HEADER TRANSCRIPTION REGULATOR/DNA 18-MAR-08 3CLC TITLE CRYSTAL STRUCTURE OF THE RESTRICTION-MODIFICATION CONTROLLER PROTEIN TITLE 2 C.ESP1396I TETRAMER IN COMPLEX WITH ITS NATURAL 35 BASE-PAIR OPERATOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: REGULATORY PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 35-MER; COMPND 7 CHAIN: E; COMPND 8 ENGINEERED: YES; COMPND 9 OTHER_DETAILS: OPERATOR DNA; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: 35-MER; COMPND 12 CHAIN: F; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: OPERATOR DNA SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTER SP.; SOURCE 3 STRAIN: RFL1396; SOURCE 4 GENE: ESP1396IC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)GOLD; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET23; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 OTHER_DETAILS: CHEMICALLY SYNTHESISED DNA; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 OTHER_DETAILS: CHEMICALLY SYNTHESISED DNA KEYWDS PROTEIN-DNA COMPLEX, TRANSCRIPTIONAL REGULATOR, HELIX-TURN-HELIX, KEYWDS 2 DNA-BENDING, TRANSCRIPTION REGULATOR-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.E.MCGEEHAN,S.D.STREETER,S.J.THRESH,N.BALL,R.B.RAVELLI,G.G.KNEALE REVDAT 4 13-JUL-11 3CLC 1 VERSN REVDAT 3 24-FEB-09 3CLC 1 VERSN REVDAT 2 19-AUG-08 3CLC 1 JRNL REVDAT 1 29-JUL-08 3CLC 0 JRNL AUTH J.E.MCGEEHAN,S.D.STREETER,S.J.THRESH,N.BALL,R.B.RAVELLI, JRNL AUTH 2 G.G.KNEALE JRNL TITL STRUCTURAL ANALYSIS OF THE GENETIC SWITCH THAT REGULATES THE JRNL TITL 2 EXPRESSION OF RESTRICTION-MODIFICATION GENES. JRNL REF NUCLEIC ACIDS RES. V. 36 4778 2008 JRNL REFN ISSN 0305-1048 JRNL PMID 18644840 JRNL DOI 10.1093/NAR/GKN448 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 21157 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) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1086 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1451 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.3650 REMARK 3 BIN FREE R VALUE SET COUNT : 80 REMARK 3 BIN FREE R VALUE : 0.3970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2496 REMARK 3 NUCLEIC ACID ATOMS : 1429 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 4 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 63.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 94.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.23000 REMARK 3 B22 (A**2) : -0.23000 REMARK 3 B33 (A**2) : 0.34000 REMARK 3 B12 (A**2) : -0.11000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.567 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.302 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.254 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 28.854 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4140 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5853 ; 1.328 ; 2.424 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 307 ; 8.556 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 102 ;38.065 ;24.314 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 569 ;24.805 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;17.410 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 683 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2471 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1997 ; 0.295 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2717 ; 0.338 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 139 ; 0.243 ; 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): 37 ; 0.341 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 1 ; 0.034 ; 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): 1569 ; 1.117 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2488 ; 1.689 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3355 ; 2.159 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3365 ; 3.388 ; 4.500 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 : 3 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 2 A 77 1 REMARK 3 1 D 2 D 77 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 631 ; 0.100 ; 0.050 REMARK 3 TIGHT THERMAL 1 A (A**2): 631 ; 0.090 ; 0.500 