PDB Short entry for 3G9J HEADER TRANSCRIPTION/DNA 13-FEB-09 3G9J TITLE GR DNA BINDING DOMAIN:PAL, 18BP COMPLEX-36 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*CP*CP*AP*GP*AP*AP*CP*AP*AP*AP*AP*TP*GP*TP*TP*CP*TP*G)-3'); COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: GR BINDING SITE: PAL 18BP TOP STRAND; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'- COMPND 9 D(*CP*CP*AP*GP*AP*AP*CP*AP*TP*TP*TP*TP*GP*TP*TP*CP*TP*G)-3'); COMPND 10 CHAIN: D; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: GR BINDING SITE: PAL 18BP BOTTOM STRAND; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: GLUCOCORTICOID RECEPTOR; COMPND 15 CHAIN: A, B; COMPND 16 FRAGMENT: UNP RESIDUES 440-525; COMPND 17 SYNONYM: GR, NUCLEAR RECEPTOR SUBFAMILY 3 GROUP C MEMBER 1; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 7 ORGANISM_COMMON: BROWN RAT,RAT,RATS; SOURCE 8 ORGANISM_TAXID: 10116; SOURCE 9 GENE: NR3C1, GRL; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) GOLD; SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS GLUCOCORTICOID, DNA-BINDING, ALLOSTERY, LEVER ARM, TRANSCRIPTION, KEYWDS 2 HORMONE, ALTERNATIVE INITIATION, CHROMATIN REGULATOR, CYTOPLASM, KEYWDS 3 LIPID-BINDING, METAL-BINDING, NUCLEUS, PHOSPHOPROTEIN, POLYMORPHISM, KEYWDS 4 RECEPTOR, STEROID-BINDING, TRANSCRIPTION REGULATION, UBL KEYWDS 5 CONJUGATION, ZINC, ZINC-FINGER, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.A.PUFALL,K.R.YAMAMOTO,S.H.MEIJSING REVDAT 4 06-SEP-23 3G9J 1 REMARK SEQADV REVDAT 3 01-NOV-17 3G9J 1 REMARK REVDAT 2 02-JUN-09 3G9J 1 JRNL REVDAT 1 21-APR-09 3G9J 0 JRNL AUTH S.H.MEIJSING,M.A.PUFALL,A.Y.SO,D.L.BATES,L.CHEN,K.R.YAMAMOTO JRNL TITL DNA BINDING SITE SEQUENCE DIRECTS GLUCOCORTICOID RECEPTOR JRNL TITL 2 STRUCTURE AND ACTIVITY. JRNL REF SCIENCE V. 324 407 2009 JRNL REFN ISSN 0036-8075 JRNL PMID 19372434 JRNL DOI 10.1126/SCIENCE.1164265 REMARK 2 REMARK 2 RESOLUTION. 2.32 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.13 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.210 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 3 NUMBER OF REFLECTIONS : 19067 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.940 REMARK 3 FREE R VALUE TEST SET COUNT : 1896 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 49.1357 - 5.0005 0.99 1933 214 0.1689 0.1850 REMARK 3 2 5.0005 - 3.9696 0.99 1837 204 0.1366 0.1661 REMARK 3 3 3.9696 - 3.4680 0.99 1803 197 0.1673 0.2280 REMARK 3 4 3.4680 - 3.1509 0.97 1758 193 0.2059 0.2404 REMARK 3 5 3.1509 - 2.9251 0.96 1729 193 0.2231 0.3037 REMARK 3 6 2.9251 - 2.7527 0.95 1688 180 0.2015 0.2821 REMARK 3 7 2.7527 - 2.6148 0.94 1676 181 0.1993 0.2682 REMARK 3 8 2.6148 - 2.5010 0.91 1620 189 0.1934 0.2480 REMARK 3 9 2.5010 - 2.4047 0.89 1579 174 0.1897 0.2474 REMARK 3 10 2.4047 - 2.3200 0.88 1548 171 0.1999 0.2694 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.33 REMARK 3 