PRO ALA GLU VAL GLU ALA LEU ARG GLU LYS VAL SEQRES 24 A 365 TYR ALA SER LEU GLU ALA TYR CYS LYS HIS LYS TYR PRO SEQRES 25 A 365 GLU GLN PRO GLY ARG PHE ALA LYS LEU LEU LEU ARG LEU SEQRES 26 A 365 PRO ALA LEU ARG SER ILE GLY LEU LYS CYS LEU GLU HIS SEQRES 27 A 365 LEU PHE PHE PHE LYS LEU ILE GLY ASP THR PRO ILE ASP SEQRES 28 A 365 THR PHE LEU MET GLU MET LEU GLU ALA PRO HIS GLN MET SEQRES 29 A 365 THR SEQRES 1 B 397 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 397 LEU VAL PRO ARG GLY SER HIS MET PRO PRO PRO ARG VAL SEQRES 3 B 397 TYR LYS PRO CYS PHE VAL CYS GLN ASP LYS SER SER GLY SEQRES 4 B 397 TYR HIS TYR GLY VAL SER ALA CYS GLU GLY CYS LYS GLY SEQRES 5 B 397 PHE PHE ARG ARG SER ILE GLN LYS ASN MET ILE TYR THR SEQRES 6 B 397 CYS HIS ARG ASP LYS ASN CYS VAL ILE ASN LYS VAL THR SEQRES 7 B 397 ARG ASN ARG CYS GLN TYR CYS ARG LEU GLN LYS CYS PHE SEQRES 8 B 397 GLU VAL GLY MET SER LYS GLU SER VAL ARG ASN ASP ARG SEQRES 9 B 397 ASN LYS LYS LYS LYS GLU THR SER LYS GLN GLU CYS THR SEQRES 10 B 397 GLU SER TYR GLU MET THR ALA GLU LEU ASP ASP LEU THR SEQRES 11 B 397 GLU LYS ILE ARG LYS ALA HIS GLN GLU THR PHE PRO SER SEQRES 12 B 397 LEU CYS GLN LEU GLY LYS TYR THR THR ASN SER SER ALA SEQRES 13 B 397 ASP HIS ARG VAL ARG LEU ASP LEU GLY LEU TRP ASP LYS SEQRES 14 B 397 PHE SER GLU LEU ALA THR LYS CYS ILE ILE LYS ILE VAL SEQRES 15 B 397 GLU PHE ALA LYS ARG LEU PRO GLY PHE THR GLY LEU THR SEQRES 16 B 397 ILE ALA ASP GLN ILE THR LEU LEU LYS ALA ALA CYS LEU SEQRES 17 B 397 ASP ILE LEU ILE LEU ARG ILE CYS THR ARG TYR THR PRO SEQRES 18 B 397 GLU GLN ASP THR MET THR PHE SER ASP GLY LEU THR LEU SEQRES 19 B 397 ASN ARG THR GLN MET HIS ASN ALA GLY PHE GLY PRO LEU SEQRES 20 B 397 THR ASP LEU VAL PHE THR PHE ALA ASN GLN LEU LEU PRO SEQRES 21 B 397 LEU GLU MET ASP ASP THR GLU THR GLY LEU LEU SER ALA SEQRES 22 B 397 ILE CYS LEU ILE CYS GLY ASP ARG GLN ASP LEU GLU GLU SEQRES 23 B 397 PRO THR LYS VAL ASP LYS LEU GLN GLU PRO LEU LEU GLU SEQRES 24 B 397 ALA LEU LYS ILE TYR ILE ARG LYS ARG ARG PRO SER LYS SEQRES 25 B 397 PRO HIS MET PHE PRO LYS ILE LEU MET LYS ILE THR ASP SEQRES 26 B 397 LEU ARG SER ILE SER ALA LYS GLY ALA GLU ARG VAL ILE SEQRES 27 B 397 THR LEU LYS MET GLU ILE PRO GLY SER MET PRO PRO LEU SEQRES 28 B 397 ILE GLN GLU MET LEU GLU ASN SER GLU GLY HIS GLU PRO SEQRES 29 B 397 LEU THR PRO SER SER SER GLY ASN THR ALA GLU HIS SER SEQRES 30 B 397 PRO SER ILE SER PRO SER SER VAL GLU ASN SER GLY VAL SEQRES 31 B 397 SER GLN SER PRO LEU VAL GLN SEQRES 1 C 10 HIS LYS ILE LEU HIS ARG LEU LEU GLN ASP SEQRES 1 D 10 HIS LYS ILE LEU HIS ARG LEU LEU GLN ASP SEQRES 1 E 17 DC DT DA DG DG DT DC DA DA DA DG DG DT SEQRES 2 E 17 DC DA DG DC SEQRES 1 F 17 DG DC DT DG DA DC DC DT DT DT DG DA DC SEQRES 2 F 17 DC DT DA DG HET ZN A 501 1 HET ZN A 502 1 HET 9CR A 503 22 HET ZN B 501 1 HET ZN B 502 1 HET REA B 503 22 HETNAM ZN ZINC ION HETNAM 9CR (9CIS)-RETINOIC ACID HETNAM REA RETINOIC ACID FORMUL 7 ZN 