PDB Short entry for 3G97 HEADER TRANSCRIPTION/DNA 13-FEB-09 3G97 TITLE GR DNA-BINDING DOMAIN:GILZ 16BP COMPLEX-9 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOCORTICOID RECEPTOR; COMPND 3 CHAIN: B, A; COMPND 4 FRAGMENT: UNP RESIDUES 440-525; COMPND 5 SYNONYM: GR, NUCLEAR RECEPTOR SUBFAMILY 3 GROUP C MEMBER 1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*TP*GP*GP*AP*AP*CP*CP*CP*AP*AP*TP*GP*TP*TP*CP*T)- COMPND 9 3'); COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: GLUCOCORTICOID RECEPTOR BINDING SITE:GILZ TOP STRAND; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'-D(*AP*AP*GP*AP*AP*CP*AP*TP*TP*GP*GP*GP*TP*TP*CP*C)- COMPND 15 3'); COMPND 16 CHAIN: D; COMPND 17 ENGINEERED: YES; COMPND 18 OTHER_DETAILS: GLUCOCORTICOID RECEPTOR BINDING SITE:GILZ BOTTOM COMPND 19 STRAND SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: BROWN RAT,RAT,RATS; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: GRL, NR3C1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) GOLD; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES 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 3G97 1 REMARK SEQADV REVDAT 3 01-NOV-17 3G97 1 REMARK REVDAT 2 02-JUN-09 3G97 1 JRNL REVDAT 1 21-APR-09 3G97 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. 2.08 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) : 2.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.55 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.150 REMARK 3 COMPLETENESS FOR RANGE (%) : 78.1 REMARK 3 NUMBER OF REFLECTIONS : 17379 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.930 REMARK 3 FREE R VALUE TEST SET COUNT : 1725 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 34.5590 - 4.4803 0.99 2079 223 0.1636 0.1937 REMARK 3 2 4.4803 - 3.5573 0.99 2002 221 0.1844 0.2313 REMARK 3 3 3.5573 - 3.1080 0.98 1952 214 0.2228 0.2676 REMARK 3 4 3.1080 - 2.8240 0.96 1912 215 0.2614 0.2829 REMARK 3 5 2.8240 - 2.6216 0.93 1864 209 0.2295 0.2589 REMARK 3 6 2.6216 - 2.4671 0.86 1692 196 0.2317 0.2770 REMARK 3 7 2.4671 - 2.3436 0.78 1534 174 0.2314 0.2757 REMARK 3 8 2.3436 - 2.2416 0.61 1236 121 0.2442 0.3306 REMARK 3 9 2.2416 - 2.1553 0.43 830 95 0.2733 0.3531 REMARK 3 10 2.1553 - 2.0800 0.28 553 57 0.2662 0.3112 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 : 0.32 REMARK 3 B_SOL : 62.36 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 1.890 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 43.54 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 85.20 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 : 0.007 NULL REMARK 3 ANGLE : 1.303 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): 11.7857 14.1716 40.8301 REMARK 3 T TENSOR REMARK 3 T11: 0.2231 T22: 0.1742 REMARK 3 T33: 0.5674 T12: -0.0042 REMARK 3 T13: 0.0354 T23: 0.0950 REMARK 3 L TENSOR REMARK 3 L11: 6.9431 L22: 1.7359 REMARK 3 L33: 2.2090 L12: 1.8275 REMARK 3 L13: 1.4115 L23: 1.9395 REMARK 3 S TENSOR REMARK 3 S11: 0.2243 S12: 0.0656 S13: -1.7073 REMARK 3 S21: -0.0453 S22: 0.0141 S23: -0.7896 REMARK 3 S31: 0.0682 S32: 0.1775 S33: -0.1874 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -3.5188 9.8457 20.2915 REMARK 3 T TENSOR REMARK 3 T11: 0.7424 T22: 0.6356 REMARK 3 T33: 0.3365 T12: 0.1668 REMARK 3 T13: -0.0874 T23: -0.1491 REMARK 3 L TENSOR REMARK 3 L11: 2.7464 L22: 2.2467 REMARK 3 L33: 2.0578 L12: 1.0679 REMARK 3 L13: -0.3136 L23: 2.4394 REMARK 3 S TENSOR REMARK 3 S11: -0.0683 S12: 0.9856 S13: -0.2693 REMARK 3 S21: -1.0227 S22: -0.1194 S23: 0.4559 REMARK 3 S31: -1.0622 S32: -0.6438 S33: 0.2124 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): 17.4751 15.4623 22.6567 REMARK 3 T TENSOR REMARK 3 T11: 0.8158 T22: 1.1358 REMARK 3 T33: 0.4412 T12: -0.2376 REMARK 3 T13: 0.0161 T23: -0.0854 REMARK 3 L TENSOR REMARK 3 L11: 2.0670 L22: 2.8496 REMARK 3 L33: 3.5194 L12: 2.0003 REMARK 3 L13: -0.4079 L23: 2.0563 REMARK 3 S TENSOR REMARK 3 S11: -0.4965 S12: 0.8958 S13: -1.2348 REMARK 