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 5 21-FEB-24 3CLC 1 REMARK SEQADV 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 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) : 2.80 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) (%) : 100.0 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 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3355 ; 2.159 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3365 ; 3.388 ; 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 : 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 DEPOSITION ID IS D_1000046915. 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, XDS 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: A, B, C, D, E, F 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 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