HEADER TRANSCRIPTIONAL REPRESSOR 23-DEC-05 2CAX TITLE STRUCTURAL BASIS FOR COOPERATIVE BINDING OF RIBBON-HELIX-HELIX TITLE 2 REPRESSOR OMEGA TO MUTATED DIRECT DNA HEPTAD REPEATS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ORF OMEGA; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: RIBBON-HELIX-HELIX DOMAIN, RESIDUES 20-71; COMPND 5 SYNONYM: ORF OMEGA TRANSCRIPTIONAL REPRESSOR; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: 19 N-TERMINAL RESIDUES DELETED, NEW N- TERMINAL COMPND 8 RESIDUE MET19 IS A CLONING ARTEFACT; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: 5'-D(*GP*AP*AP*TP*CP*AP*CP*AP*AP*AP *TP*CP*AP*CP*AP*AP*G)- COMPND 11 3'; COMPND 12 CHAIN: G; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: 5'-D(*TP*TP*GP*TP*GP*AP*TP*TP*TP*GP *TP*GP*AP*TP*TP*CP*G)- COMPND 16 3'; COMPND 17 CHAIN: H; COMPND 18 ENGINEERED: YES; COMPND 19 OTHER_DETAILS: 17 BASE-PAIRS AND G, C OVERHANGS, COMPLEMENTARY STRAND COMPND 20 TO FIRST STRAND; COMPND 21 MOL_ID: 4; COMPND 22 MOLECULE: 5'-D(*GP*AP*AP*TP*CP*AP*CP*AP*AP*GP COMPND 23 *TP*CP*AP*CP*AP*AP*GP*C)-3'; COMPND 24 CHAIN: U; COMPND 25 ENGINEERED: YES; COMPND 26 MOL_ID: 5; COMPND 27 MOLECULE: 5'-D(*CP*TP*TP*GP*TP*GP*AP*CP*TP*TP COMPND 28 *GP*TP*GP*AP*TP*TP*CP*G)-3'; COMPND 29 CHAIN: Y; COMPND 30 ENGINEERED: YES; COMPND 31 OTHER_DETAILS: 18 BASE-PAIRS WITH G, C OVERHANGS. COGNATE HEPTAD COMPND 32 D(AATCACA) FOLLOWED BY MUTATED HEPTAD D(AGTCACA) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PYOGENES; SOURCE 3 ORGANISM_TAXID: 1314; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A-DELTA19OMEGA; SOURCE 9 OTHER_DETAILS: OMEGA TRANSCRIPTIONAL REPRSSSOR IS ENCODED BY PLASMID SOURCE 10 PSM19035 OF THE INC18 FAMILY OF PLASMIDS.; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 16 ORGANISM_TAXID: 32630; SOURCE 17 OTHER_DETAILS: IN INC18 FAMILY PLASMIDS, DIRECT REPEATS OCCUR IN SOURCE 18 PROMOTER REGIONS PRECEDING GENES CONTROLLED BY OMEGA TRANSCRIPTIONAL SOURCE 19 REPRESSOR; SOURCE 20 MOL_ID: 4; SOURCE 21 SYNTHETIC: YES; SOURCE 22 MOL_ID: 5; SOURCE 23 SYNTHETIC: YES; SOURCE 24 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 25 ORGANISM_TAXID: 32630; SOURCE 26 OTHER_DETAILS: IN INC18 FAMILY PLASMIDS, DIRECT REPEATS OCCUR IN SOURCE 27 PROMOTER REGIONS PRECEDING GENES CONTROLLED BY OMEGA TRANSCRIPTIONAL SOURCE 28 REPRESSOR KEYWDS TRANSCRIPTIONAL REPRESSOR, INC18 FAMILY OF PLASMIDS, RHH, METJ/ARC KEYWDS 2 SUPERFAMILY, COOPERATIVE DNA BINDING, DNA HEPTAD 5'- A/T ATCAC A/T - KEYWDS 3 3', PLASMID MAINTENANCE, DNA- BINDING, REGULATORY PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR W.A.WEIHOFEN,A.CICEK,F.PRATTO,J.C.ALONSO,W.SAENGER REVDAT 4 29-JUL-20 2CAX 1 SOURCE REVDAT 3 13-JUL-11 2CAX 1 VERSN REVDAT 2 24-FEB-09 2CAX 1 VERSN REVDAT 1 15-MAR-06 2CAX 0 JRNL AUTH W.A.WEIHOFEN,A.CICEK,F.PRATTO,J.C.ALONSO,W.SAENGER JRNL TITL STRUCTURES OF OMEGA REPRESSORS BOUND TO DIRECT AND INVERTED