3 S21: -0.9724 S22: 1.0674 S23: -0.5343 REMARK 3 S31: -1.1936 S32: 0.0502 S33: -0.3245 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): 15.5831 12.5558 18.9638 REMARK 3 T TENSOR REMARK 3 T11: 0.6785 T22: 1.5169 REMARK 3 T33: 0.6996 T12: -0.0898 REMARK 3 T13: -0.0607 T23: -0.3730 REMARK 3 L TENSOR REMARK 3 L11: -1.7628 L22: 2.3985 REMARK 3 L33: 3.9975 L12: 2.7568 REMARK 3 L13: 2.9310 L23: 2.8346 REMARK 3 S TENSOR REMARK 3 S11: -0.5628 S12: 2.0461 S13: -1.4281 REMARK 3 S21: -0.8351 S22: 0.9135 S23: -0.3873 REMARK 3 S31: -1.1159 S32: 1.3704 S33: -0.1411 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 3G97 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000051581. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 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) : 1.115879 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 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18548 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.080 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 (%) : 83.3 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : 0.05000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.08 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 31.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.44700 REMARK 200 R SYM FOR SHELL (I) : 0.40300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.450 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 (%): 60.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM MES, PH 6.0, 100MM KCL, 10MM REMARK 280 MGCL2, 10% PEG 400, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 58.41150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.29450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.41150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.29450 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: 5500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, A, C, D 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 B 436 REMARK 465 SER B 437 REMARK 465 ARG B 510 REMARK 465 LYS B 511 REMARK 465 THR B 512 REMARK 465 LYS B 513 REMARK 465 LYS B 514 REMARK 465 LYS B 515 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 465 GLY A 436 REMARK 465 SER A 437 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 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 GLU B 508 CG CD OE1 OE2 REMARK 470 ARG A 510 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 440 CB CYS A 440 SG -0.103 REMARK 500 REMARK 500 REMARK: NULL 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 DT C 1 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC C 6 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DC C 8 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT C 13 C3' - O3' - P ANGL. DEV. = 7.5 DEGREES REMARK 500 DC C 15 C3' - C2' - C1' ANGL. DEV. = -5.7 DEGREES REMARK 500 DA D 1 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG D 3 C3' - C2' - C1' ANGL. DEV. = -6.0 DEGREES REMARK 500 DG D 3 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG D 12 C3' - C2' - C1' ANGL. DEV. = -4.8 DEGREES REMARK 500 DC D 15 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC D 15 C3' - O3' - P ANGL. DEV. = -7.6 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 SER B 444 52.16 37.86 REMARK 500 ASP B 445 -144.71 -120.05 REMARK 500 GLU B 446 82.39 -68.90 REMARK 500 TYR B 452 35.19 39.70 REMARK 500 GLU B 469 -72.81 -60.99 REMARK 500 ASP B 481 46.97 -149.71 REMARK 500 ASP B 485 -165.86 -117.93 REMARK 500 GLU B 508 29.72 47.40 REMARK 500 ASP A 445 -178.33 -68.99 REMARK 500 ASP A 481 34.89 -143.11 REMARK 500 ASP A 485 -160.14 -109.36 REMARK 500 GLU A 508 30.61 -98.32 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 B 526 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 440 SG REMARK 620 2 CYS B 443 SG 123.4 REMARK 620 3 CYS B 457 SG 131.5 88.2 REMARK 620 4 CYS B 460 SG 128.2 91.4 80.