B_SOL : 50.52 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 1.950 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 43.97 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.10 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 : 0.008 NULL REMARK 3 ANGLE : 1.225 NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -14.5512 18.1998 -20.5435 REMARK 3 T TENSOR REMARK 3 T11: 0.3507 T22: 0.3498 REMARK 3 T33: 0.3061 T12: -0.0149 REMARK 3 T13: -0.0160 T23: -0.0323 REMARK 3 L TENSOR REMARK 3 L11: 1.4486 L22: 2.1877 REMARK 3 L33: 1.6558 L12: -0.1446 REMARK 3 L13: 0.1202 L23: 2.2302 REMARK 3 S TENSOR REMARK 3 S11: 0.0444 S12: 0.2661 S13: -0.1584 REMARK 3 S21: -0.6127 S22: -0.0396 S23: 0.1436 REMARK 3 S31: -0.4044 S32: 0.1038 S33: 0.0216 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -9.4455 17.9320 6.5469 REMARK 3 T TENSOR REMARK 3 T11: 0.2605 T22: 0.3081 REMARK 3 T33: 0.2403 T12: 0.0253 REMARK 3 T13: 0.0295 T23: 0.0140 REMARK 3 L TENSOR REMARK 3 L11: 1.9899 L22: 1.5075 REMARK 3 L33: 0.9275 L12: 0.7559 REMARK 3 L13: -0.4545 L23: -0.7120 REMARK 3 S TENSOR REMARK 3 S11: -0.0881 S12: -0.1164 S13: 0.0707 REMARK 3 S21: 0.1907 S22: 0.2063 S23: 0.0757 REMARK 3 S31: 0.0200 S32: -0.2115 S33: -0.1241 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): -10.6162 2.4216 -9.5804 REMARK 3 T TENSOR REMARK 3 T11: 0.6217 T22: 0.4220 REMARK 3 T33: 0.2352 T12: -0.0751 REMARK 3 T13: -0.0747 T23: -0.0365 REMARK 3 L TENSOR REMARK 3 L11: 0.5683 L22: 0.5640 REMARK 3 L33: 0.1983 L12: -0.4529 REMARK 3 L13: 0.1357 L23: 0.3667 REMARK 3 S TENSOR REMARK 3 S11: 0.3049 S12: -0.0303 S13: -0.1891 REMARK 3 S21: -0.1647 S22: 0.1527 S23: -0.0048 REMARK 3 S31: 0.1786 S32: 0.0611 S33: -0.2514 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): -9.1432 2.5535 -5.7747 REMARK 3 T TENSOR REMARK 3 T11: 0.5485 T22: 0.3844 REMARK 3 T33: 0.2830 T12: -0.0068 REMARK 3 T13: -0.0179 T23: -0.0284 REMARK 3 L TENSOR REMARK 3 L11: 0.9242 L22: 0.7419 REMARK 3 L33: 0.5337 L12: -0.0539 REMARK 3 L13: 0.4122 L23: 0.0175 REMARK 3 S TENSOR REMARK 3 S11: 0.2574 S12: 0.0155 S13: -0.2079 REMARK 3 S21: 0.0760 S22: 0.2135 S23: 0.0283 REMARK 3 S31: 0.4787 S32: 0.0234 S33: -0.3259 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 3G9J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000051593. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-APR-08 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 : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.115878 REMARK 200 MONOCHROMATOR : DOUBLE FLAT CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM Q315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20142 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.320 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : 0.05500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 23.