JRNL TITL 2 DNA REPEATS EXPLAIN MODULATION OF TRANSCRIPTION. JRNL REF NUCLEIC ACIDS RES. V. 34 1450 2006 JRNL REFN ISSN 0305-1048 JRNL PMID 16528102 JRNL DOI 10.1093/NAR/GKL015 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 88.6 REMARK 3 NUMBER OF REFLECTIONS : 13145 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.100 REMARK 3 FREE R VALUE TEST SET COUNT : 999 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 758 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 51 REMARK 3 BIN FREE R VALUE : 0.3200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1643 REMARK 3 NUCLEIC ACID ATOMS : 1440 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 42 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.52000 REMARK 3 B22 (A**2) : 0.13000 REMARK 3 B33 (A**2) : 1.42000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.14000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.430 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.372 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.241 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 20.726 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.921 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.876 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3271 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2288 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4697 ; 1.454 ; 2.524 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5466 ; 0.766 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 199 ; 6.860 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 75 ;33.893 ;24.667 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 359 ;17.889 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;20.856 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 530 ; 0.056 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2511 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 431 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 745 ; 0.205 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2605 ; 0.211 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1412 ; 0.209 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1472 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 115 ; 0.174 ; 0.200 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): 30 ; 0.191 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 62 ; 0.215 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.225 ; 0.200 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): 1312 ; 0.747 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1625 ; 0.844 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3125 ; 1.134 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3072 ; 1.948 ; 4.500 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 24 A 69 REMARK 3 ORIGIN FOR THE GROUP (A): 49.0000 33.8910 10.6580 REMARK 3 T TENSOR REMARK 3 T11: -0.0541 T22: -0.0635 REMARK 3 T33: -0.1304 