HEADER TRANSCRIPTION 15-NOV-05 2F23 TITLE CRYSTAL STRUCTURE OF GREA FACTOR HOMOLOG 1 (GFH1) PROTEIN OF THERMUS TITLE 2 THERMOPHILUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTI-CLEAVAGE ANTI-GREA TRANSCRIPTION FACTOR GFH1; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 262724; SOURCE 4 STRAIN: HB27; SOURCE 5 GENE: GFH1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET19C KEYWDS CRYSTAL STRUCTURE ANTI-GREA GFH1 THERMUS THERMOPHILUS, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR X.P.KONG,S.-S.KIM REVDAT 4 14-FEB-24 2F23 1 REMARK REVDAT 3 13-JUL-11 2F23 1 VERSN REVDAT 2 24-FEB-09 2F23 1 VERSN REVDAT 1 30-MAY-06 2F23 0 JRNL AUTH O.LAPTENKO,S.-S.KIM,J.LEE,M.STARODUBTSEVA,F.CAVA, JRNL AUTH 2 J.BERENGUER,X.P.KONG,S.BORUKHOV JRNL TITL PH-DEPENDENT CONFORMATIONAL SWITCH ACTIVATES THE INHIBITOR JRNL TITL 2 OF TRANSCRIPTION ELONGATION. JRNL REF EMBO J. V. 25 2131 2006 JRNL REFN ISSN 0261-4189 JRNL PMID 16628221 JRNL DOI 10.1038/SJ.EMBOJ.7601094 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 276484.580 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 34114 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 SET) : 0.206 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1728 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.70 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5063 REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE : 0.2680 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 278 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2374 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 292 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.93000 REMARK 3 B22 (A**2) : -3.01000 REMARK 3 B33 (A**2) : -1.92000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.57000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.18 REMARK 3 ESD FROM SIGMAA (A) : 0.08 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.11 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.630 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.310 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.050 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.560 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.770 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 39.88 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2F23 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1000035356. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-AUG-03; 09-FEB-04; 20-JAN-04 REMARK 200 TEMPERATURE (KELVIN) : 100; NULL; NULL REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y; Y REMARK 200 RADIATION SOURCE : NSLS; NSLS; NSLS REMARK 200 BEAMLINE : X4A; X25; X6A REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.97917, 0.97939, 0.97853; 1.1; REMARK 200 1.07 REMARK 200 MONOCHROMATOR : NULL; NULL; NULL REMARK 200 OPTICS : NULL; NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4R; ADSC QUANTUM REMARK 200 315; ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39911 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 38.170 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.31200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD; NULL; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 29% PEG 3350, 0.1M MES, PH 6.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 296K 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 76.33100 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 300 REMARK: BIOLOGICAL ASSEMBLY IS A MONOMER. THE ASYMETRIC UNIT OF THE REMARK 300 CRYSTAL CONTAINS TWO MONOMERS. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 1 REMARK 465 ALA A 2 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 111 99.51 -162.47 REMARK 500 GLU B 38 -70.69 -62.49 REMARK 500 ASP B 42 -154.93 -92.18 REMARK 500 ASN B 111 93.16 -169.82 REMARK 500 REMARK 500 REMARK: NULL DBREF 2F23 A 1 156 UNP Q72JT8 Q72JT8_THET2 1 156 DBREF 2F23 B 1 156 UNP Q72JT8 Q72JT8_THET2 1 156 SEQRES 1 A 156 MET ALA ARG GLU VAL LYS LEU THR LYS ALA GLY TYR GLU SEQRES 2 A 156 ARG LEU MET GLN GLN LEU GLU ARG GLU ARG GLU ARG LEU SEQRES 3 A 156 GLN GLU ALA THR LYS ILE LEU GLN GLU LEU MET GLU SER SEQRES 4 A 156 SER ASP ASP TYR ASP ASP SER GLY LEU GLU ALA ALA LYS SEQRES 5 A 156 GLN GLU LYS ALA ARG ILE GLU ALA ARG ILE ASP SER LEU SEQRES 6 A 156 GLU ASP ILE LEU SER ARG ALA VAL ILE LEU GLU GLU GLY SEQRES 7 A 156 SER GLY GLU VAL ILE GLY LEU GLY SER VAL VAL GLU LEU SEQRES 8 A 156 GLU ASP PRO LEU SER GLY GLU ARG LEU SER VAL GLN VAL SEQRES 9 A 156 VAL SER PRO ALA GLU ALA ASN VAL LEU ASP THR PRO MET SEQRES 10 A 156 LYS ILE SER ASP ALA SER PRO MET GLY LYS ALA LEU LEU SEQRES 11 A 156 GLY HIS ARG VAL GLY ASP VAL LEU SER LEU ASP THR PRO SEQRES 12 A 156 LYS GLY LYS ARG GLU PHE ARG VAL VAL ALA ILE HIS GLY SEQRES 1 B 156 MET ALA ARG GLU VAL LYS LEU THR LYS ALA GLY TYR GLU SEQRES 2 B 156 ARG LEU MET GLN GLN LEU GLU ARG GLU ARG GLU ARG LEU SEQRES 3 B 156 GLN GLU ALA THR LYS ILE LEU GLN GLU LEU MET GLU SER SEQRES 4 B 156 SER ASP ASP TYR ASP ASP SER GLY LEU GLU ALA ALA LYS SEQRES 5 B 156 GLN GLU LYS ALA ARG ILE GLU ALA ARG ILE ASP SER LEU SEQRES 6 B 156 GLU ASP ILE LEU SER ARG ALA VAL ILE LEU GLU GLU GLY SEQRES 7 B 156 SER GLY GLU VAL ILE GLY LEU GLY SER VAL VAL GLU LEU SEQRES 8 B 156 GLU ASP PRO LEU SER GLY GLU ARG LEU SER VAL GLN VAL SEQRES 9 B 156 VAL SER PRO ALA GLU ALA ASN VAL LEU ASP THR PRO MET SEQRES 10 B 156 LYS ILE SER ASP ALA SER PRO MET GLY LYS ALA LEU LEU SEQRES 11 B 156 GLY HIS ARG VAL GLY ASP VAL LEU SER LEU ASP THR PRO SEQRES 12 B 156 LYS GLY LYS ARG GLU PHE ARG VAL VAL ALA ILE HIS GLY FORMUL 3 HOH *292(H2 O) HELIX 1 1 THR A 8 GLU A 38 1 31 HELIX 2 2 ASP A 45 ARG A 71 1 27 HELIX 3 3 SER A 106 ALA A 110 5 5 HELIX 4 4 SER A 123 LEU A 130 1 8 HELIX 5 5 THR B 8 SER B 39 1 32 HELIX 6 6 ASP B 45 ARG B 71 1 27 HELIX 7 7 SER B 106 ALA B 110 5 5 HELIX 8 8 SER B 123 LEU B 130 1 8 SHEET 1 A 2 VAL A 5 LEU A 7 0 SHEET 2 A 2 ALA A 72 ILE A 74 1 O VAL A 73 N LEU A 7 SHEET 1 B 5 MET A 117 SER A 120 0 SHEET 2 B 5 ARG A 99 VAL A 105 1 N GLN A 103 O MET A 117 SHEET 3 B 5 VAL A 88 GLU A 92 -1 N VAL A 89 O VAL A 102 SHEET 4 B 5 GLY A 145 HIS A 155 -1 O HIS A 155 N VAL A 88 SHEET 5 B 5 VAL A 137 THR A 142 -1 N LEU A 140 O ARG A 147 SHEET 1 C 2 VAL B 5 LEU B 7 0 SHEET 2 C 2 ALA B 72 ILE B 74 1 O VAL B 73 N VAL B 5 SHEET 1 D 5 MET B 117 SER B 120 0 SHEET 2 D 5 ARG B 99 VAL B 105 1 N GLN B 103 O MET B 117 SHEET 3 D 5 VAL B 88 GLU B 92 -1 N VAL B 89 O VAL B 102 SHEET 4 D 5 GLY B 145 HIS B 155 -1 O ALA B 153 N GLU B 90 SHEET 5 D 5 VAL B 137 THR B 142 -1 N LEU B 140 O ARG B 147 CISPEP 1 THR A 115 PRO A 116 0 -0.14 CISPEP 2 THR B 115 PRO B 116 0 0.04 CRYST1 28.412 152.662 32.375 90.00 102.65 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 0.035196 0.000000 0.007897 0.00000 SCALE2 0.000000 0.006550 0.000000 0.00000 SCALE3 0.000000 0.000000 0.031656 0.00000