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.30 REMARK 200 R MERGE FOR SHELL (I) : 0.61500 REMARK 200 R SYM FOR SHELL (I) : 0.46800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 1GLU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM HEPES, PH 7.0, 100MM KCL, 10MM REMARK 280 CACL2, 10% PEG 400, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 19.53450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.03800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.04800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.03800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.53450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.04800 REMARK 290 SMTRY3 4 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, 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 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 GLY A 436 REMARK 465 LYS A 511 REMARK 465 THR A 512 REMARK 465 LYS A 513 REMARK 465 LYS A 514 REMARK 465 LYS A 515 REMARK 465 ILE A 516 REMARK 465 LYS A 517 REMARK 465 GLY A 518 REMARK 465 ILE A 519 REMARK 465 GLN A 520 REMARK 465 GLN A 521 REMARK 465 ALA A 522 REMARK 465 THR A 523 REMARK 465 ALA A 524 REMARK 465 GLY A 525 REMARK 465 GLY B 436 REMARK 465 ILE B 516 REMARK 465 LYS B 517 REMARK 465 GLY B 518 REMARK 465 ILE B 519 REMARK 465 GLN B 520 REMARK 465 GLN B 521 REMARK 465 ALA B 522 REMARK 465 THR B 523 REMARK 465 ALA B 524 REMARK 465 GLY B 525 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 SER A 437 OG REMARK 470 SER B 437 OG REMARK 470 LYS B 514 CG CD CE NZ REMARK 470 LYS B 515 CG CD CE NZ 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 DC C 1 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES REMARK 500 DC C 2 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 DA C 10 O4' - C1' - N9 ANGL. DEV. = -8.7 DEGREES REMARK 500 DT C 12 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 DG C 13 C3' - C2' - C1' ANGL. DEV. = -5.4 DEGREES REMARK 500 DT C 14 O4' - C1' - N1 ANGL. DEV. = -4.5 DEGREES REMARK 500 DC C 16 O4' - C1' - N1 ANGL. DEV. = -5.2 DEGREES REMARK 500 DG C 18 O4' - C1' - N9 ANGL. DEV. = -4.9 DEGREES REMARK 500 DC D 1 O4' - C1' - N1 ANGL. DEV. = -5.8 DEGREES REMARK 500 DC D 2 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DA D 3 O4' - C1' - C2' ANGL. DEV. = 3.6 DEGREES REMARK 500 DT D 10 N3 - C2 - O2 ANGL. DEV. = -3.6 DEGREES REMARK 500 DT D 11 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 DT D 15 O4' - C1' - N1 ANGL. DEV. = -5.0 DEGREES REMARK 500 DC D 16 O4' - C1' - N1 ANGL. DEV. = -5.2 DEGREES REMARK 500 DT D 17 O4' - C1' - N1 ANGL. DEV. = -7.0 DEGREES REMARK 500 DG D 18 O4' - C1' - N9 ANGL. DEV. = -6.4 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 ASP A 481 37.28 -147.42 REMARK 500 HIS B 438 45.82 -142.26 REMARK 500 ASP B 481 40.06 -140.60 REMARK 500 LYS B 514 48.98 -87.15 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 A1514 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 440 SG REMARK 620 2 CYS A 443 SG 110.9 REMARK 620 3 CYS A 457 SG 113.6 108.5 REMARK 620 4 CYS A 460 SG 108.4 113.7 101.