4(ZN 2+) FORMUL 9 9CR C20 H28 O2 FORMUL 12 REA C20 H28 O2 HELIX 1 AA1 CYS A 152 ASP A 166 1 15 HELIX 2 AA2 GLN A 188 GLY A 199 1 12 HELIX 3 AA3 LYS A 201 VAL A 205 5 5 HELIX 4 AA4 PRO A 231 GLU A 243 1 13 HELIX 5 AA5 VAL A 265 LYS A 284 1 20 HELIX 6 AA6 PRO A 293 GLY A 304 1 12 HELIX 7 AA7 GLY A 304 SER A 317 1 14 HELIX 8 AA8 ARG A 334 HIS A 338 1 5 HELIX 9 AA9 VAL A 342 LEU A 353 1 12 HELIX 10 AB1 LEU A 353 GLN A 361 1 9 HELIX 11 AB2 ASP A 363 PHE A 376 1 14 HELIX 12 AB3 ASN A 385 TYR A 408 1 24 HELIX 13 AB4 GLY A 413 LEU A 420 1 8 HELIX 14 AB5 LEU A 420 GLY A 443 1 24 HELIX 15 AB6 ASP A 448 GLU A 456 1 9 HELIX 16 AB7 CYS B 98 LYS B 111 1 14 HELIX 17 AB8 CYS B 133 GLY B 145 1 13 HELIX 18 AB9 ALA B 175 THR B 191 1 17 HELIX 19 AC1 SER B 194 LEU B 198 5 5 HELIX 20 AC2 ASP B 214 ARG B 238 1 25 HELIX 21 AC3 THR B 246 THR B 268 1 23 HELIX 22 AC4 ARG B 287 GLY B 294 1 8 HELIX 23 AC5 PRO B 297 LEU B 310 1 14 HELIX 24 AC6 ASP B 315 ILE B 328 1 14 HELIX 25 AC7 GLU B 337 ARG B 360 1 24 HELIX 26 AC8 HIS B 365 ILE B 395 1 31 HELIX 27 AC9 PRO B 400 GLU B 408 1 9 HELIX 28 AD1 LYS C 688 LEU C 694 1 7 HELIX 29 AD2 LYS D 688 GLN D 695 1 8 SHEET 1 AA1 2 GLY A 144 HIS A 146 0 SHEET 2 AA1 2 VAL A 149 SER A 151 -1 O VAL A 149 N HIS A 146 SHEET 1 AA2 2 GLY A 323 LEU A 325 0 SHEET 2 AA2 2 HIS A 331 HIS A 333 -1 O VAL A 332 N ILE A 324 SHEET 1 AA3 2 TYR B 91 HIS B 92 0 SHEET 2 AA3 2 VAL B 95 SER B 96 -1 O VAL B 95 N HIS B 92 SHEET 1 AA4 3 TYR B 270 THR B 271 0 SHEET 2 AA4 3 THR B 276 THR B 278 -1 O THR B 276 N THR B 271 SHEET 3 AA4 3 THR B 284 ASN B 286 -1 O LEU B 285 N MET B 277 LINK SG CYS A 135 ZN ZN A 501 1555 1555 2.34 LINK SG CYS A 138 ZN ZN A 501 1555 1555 2.32 LINK SG CYS A 152 ZN ZN A 501 1555 1555 2.32 LINK SG CYS A 155 ZN ZN A 501 1555 1555 2.33 LINK SG CYS A 177 ZN ZN A 502 1555 1555 2.34 LINK SG CYS A 187 ZN ZN A 502 1555 1555 2.31 LINK SG CYS B 81 ZN ZN B 501 1555 1555 2.34 LINK SG CYS B 84 ZN ZN B 501 1555 1555 2.29 LINK SG CYS B 98 ZN ZN B 501 1555 1555 2.30 LINK SG CYS B 101 ZN ZN B 501 1555 1555 2.29 LINK SG CYS B 117 ZN ZN B 502 1555 1555 2.29 LINK SG CYS B 123 ZN ZN B 502 1555 1555 2.34 LINK SG CYS B 133 ZN ZN B 502 1555 1555 2.32 LINK SG CYS B 136 ZN ZN B 502 1555 1555 2.26 SITE 1 AC1 4 CYS A 135 CYS A 138 CYS A 152 CYS A 155 SITE 1 AC2 3 CYS A 177 CYS A 187 CYS A 190 SITE 1 AC3 12 ILE A 268 ALA A 271 ALA A 272 GLN A 275 SITE 2 AC3 12 TRP A 305 LEU A 309 PHE A 313 ARG A 316 SITE 3 AC3 12 LEU A 325 LEU A 326 ALA A 327 CYS A 432 SITE 1 AC4 4 CYS B 81 CYS B 84 CYS B 98 CYS B 101 SITE 1 AC5 4 CYS B 117 CYS B 123 CYS B 133 CYS B 136 SITE 1 AC6 8 ALA B 225 CYS B 228 LEU B 262 ILE B 263 SITE 2 AC6 8 ILE B 266 PHE B 279 SER B 280 GLY B 294 CRYST1 52.470 77.403 112.113 90.00 90.37 90.00 P 1 21 1 4 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 0.019059 0.000000 0.000123 0.00000 SCALE2 0.000000 0.012919 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008920 0.00000