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 527 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 476 SG REMARK 620 2 CYS B 482 SG 105.5 REMARK 620 3 CYS B 492 SG 114.3 115.9 REMARK 620 4 CYS B 495 SG 103.7 112.1 104.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 526 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 440 SG REMARK 620 2 CYS A 443 SG 115.0 REMARK 620 3 CYS A 457 SG 112.3 102.5 REMARK 620 4 CYS A 460 SG 103.0 116.3 107.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 527 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 476 SG REMARK 620 2 CYS A 482 SG 101.0 REMARK 620 3 CYS A 492 SG 111.7 114.4 REMARK 620 4 CYS A 495 SG 108.6 109.7 110.9 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 B 526 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 527 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 526 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 527 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 528 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: 3G6U RELATED DB: PDB REMARK 900 RELATED ID: 3G8X RELATED DB: PDB REMARK 900 RELATED ID: 3G99 RELATED DB: PDB REMARK 900 RELATED ID: 3G9I RELATED DB: PDB REMARK 900 RELATED ID: 3G9J 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 3G97 B 440 525 UNP P06536 GCR_RAT 440 525 DBREF 3G97 A 440 525 UNP P06536 GCR_RAT 440 525 DBREF 3G97 C 1 16 PDB 3G97 3G97 1 16 DBREF 3G97 D 1 16 PDB 3G97 3G97 1 16 SEQADV 3G97 GLY B 436 UNP P06536 EXPRESSION TAG SEQADV 3G97 SER B 437 UNP P06536 EXPRESSION TAG SEQADV 3G97 HIS B 438 UNP P06536 EXPRESSION TAG SEQADV 3G97 MET B 439 UNP P06536 EXPRESSION TAG SEQADV 3G97 GLY A 436 UNP P06536 EXPRESSION TAG SEQADV 3G97 SER A 437 UNP P06536 EXPRESSION TAG SEQADV 3G97 HIS A 438 UNP P06536 EXPRESSION TAG SEQADV 3G97 MET A 439 UNP P06536 EXPRESSION TAG 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 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 C 16 DT DG DG DA DA DC DC DC DA DA DT DG DT SEQRES 2 C 16 DT DC DT SEQRES 1 D 16 DA DA DG DA DA DC DA DT DT DG DG DG DT SEQRES 2 D 16 DT DC DC HET ZN B 526 1 HET ZN B 527 1 HET ZN A 526 1 HET ZN A 527 1 HET EDO A 1 4 HET EDO A 528 4 HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 ZN 4(ZN 2+) FORMUL 9 EDO 2(C2 H6 O2) FORMUL 11 HOH *46(H2 O) HELIX 1 1 CYS B 457 GLY B 470 1 14 HELIX 2 2 CYS B 492 GLN B 502 1 11 HELIX 3 3 CYS A 457 GLY A 470 1 14 HELIX 4 4 ILE A 487 ASN A 491 5 5 HELIX 5 5 CYS A 492 GLY A 504 1 13 SHEET 1 A 2 CYS B 450 HIS B 451 0 SHEET 2 A 2 VAL B 454 LEU B 455 -1 O VAL B 454 N HIS B 451 SHEET 1 B 2 CYS A 450 HIS A 451 0 SHEET 2 B 2 VAL A 454 LEU A 455 -1 O VAL A 454 N HIS A 451 LINK SG CYS B 440 ZN ZN B 526 1555 1555 2.48 LINK SG CYS B 443 ZN ZN B 526 1555 1555 2.53 LINK SG CYS B 457 ZN ZN B 526 1555 1555 2.66 LINK SG CYS B 460 ZN ZN B 526 1555 1555 2.42 LINK SG CYS B 476 ZN ZN B 527 1555 1555 2.24 LINK SG CYS B 482 ZN ZN B 527 1555 1555 2.21 LINK SG CYS B 492 ZN ZN B 527 1555 1555 2.35 LINK SG CYS B 495 ZN ZN B 527 1555 1555 2.50 LINK SG CYS A 440 ZN ZN A 526 1555 1555 2.63 LINK SG CYS A 443 ZN ZN A 526 1555 1555 2.31 LINK SG CYS A 457 ZN ZN A 526 1555 1555 2.29 LINK SG CYS A 460 ZN ZN A 526 1555 1555 2.21 LINK SG CYS A 476 ZN ZN A 527 1555 1555 2.30 LINK SG CYS A 482 ZN ZN A 527 1555 1555 2.17 LINK SG CYS A 492 ZN ZN A 527 1555 1555 2.34 LINK SG CYS A 495 ZN ZN A 527 1555 1555 2.37 SITE 1 AC1 4 CYS B 440 CYS B 443 CYS B 457 CYS B 460 SITE 1 AC2 4 CYS B 476 CYS B 482 CYS B 492 CYS B 495 SITE 1 AC3 4 CYS A 440 CYS A 443 CYS A 457 CYS A 460 SITE 1 AC4 5 EDO A 1 CYS A 476 CYS A 482 CYS A 492 SITE 2 AC4 5 CYS A 495 SITE 1 AC5 7 ALA A 477 CYS A 482 CYS A 492 ZN A 527 SITE 2 AC5 7 HOH B 34 CYS B 482 ASN B 491 SITE 1 AC6 4 LEU A 441 GLY A 453 VAL A 454 LEU A 455 CRYST1 116.823 38.589 97.120 90.00 122.89 90.00 C 1 2 1 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 0.008560 0.000000 0.005536 0.00000 SCALE2 0.000000 0.025914 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012262 0.00000