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1515 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 476 SG REMARK 620 2 CYS A 482 SG 105.5 REMARK 620 3 CYS A 492 SG 111.2 114.3 REMARK 620 4 CYS A 495 SG 106.6 110.9 108.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1512 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 440 SG REMARK 620 2 CYS B 443 SG 105.9 REMARK 620 3 CYS B 457 SG 118.5 105.1 REMARK 620 4 CYS B 460 SG 110.4 112.3 104.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1513 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 476 SG REMARK 620 2 CYS B 482 SG 104.2 REMARK 620 3 CYS B 492 SG 115.7 113.2 REMARK 620 4 CYS B 495 SG 106.6 110.5 106.5 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 EDO C 19 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1514 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1515 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1512 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1513 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 526 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3FYL RELATED DB: PDB REMARK 900 SAME PROTEIN, DIFFERENT DNA REMARK 900 RELATED ID: 3G6P RELATED DB: PDB REMARK 900 SAME COMPLEX, DIFFERENT CRYSTAL CONDITION REMARK 900 RELATED ID: 3G6Q RELATED DB: PDB REMARK 900 SAME DNA BINDING SITE, INSERTION MUTATION GR GAMMA REMARK 900 RELATED ID: 3G6R RELATED DB: PDB REMARK 900 RELATED ID: 3G6T RELATED DB: PDB REMARK 900 RELATED ID: 3G6U RELATED DB: PDB REMARK 900 RELATED ID: 3G8U RELATED DB: PDB REMARK 900 RELATED ID: 3G8X RELATED DB: PDB REMARK 900 RELATED ID: 3G97 RELATED DB: PDB REMARK 900 RELATED ID: 3G99 RELATED DB: PDB REMARK 900 RELATED ID: 3G9I RELATED DB: PDB REMARK 900 RELATED ID: 3G9M RELATED DB: PDB REMARK 900 RELATED ID: 3G9O RELATED DB: PDB REMARK 900 RELATED ID: 3G9P RELATED DB: PDB DBREF 3G9J A 440 525 UNP P06536 GCR_RAT 440 525 DBREF 3G9J B 440 525 UNP P06536 GCR_RAT 440 525 DBREF 3G9J C 1 18 PDB 3G9J 3G9J 1 18 DBREF 3G9J D 1 18 PDB 3G9J 3G9J 1 18 SEQADV 3G9J GLY A 436 UNP P06536 EXPRESSION TAG SEQADV 3G9J SER A 437 UNP P06536 EXPRESSION TAG SEQADV 3G9J HIS A 438 UNP P06536 EXPRESSION TAG SEQADV 3G9J MET A 439 UNP P06536 EXPRESSION TAG SEQADV 3G9J GLY B 436 UNP P06536 EXPRESSION TAG SEQADV 3G9J SER B 437 UNP P06536 EXPRESSION TAG SEQADV 3G9J HIS B 438 UNP P06536 EXPRESSION TAG SEQADV 3G9J MET B 439 UNP P06536 EXPRESSION TAG SEQRES 1 C 18 DC DC DA DG DA DA DC DA DA DA DA DT DG SEQRES 2 C 18 DT DT DC DT DG SEQRES 1 D 18 DC DC DA DG DA DA DC DA DT DT DT DT DG SEQRES 2 D 18 DT DT DC DT DG SEQRES 1 A 90 GLY SER HIS MET CYS LEU VAL CYS SER ASP GLU ALA SER SEQRES 2 A 90 GLY CYS HIS TYR GLY VAL LEU THR CYS GLY SER CYS LYS SEQRES 3 A 90 VAL PHE PHE LYS ARG ALA VAL GLU GLY GLN HIS ASN