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : B C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 2 B 77 1 REMARK 3 1 C 2 C 77 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 2 B (A): 612 ; 0.070 ; 0.050 REMARK 3 TIGHT THERMAL 2 B (A**2): 612 ; 0.090 ; 0.500 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : E F REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 E 1 E 35 1 REMARK 3 1 F 1 F 35 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 3 E (A): 407 ; 0.050 ; 0.050 REMARK 3 TIGHT THERMAL 3 E (A**2): 407 ; 0.170 ; 0.500 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 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 2 A 77 REMARK 3 ORIGIN FOR THE GROUP (A): 88.2000 -23.0800 -17.3500 REMARK 3 T TENSOR REMARK 3 T11: -0.7747 T22: -0.3736 REMARK 3 T33: -0.6013 T12: 0.1359 REMARK 3 T13: 0.0063 T23: -0.1625 REMARK 3 L TENSOR REMARK 3 L11: 9.9884 L22: 3.9005 REMARK 3 L33: 8.6104 L12: -1.2002 REMARK 3 L13: -4.6388 L23: 1.7293 REMARK 3 S TENSOR REMARK 3 S11: -0.4424 S12: -0.0439 S13: 0.2709 REMARK 3 S21: -0.3556 S22: 0.4805 S23: -1.0489 REMARK 3 S31: -0.0652 S32: 0.3086 S33: -0.0381 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 2 B 77 REMARK 3 ORIGIN FOR THE GROUP (A): 70.1100 -23.2400 -6.6500 REMARK 3 T TENSOR REMARK 3 T11: -0.8282 T22: -0.5098 REMARK 3 T33: -0.7326 T12: 0.1164 REMARK 3 T13: -0.0025 T23: 0.0106 REMARK 3 L TENSOR REMARK 3 L11: 14.1563 L22: 6.4467 REMARK 3 L33: 6.6921 L12: 1.5203 REMARK 3 L13: -3.1516 L23: 0.2044 REMARK 3 S TENSOR REMARK 3 S11: -0.0758 S12: -0.4616 S13: 0.0824 REMARK 3 S21: 0.4230 S22: 0.5113 S23: 0.7498 REMARK 3 S31: 0.2764 S32: -0.1314 S33: -0.4355 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 2 C 77 REMARK 3 ORIGIN FOR THE GROUP (A): 34.4800 -23.1700 -15.8500 REMARK 3 T TENSOR REMARK 3 T11: -0.8544 T22: -0.5720 REMARK 3 T33: -0.7436 T12: -0.1148 REMARK 3 T13: 0.0059 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 13.3995 L22: 7.0366 REMARK 3 L33: 7.6958 L12: -1.9818 REMARK 3 L13: -2.8352 L23: -0.4187 REMARK 3 S TENSOR REMARK 3 S11: -0.0433 S12: 0.4648 S13: 0.0481 REMARK 3 S21: -0.3761 S22: 0.4001 S23: -0.7862 REMARK 3 S31: 0.2168 S32: 0.1313 S33: -0.3568 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 2 D 77 REMARK 3 ORIGIN FOR THE GROUP (A): 16.3100 -23.1200 -5.2400 REMARK 3 T TENSOR REMARK 3 T11: -0.7818 T22: -0.4142 REMARK 3 T33: -0.6195 T12: -0.1021 REMARK 3 T13: 0.0095 T23: 0.1460 REMARK 3 L TENSOR REMARK 3 L11: 8.9379 L22: 4.2048 REMARK 3 L33: 7.8300 L12: 1.4168 REMARK 3 L13: -3.9758 L23: -1.5738 REMARK 3 S TENSOR REMARK 3 S11: -0.3411 S12: 0.1028 S13: 0.1903 REMARK 3 S21: 0.3924 S22: 0.4542 S23: 0.9762 REMARK 3 S31: -0.1293 S32: -0.2138 S33: -0.1131 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 : E 1 E 35 REMARK 3 ORIGIN FOR THE GROUP (A): 52.2800 -27.1900 -10.9500 REMARK 3 T TENSOR REMARK 3 T11: -0.5913 T22: -0.4744 REMARK 3 T33: -0.6174 T12: -0.0089 REMARK 3 T13: -0.1301 T23: 0.0163 REMARK 3 L TENSOR REMARK 3 L11: 19.5205 L22: 0.9151 REMARK 3 L33: 2.8939 L12: -0.8443 REMARK 3 L13: -6.7336 L23: 0.5073 REMARK 3 S TENSOR REMARK 3 S11: -0.0226 S12: 0.1818 S13: -1.0592 REMARK 3 S21: 0.0427 S22: 0.1205 S23: 0.0286 REMARK 3 S31: 0.3429 S32: -0.1536 S33: -0.0979 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 : F 1 F 35 REMARK 3 ORIGIN FOR THE GROUP (A): 52.2400 -27.1800 -11.6400 REMARK 3 T TENSOR REMARK 3 T11: -0.6411 T22: -0.4333 REMARK 3 T33: -0.6494 T12: 0.0341 REMARK 3 T13: -0.1705 T23: -0.0122 REMARK 3 L TENSOR REMARK 3 L11: 18.6908 L22: 1.1808 REMARK 3 L33: 2.4460 L12: 1.1349 REMARK 3 L13: -6.0465 L23: -0.6332 REMARK 3 S TENSOR REMARK 3 S11: -0.0076 S12: -0.1834 S13: -1.1598 REMARK 3 S21: -0.0440 S22: 0.0673 S23: -0.0412 REMARK 3 S31: 0.3074 S32: 0.2280 S33: -0.0597 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 3CLC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-MAR-08. REMARK 100 THE RCSB ID CODE IS RCSB046915. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-SEP-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 : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9322 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21198 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.6600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.39300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.800 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM MES, 40 MM MGCL2, 25% MPD, PH REMARK 280 6.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 92.86000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 46.43000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 69.64500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 23.21500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 116.07500 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 BIOLOGICAL UNIT IS THE SAME AS THE ASYMMETRIC UNIT. REMARK 300 THERE ARE TWO ORIENTATIONS OF THE NUCLEOPROTEIN COMPLEX IN THE REMARK 300 CRYSTAL RELATED BY A 2-FOLD AXIS PARALLEL TO THE CRYSTALLOGRAPHIC B REMARK 300 -AXIS 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: 13080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -75.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F, A, B, 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 A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 HIS A 78 REMARK 465 ASP A 79 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ASP B 79 REMARK 465 GLY C -2 REMARK 465 SER C -1 REMARK 465 HIS C 0 REMARK 465 MET C 1 REMARK 465 ASP C 79 REMARK 465 GLY D -2 REMARK 465 SER D -1 REMARK 465 HIS D 0 REMARK 465 MET D 1 REMARK 465 HIS D 78 REMARK 465 ASP D 79 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 E 4 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG E 5 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DT E 11 C3' - C2' - C1' ANGL. DEV. = -6.5 DEGREES REMARK 500 DT E 11 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG E 13 O4' - C1' - N9 ANGL. DEV. = 6.3 DEGREES REMARK 500 DC E 15 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DC E 16 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DT E 20 C3' - C2' - C1' ANGL. DEV. = -6.7 DEGREES REMARK 500 DT E 20 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 DT E 20 C3' - O3' - P ANGL. DEV. = 10.5 DEGREES REMARK 500 DT E 26 C3' - C2' - C1' ANGL. DEV. = -6.0 DEGREES REMARK 500 DG E 28 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DT E 29 C1' - O4' - C4' ANGL. DEV. = -9.6 DEGREES REMARK 500 DT E 29 O4' - C1' - N1 ANGL. DEV. = 7.5 DEGREES REMARK 500 DA E 31 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DC E 33 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DT E 35 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT F 4 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DT F 5 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DG F 6 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA F 7 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DT F 11 C3' - C2' - C1' ANGL. DEV. = -7.2 DEGREES REMARK 500 DT F 11 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DA F 13 O4' - C1' - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 DC F 15 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DA F 16 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC F 17 C1' - O4' - C4' ANGL. DEV. = -6.1 DEGREES REMARK 500 DC F 17 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA F 18 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG F 20 C3' - O3' - P ANGL. DEV. = 8.1 DEGREES REMARK 500 DT F 26 C3' - C2' - C1' ANGL. DEV. = -5.7 DEGREES REMARK 500 DA F 28 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 DT F 30 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC F 31 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 DT F 35 O4' - C1' - N1 ANGL. DEV. = 2.1 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 ARG A 43 34.68 -96.44 REMARK 500 ARG B 43 26.01 -76.82 REMARK 500 ASN B 44 24.91 43.27 REMARK 500 ARG C 43 26.43 -76.45 REMARK 500 ASN C 44 22.73 44.69 REMARK 500 ASN D 44 13.10 59.