T12: 0.0812 REMARK 3 T13: 0.0277 T23: 0.0522 REMARK 3 L TENSOR REMARK 3 L11: 1.6180 L22: 1.6558 REMARK 3 L33: 2.9172 L12: 1.2948 REMARK 3 L13: -1.0591 L23: -0.0465 REMARK 3 S TENSOR REMARK 3 S11: 0.0638 S12: 0.1663 S13: 0.1609 REMARK 3 S21: 0.1491 S22: 0.0838 S23: 0.3653 REMARK 3 S31: -0.3841 S32: -0.2491 S33: -0.1476 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 24 B 69 REMARK 3 ORIGIN FOR THE GROUP (A): 55.3590 35.3250 9.4530 REMARK 3 T TENSOR REMARK 3 T11: -0.0838 T22: -0.1259 REMARK 3 T33: -0.1019 T12: 0.0307 REMARK 3 T13: 0.0018 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 2.5561 L22: 1.5933 REMARK 3 L33: 3.1390 L12: 0.6265 REMARK 3 L13: -1.7468 L23: -1.3584 REMARK 3 S TENSOR REMARK 3 S11: 0.0060 S12: 0.1576 S13: 0.1201 REMARK 3 S21: 0.0887 S22: 0.1663 S23: -0.1024 REMARK 3 S31: -0.2502 S32: 0.2218 S33: -0.1723 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 24 C 69 REMARK 3 ORIGIN FOR THE GROUP (A): 34.0280 19.5140 30.7170 REMARK 3 T TENSOR REMARK 3 T11: 0.0171 T22: -0.1238 REMARK 3 T33: -0.1159 T12: 0.0725 REMARK 3 T13: 0.0342 T23: 0.0131 REMARK 3 L TENSOR REMARK 3 L11: 1.5525 L22: 2.2441 REMARK 3 L33: 3.9739 L12: 1.5194 REMARK 3 L13: -1.1387 L23: -0.9808 REMARK 3 S TENSOR REMARK 3 S11: 0.2541 S12: -0.0047 S13: 0.1994 REMARK 3 S21: 0.4796 S22: -0.0984 S23: -0.0208 REMARK 3 S31: -0.0462 S32: -0.1944 S33: -0.1557 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 25 D 69 REMARK 3 ORIGIN FOR THE GROUP (A): 28.9260 16.1990 30.9100 REMARK 3 T TENSOR REMARK 3 T11: -0.0629 T22: -0.1374 REMARK 3 T33: -0.1857 T12: 0.0127 REMARK 3 T13: -0.0030 T23: 0.0291 REMARK 3 L TENSOR REMARK 3 L11: 2.9692 L22: 6.2442 REMARK 3 L33: 3.9101 L12: 1.3462 REMARK 3 L13: -0.0438 L23: 2.5420 REMARK 3 S TENSOR REMARK 3 S11: 0.3249 S12: 0.1678 S13: -0.0005 REMARK 3 S21: 0.2468 S22: -0.1105 S23: 0.5475 REMARK 3 S31: 0.0116 S32: -0.5643 S33: -0.2144 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : U 1 U 18 REMARK 3 ORIGIN FOR THE GROUP (A): 43.4780 16.6390 15.5850 REMARK 3 T TENSOR REMARK 3 T11: -0.0718 T22: -0.1750 REMARK 3 T33: -0.1864 T12: 0.0728 REMARK 3 T13: -0.0178 T23: -0.0023 REMARK 3 L TENSOR REMARK 3 L11: 10.7343 L22: 2.5820 REMARK 3 L33: 1.9957 L12: 3.2759 REMARK 3 L13: -0.1798 L23: 0.1349 REMARK 3 S TENSOR REMARK 3 S11: -0.0853 S12: 0.1068 S13: -0.3200 REMARK 3 S21: -0.0227 S22: 0.1283 S23: -0.0927 REMARK 3 S31: 0.2012 S32: -0.2023 S33: -0.0431 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : Y 21 Y 38 REMARK 3 ORIGIN FOR THE GROUP (A): 44.8260 16.7550 16.9140 REMARK 3 T TENSOR REMARK 3 T11: -0.0963 T22: -0.1176 REMARK 3 T33: -0.2360 T12: 0.1021 REMARK 3 T13: -0.0479 T23: 0.0065 REMARK 3 L TENSOR REMARK 3 L11: 7.9546 L22: 2.7869 REMARK 3 L33: 1.4578 L12: 2.2490 REMARK 3 L13: -1.3669 L23: -0.0745 REMARK 3 S TENSOR REMARK 3 S11: 0.0999 S12: 0.2619 S13: -0.4555 REMARK 3 S21: -0.0591 S22: -0.0148 S23: -0.1930 REMARK 3 S31: 0.1243 S32: -0.0615 S33: -0.0851 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : G 2 G 18 REMARK 3 ORIGIN FOR THE GROUP (A): 98.6800 29.1030 13.2540 REMARK 3 T TENSOR REMARK 3 T11: -0.6739 T22: 0.5243 REMARK 3 T33: 0.3457 T12: -0.0870 REMARK 3 T13: -0.1352 T23: -0.0890 REMARK 3 L TENSOR REMARK 3 L11: 18.4426 L22: 1.5672 REMARK 3 L33: 1.1929 L12: 3.8411 REMARK 3 L13: -3.2425 L23: -0.7289 REMARK 3 S TENSOR REMARK 3 S11: -0.2888 S12: -0.0367 S13: -0.5378 REMARK 3 S21: 0.0087 S22: 0.2736 S23: -0.0912 REMARK 3 S31: -0.1186 S32: 0.3521 S33: 0.0152 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H 22 H 38 REMARK 3 ORIGIN FOR THE GROUP (A): 96.1600 30.8340 12.9930 REMARK 3 T TENSOR REMARK 3 T11: -0.5539 T22: 0.6549 REMARK 3 T33: 0.5435 T12: -0.1323 REMARK 3 T13: -0.0365 T23: 0.0217 REMARK 3 L TENSOR REMARK 3 L11: 10.7770 L22: 0.1659 REMARK 3 L33: 0.0278 L12: 1.1077 REMARK 3 L13: 0.4145 L23: 0.0675 REMARK 3 S TENSOR REMARK 3 S11: 0.0392 S12: 0.0424 S13: 0.5053 REMARK 3 S21: -0.1405 S22: -0.0595 S23: -0.0431 REMARK 3 S31: 0.1481 S32: 0.3985 S33: 0.0203 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2CAX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-DEC-05. REMARK 100 THE DEPOSITION ID IS D_1290026923. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14144 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.6 REMARK 200 DATA REDUNDANCY : 2.600 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 68.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.37000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: STRUCTURE IS ISOMORPHOUS TO PDB ENTRY 2BNW REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 150 MM NA/KPO4, PH 7.0, 2.4 M REMARK 280 NA2MALONATE, PH 7.5, 2% AMINOCAPROIC ACID, PH 7.50 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 109.97850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.32750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 109.97850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.32750 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 300 REMARK: THE DESIGNATION OF THE QUATERNARY STRUCTURE REMARK 300 AS OCTAMERICREFLECTS THE STANDARD PQS CONVENTION FOR REMARK 300 DESCRIBINGHETEROGENEOUS ASSEMBLIES. HOWEVER, THE REMARK 300 CRYSTALLOGRAPHICASYMMETRIC UNIT ACTUALLY CONTAINS ONE REMARK 300 DNA FRAGMENT(COMPRISED OF CHAINS E AND F) WHICH REMARK 300 IS BOUND TO TWOPROTEIN DIMERS (CHAINS A, B, C REMARK 300 AND D). A FURTHER FREEDNA FRAGMENT (CHAINS G REMARK 300 AND H) IS PRESENT IN THE A.U.THE INTERFACE REMARK 300 BETWEEN THE TWO PROTEIN DIMERS AND DNAIS 1600 REMARK 300 ANGSTROMS**2 AND THE INTERFACE BETWEEN THETWO REMARK 300 PROTEIN DIMERS IS 280 ANGSTROMS**2. THE REMARK 300 INTERFACEBETWEEN THE PROTEIN DIMER (CHAIN A, B OR REMARK 300 CHAINS C, D)IS 1809 ANGSTROMS**2. 