TYR SEQRES 4 A 90 LEU CYS ALA GLY ARG ASN ASP CYS ILE ILE ASP LYS ILE SEQRES 5 A 90 ARG ARG LYS ASN CYS PRO ALA CYS ARG TYR ARG LYS CYS SEQRES 6 A 90 LEU GLN ALA GLY MET ASN LEU GLU ALA ARG LYS THR LYS SEQRES 7 A 90 LYS LYS ILE LYS GLY ILE GLN GLN ALA THR ALA GLY SEQRES 1 B 90 GLY SER HIS MET CYS LEU VAL CYS SER ASP GLU ALA SER SEQRES 2 B 90 GLY CYS HIS TYR GLY VAL LEU THR CYS GLY SER CYS LYS SEQRES 3 B 90 VAL PHE PHE LYS ARG ALA VAL GLU GLY GLN HIS ASN TYR SEQRES 4 B 90 LEU CYS ALA GLY ARG ASN ASP CYS ILE ILE ASP LYS ILE SEQRES 5 B 90 ARG ARG LYS ASN CYS PRO ALA CYS ARG TYR ARG LYS CYS SEQRES 6 B 90 LEU GLN ALA GLY MET ASN LEU GLU ALA ARG LYS THR LYS SEQRES 7 B 90 LYS LYS ILE LYS GLY ILE GLN GLN ALA THR ALA GLY HET EDO C 19 4 HET ZN A1514 1 HET ZN A1515 1 HET EDO A 1 4 HET ZN B1512 1 HET ZN B1513 1 HET EDO B 1 4 HET EDO B 526 4 HETNAM EDO 1,2-ETHANEDIOL HETNAM ZN ZINC ION HETSYN EDO ETHYLENE GLYCOL FORMUL 5 EDO 4(C2 H6 O2) FORMUL 6 ZN 4(ZN 2+) FORMUL 13 HOH *128(H2 O) HELIX 1 1 CYS A 457 GLN A 471 1 15 HELIX 2 2 ILE A 487 ASN A 491 5 5 HELIX 3 3 CYS A 492 ALA A 503 1 12 HELIX 4 4 CYS B 457 GLY B 470 1 14 HELIX 5 5 ILE B 487 ASN B 491 5 5 HELIX 6 6 CYS B 492 ALA B 503 1 12 HELIX 7 7 GLU B 508 LYS B 514 1 7 SHEET 1 A 2 GLY A 449 HIS A 451 0 SHEET 2 A 2 VAL A 454 THR A 456 -1 O VAL A 454 N HIS A 451 SHEET 1 B 2 GLY B 449 HIS B 451 0 SHEET 2 B 2 VAL B 454 THR B 456 -1 O VAL B 454 N HIS B 451 LINK SG CYS A 440 ZN ZN A1514 1555 1555 2.36 LINK SG CYS A 443 ZN ZN A1514 1555 1555 2.32 LINK SG CYS A 457 ZN ZN A1514 1555 1555 2.38 LINK SG CYS A 460 ZN ZN A1514 1555 1555 2.29 LINK SG CYS A 476 ZN ZN A1515 1555 1555 2.26 LINK SG CYS A 482 ZN ZN A1515 1555 1555 2.22 LINK SG CYS A 492 ZN ZN A1515 1555 1555 2.35 LINK SG CYS A 495 ZN ZN A1515 1555 1555 2.44 LINK SG CYS B 440 ZN ZN B1512 1555 1555 2.28 LINK SG CYS B 443 ZN ZN B1512 1555 1555 2.39 LINK SG CYS B 457 ZN ZN B1512 1555 1555 2.41 LINK SG CYS B 460 ZN ZN B1512 1555 1555 2.22 LINK SG CYS B 476 ZN ZN B1513 1555 1555 2.29 LINK SG CYS B 482 ZN ZN B1513 1555 1555 2.23 LINK SG CYS B 492 ZN ZN B1513 1555 1555 2.35 LINK SG CYS B 495 ZN ZN B1513 1555 1555 2.39 SITE 1 AC1 2 DC C 16 DT C 17 SITE 1 AC2 4 CYS A 440 CYS A 443 CYS A 457 CYS A 460 SITE 1 AC3 4 CYS A 476 CYS A 482 CYS A 492 CYS A 495 SITE 1 AC4 5 LEU A 475 PRO A 493 ALA A 494 ILE B 487 SITE 2 AC4 5 ASN B 491 SITE 1 AC5 4 CYS B 440 CYS B 443 CYS B 457 CYS B 460 SITE 1 AC6 4 CYS B 476 CYS B 482 CYS B 492 CYS B 495 SITE 1 AC7 5 HOH B 52 GLN B 471 HIS B 472 ASN B 473 SITE 2 AC7 5 ASP B 481 SITE 1 AC8 8 SER B 459 VAL B 462 PHE B 463 ARG B 466 SITE 2 AC8 8 ARG B 496 DT C 12 DG C 13 HOH C 51 CRYST1 39.069 102.096 112.076 90.00 90.00 90.00 P 21 21 21 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 0.025596 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009795 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008923 0.00000