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG D 35 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 LYS B 77 21.0 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG F 36 DBREF 3CLC A 1 79 UNP Q8GGH0 Q8GGH0_9ENTR 1 79 DBREF 3CLC B 1 79 UNP Q8GGH0 Q8GGH0_9ENTR 1 79 DBREF 3CLC C 1 79 UNP Q8GGH0 Q8GGH0_9ENTR 1 79 DBREF 3CLC D 1 79 UNP Q8GGH0 Q8GGH0_9ENTR 1 79 DBREF 3CLC E 1 35 PDB 3CLC 3CLC 1 35 DBREF 3CLC F 1 35 PDB 3CLC 3CLC 1 35 SEQADV 3CLC GLY A -2 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC SER A -1 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC HIS A 0 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC GLY B -2 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC SER B -1 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC HIS B 0 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC GLY C -2 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC SER C -1 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC HIS C 0 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC GLY D -2 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC SER D -1 UNP Q8GGH0 EXPRESSION TAG SEQADV 3CLC HIS D 0 UNP Q8GGH0 EXPRESSION TAG SEQRES 1 A 82 GLY SER HIS MET GLU SER PHE LEU LEU SER LYS VAL SER SEQRES 2 A 82 PHE VAL ILE LYS LYS ILE ARG LEU GLU LYS GLY MET THR SEQRES 3 A 82 GLN GLU ASP LEU ALA TYR LYS SER ASN LEU ASP ARG THR SEQRES 4 A 82 TYR ILE SER GLY ILE GLU ARG ASN SER ARG ASN LEU THR SEQRES 5 A 82 ILE LYS SER LEU GLU LEU ILE MET LYS GLY LEU GLU VAL SEQRES 6 A 82 SER ASP VAL VAL PHE PHE GLU MET LEU ILE LYS GLU ILE SEQRES 7 A 82 LEU LYS HIS ASP SEQRES 1 B 82 GLY SER HIS MET GLU SER PHE LEU LEU SER LYS VAL SER SEQRES 2 B 82 PHE VAL ILE LYS LYS ILE ARG LEU GLU LYS GLY MET THR SEQRES 3 B 82 GLN GLU ASP LEU ALA TYR LYS SER ASN LEU ASP ARG THR SEQRES 4 B 82 TYR ILE SER GLY ILE GLU ARG ASN SER ARG ASN LEU THR SEQRES 5 B 82 ILE LYS SER LEU GLU LEU ILE MET LYS GLY LEU GLU VAL SEQRES 6 B 82 SER ASP VAL VAL PHE PHE GLU MET LEU ILE LYS GLU ILE SEQRES 7 B 82 LEU LYS HIS ASP SEQRES 1 C 82 GLY SER HIS MET GLU SER PHE LEU LEU SER LYS VAL SER SEQRES 2 C 82 PHE VAL ILE LYS LYS ILE ARG LEU GLU LYS GLY MET THR SEQRES 3 C 82 GLN GLU ASP LEU ALA TYR LYS SER ASN LEU ASP ARG THR SEQRES 4 C 82 TYR ILE SER GLY ILE GLU ARG ASN SER ARG ASN LEU THR SEQRES 5 C 82 ILE LYS SER LEU GLU LEU ILE MET LYS GLY LEU GLU VAL SEQRES 6 C 82 SER ASP VAL VAL PHE PHE GLU MET LEU ILE LYS GLU ILE SEQRES 7 C 82 LEU LYS HIS ASP SEQRES 1 D 82 GLY SER HIS MET GLU SER PHE LEU LEU SER LYS VAL SER SEQRES 2 D 82 PHE VAL ILE LYS LYS ILE ARG LEU GLU LYS GLY MET THR SEQRES 3 D 82 GLN GLU ASP LEU ALA TYR LYS SER ASN LEU ASP ARG THR SEQRES 4 D 82 TYR ILE SER GLY ILE GLU ARG ASN SER ARG ASN LEU THR SEQRES 5 D 82 ILE LYS SER LEU GLU LEU ILE MET LYS GLY LEU GLU VAL SEQRES 6 D 82 SER ASP VAL VAL PHE PHE GLU MET LEU ILE LYS GLU ILE SEQRES 7 D 82 LEU LYS HIS ASP SEQRES 1 E 35 DA DT DG DT DG DA DC DT DT DA DT DA DG SEQRES 2 E 35 DT DC DC DG DT DG DT DG DA DT DT DA DT SEQRES 3 E 35 DA DG DT DC DA DA DC DA DT SEQRES 1 F 35 DA DT DG DT DT DG DA DC DT DA DT DA DA SEQRES 2 F 35 DT DC DA DC DA DC DG DG DA DC DT DA DT SEQRES 3 F 35 DA DA DG DT DC DA DC DA DT HET MG E 36 1 HET MG F 36 1 HETNAM MG MAGNESIUM ION FORMUL 7 MG 2(MG 2+) FORMUL 9 HOH *4(H2 O) HELIX 1 1 SER A 3 LYS A 20 1 18 HELIX 2 2 THR A 23 ASN A 32 1 10 HELIX 3 3 ASP A 34 ARG A 43 1 10 HELIX 4 4 THR A 49 GLU A 61 1 13 HELIX 5 5 SER A 63 LEU A 76 1 14 HELIX 6 6 SER B 3 LYS B 20 1 18 HELIX 7 7 THR B 23 SER B 31 1 9 HELIX 8 8 ASP B 34 ARG B 43 1 10 HELIX 9 9 THR B 49 LEU B 60 1 12 HELIX 10 10 SER B 63 LEU B 76 1 14 HELIX 11 11 SER C 3 LYS C 20 1 18 HELIX 12 12 THR C 23 SER C 31 1 9 HELIX 13 13 ASP C 34 ARG C 43 1 10 HELIX 14 14 THR C 49 LEU C 60 1 12 HELIX 15 15 SER C 63 LEU C 76 1 14 HELIX 16 16 SER D 3 LYS D 20 1 18 HELIX 17 17 THR D 23 ASN D 32 1 10 HELIX 18 18 ASP D 34 ARG D 43 1 10 HELIX 19 19 THR D 49 GLU D 61 1 13 HELIX 20 20 SER D 63 LEU D 76 1 14 SITE 1 AC1 1 DC F 15 CRYST1 104.480 104.480 139.290 90.00 90.00 120.00 P 65 24 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 0.009571 0.005526 0.000000 0.00000 SCALE2 0.000000 0.011052 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007179 0.00000 MASTER 528 0 2 20 0 0 1 6 0 0 0 34 END