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, G, H, U, Y 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 B 19 REMARK 465 ALA B 20 REMARK 465 LYS B 21 REMARK 465 MET D 19 REMARK 465 ALA D 20 REMARK 465 LYS D 21 REMARK 465 LYS D 22 REMARK 465 ASP D 23 REMARK 465 ILE D 24 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 OP2 DT U 11 O HOH U 2006 2.09 REMARK 500 OP2 DT Y 30 O HOH Y 2008 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 DG G 2 P DG G 2 OP3 -0.118 REMARK 500 DG U 1 P DG U 1 OP3 -0.110 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 DG G 2 C1' - O4' - C4' ANGL. DEV. = -6.9 DEGREES REMARK 500 DG G 2 C3' - C2' - C1' ANGL. DEV. = -5.7 DEGREES REMARK 500 DG G 2 O4' - C1' - N9 ANGL. DEV. = 6.7 DEGREES REMARK 500 DT G 5 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC G 6 O3' - P - O5' ANGL. DEV. = 20.2 DEGREES REMARK 500 DC G 6 O3' - P - OP2 ANGL. DEV. = -25.6 DEGREES REMARK 500 DC G 6 O3' - P - OP1 ANGL. DEV. = -25.5 DEGREES REMARK 500 DC G 6 OP1 - P - OP2 ANGL. DEV. = 22.5 DEGREES REMARK 500 DC G 6 O5' - P - OP1 ANGL. DEV. = -23.1 DEGREES REMARK 500 DC G 6 O5' - P - OP2 ANGL. DEV. = -22.4 DEGREES REMARK 500 DC G 6 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DA G 7 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC G 8 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DA G 10 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DA G 11 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DG H 26 O4' - C1' - N9 ANGL. DEV. = 1.8 DEGREES REMARK 500 DA H 27 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DA U 6 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DA U 8 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DA U 13 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DG U 17 O4' - C1' - N9 ANGL. DEV. = 2.9 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 LEU A 67 43.19 -148.55 REMARK 500 ASP B 23 43.06 -88.82 REMARK 500 ASP D 69 -50.47 -22.50 REMARK 500 LYS D 70 78.92 -68.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1IRQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF OMEGA TRANSCRIPTIONAL REPRESSOR AT1.5A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 2BNW RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR COOPERATIVE BINDING OF RIBBON-HELIX-HELIX REMARK 900 OMEGA REPRESSOR TO DIRECT DNA HEPTAD REPEATS REMARK 900 RELATED ID: 2BNZ RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR COOPERATIVE BINDING OF RIBBON-HELIX-HELIX REMARK 900 OMEGA REPRESSOR TO INVERTED DNA HEPTAD REPEATS REMARK 999 REMARK 999 SEQUENCE REMARK 999 19 N-TERMINAL RESIDUES TRUNCATED, NEW MET19 IS A CLONING REMARK 999 ARTIFACT DBREF 2CAX A 20 71 UNP Q57468 Q57468_STRPY 20 71 DBREF 2CAX B 20 71 UNP Q57468 Q57468_STRPY 20 71 DBREF 2CAX C 20 71 UNP Q57468 Q57468_STRPY 20 71 DBREF 2CAX D 20 71 UNP Q57468 Q57468_STRPY 20 71 DBREF 2CAX G 2 18 PDB 2CAX 2CAX 2 18 DBREF 2CAX H 22 38 PDB 2CAX 2CAX 22 38 DBREF 2CAX U 1 18 PDB 2CAX 2CAX 1 18 DBREF 2CAX Y 21 38 PDB 2CAX 2CAX 21 38 SEQADV 2CAX MET A 19 UNP Q57468 EXPRESSION TAG SEQADV 2CAX MET B 19 UNP Q57468 EXPRESSION TAG SEQADV 2CAX MET C 19 UNP Q57468 EXPRESSION TAG SEQADV 2CAX MET D 19 UNP Q57468 EXPRESSION TAG SEQRES 1 A 53 MET ALA LYS LYS ASP ILE MET GLY ASP LYS THR VAL ARG SEQRES 2 A 53 VAL ARG ALA ASP LEU HIS HIS ILE ILE LYS ILE GLU THR SEQRES 3 A 53 ALA LYS ASN GLY GLY ASN VAL LYS GLU VAL MET ASP GLN SEQRES 4 A 53 ALA LEU GLU GLU TYR ILE ARG LYS TYR LEU PRO ASP LYS SEQRES 5 A 53 LEU SEQRES 1 B 53 MET ALA LYS LYS ASP ILE MET GLY ASP LYS THR VAL ARG SEQRES 2 B 53 VAL ARG ALA ASP LEU HIS HIS ILE ILE LYS ILE GLU THR SEQRES 3 B 53 ALA LYS ASN GLY GLY ASN VAL LYS GLU VAL MET ASP GLN SEQRES 4 B 53 ALA LEU GLU GLU TYR ILE ARG LYS TYR LEU PRO ASP LYS SEQRES 5 B 53 LEU SEQRES 1 C 53 MET ALA LYS LYS ASP ILE MET GLY ASP LYS THR VAL ARG SEQRES 2 C 53 VAL ARG ALA ASP LEU HIS HIS ILE ILE LYS ILE GLU THR SEQRES 3 C 53 ALA LYS ASN GLY GLY ASN VAL LYS GLU VAL MET ASP GLN SEQRES 4 C 53 ALA LEU GLU GLU TYR ILE ARG LYS TYR LEU PRO ASP LYS SEQRES 5 C 53 LEU SEQRES 1 D 53 MET ALA LYS LYS ASP ILE MET GLY ASP LYS THR VAL ARG SEQRES 2 D 53 VAL ARG ALA ASP LEU HIS HIS ILE ILE LYS ILE GLU THR SEQRES 3 D 53 ALA LYS ASN GLY GLY ASN VAL LYS GLU VAL MET ASP GLN SEQRES 4 D 53 ALA LEU GLU GLU TYR ILE ARG LYS TYR LEU PRO ASP LYS SEQRES 5 D 53 LEU SEQRES 1 G 17 DG DA DA DT DC DA DC DA DA DA DT DC DA SEQRES 2 G 17 DC DA DA DG SEQRES 1 H 17 DT DT DG DT DG DA DT DT DT DG DT DG DA SEQRES 2 H 17 DT DT DC DG SEQRES 1 U 18 DG DA DA DT DC DA DC DA DA DG DT DC DA SEQRES 2 U 18 DC DA DA DG DC SEQRES 1 Y 18 DC DT DT DG DT DG DA DC DT DT DG DT DG SEQRES 2 Y 18 DA DT DT DC DG FORMUL 9 HOH *42(H2 O) HELIX 1 1 MET A 19 ILE A 24 1 6 HELIX 2 2 ALA A 34 GLY A 48 1 15 HELIX 3 3 ASN A 50 LEU A 67 1 18 HELIX 4 4 PRO A 68 LEU A 71 5 4 HELIX 5 5 ALA B 34 GLY B 48 1 15 HELIX 6 6 ASN B 50 LEU B 67 1 18 HELIX 7 7 PRO B 68 LEU B 71 5 4 HELIX 8 8 MET C 19 MET C 25 1 7 HELIX 9 9 ALA C 34 ASN C 47 1 14 HELIX 10 10 ASN C 50 LEU C 67 1 18 HELIX 11 11 PRO C 68 LEU C 71 5 4 HELIX 12 12 ALA D 34 ASN D 47 1 14 HELIX 13 13 ASN D 50 LEU D 67 1 18 SHEET 1 AA 2 ASP A 27 ARG A 33 0 SHEET 2 AA 2 ASP B 27 ARG B 33 -1 O LYS B 28 N VAL A 32 SHEET 1 CA 2 ASP C 27 ARG C 33 0 SHEET 2 CA 2 ASP D 27 ARG D 33 -1 O LYS D 28 N VAL C 32 CRYST1 219.957 44.655 76.136 90.00 109.26 90.00 C 1 2 1 16 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 0.004546 0.000000 0.001589 0.00000 SCALE2 0.000000 0.022394 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013913 0.00000 MTRIX1 1 -0.833550 -0.474750 0.282510 109.31153 1 MTRIX2 1 -0.496300 0.418890 -0.760410 53.77659 1 MTRIX3 1 -0.496300 0.418890 -0.760410 30.05986 1 MTRIX1 2 -0.811630 -0.496000 -0.308610 95.90993 1 MTRIX2 2 -0.561130 0.515070 0.647940 23.00034 1 MTRIX3 2 -0.162430 0.699060 -0.696370 23.84766 1 MTRIX1 3 0.906510 0.362420 -0.216560 23.70254 1 MTRIX2 3 0.262750 -0.082790 0.961300 -1.66232 1 MTRIX3 3 0.330470 -0.928330 -0.170280 21.63968 1