HEADER GENE REGULATION 02-DEC-14 4X4B TITLE RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.ESP1396I: DOSE (DWD) TITLE 2 2.1 MGY COMPND MOL_ID: 1; COMPND 2 MOLECULE: REGULATORY PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: CONTROLLER PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 35-MER DNA; COMPND 8 CHAIN: E; COMPND 9 FRAGMENT: OPERATOR DNA; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: 35-MER DNA; COMPND 13 CHAIN: F; COMPND 14 FRAGMENT: OPERATOR DNA; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTER SP. RFL1396; SOURCE 3 ORGANISM_TAXID: 211595; SOURCE 4 GENE: ESP1396IC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: GOLD; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET23; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630; SOURCE 14 OTHER_DETAILS: CHEMICALLY SYNTHESISED DNA; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630; SOURCE 19 OTHER_DETAILS: CHEMICALLY SYNTHESISED DNA KEYWDS PROTEIN-DNA COMPLEX, RADIATION DAMAGE, GENE REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR C.S.BURY,J.E.MCGEEHAN,E.F.GARMAN REVDAT 3 10-JAN-24 4X4B 1 REMARK REVDAT 2 13-SEP-17 4X4B 1 REMARK REVDAT 1 11-MAR-15 4X4B 0 JRNL AUTH C.BURY,E.F.GARMAN,H.M.GINN,R.B.RAVELLI,I.CARMICHAEL, JRNL AUTH 2 G.KNEALE,J.E.MCGEEHAN JRNL TITL RADIATION DAMAGE TO NUCLEOPROTEIN COMPLEXES IN JRNL TITL 2 MACROMOLECULAR CRYSTALLOGRAPHY. JRNL REF J.SYNCHROTRON RADIAT. V. 22 213 2015 JRNL REFN ESSN 1600-5775 JRNL PMID 25723923 JRNL DOI 10.1107/S1600577514026289 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.E.MCGEEHAN,S.D.STREETER,S.J.THRESH,N.BALL,R.B.G.RAVELLI, REMARK 1 AUTH 2 G.G.KNEALE REMARK 1 TITL STRUCTURAL ANALYSIS OF THE GENETIC SWITCH THAT REGULATES THE REMARK 1 TITL 2 EXPRESSION OF RESTRICTION-MODIFICATION GENES REMARK 1 REF NUCLEIC ACIDS RES. V. 36 4778 2008 REMARK 1 REFN ISSN 0305-1048 REMARK 1 PMID 18644840 REMARK 1 DOI 10.1093/NAR/GKN448 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.420 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 21068 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1072 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.0281 - 5.5591 0.99 2517 129 0.1561 0.1522 REMARK 3 2 5.5591 - 4.4307 1.00 2528 130 0.1664 0.2323 REMARK 3 3 4.4307 - 3.8760 1.00 2461 153 0.1850 0.2703 REMARK 3 4 3.8760 - 3.5241 1.00 2504 132 0.2166 0.3365 REMARK 3 5 3.5241 - 3.2729 1.00 2501 125 0.2359 0.2529 REMARK 3 6 3.2729 - 3.0808 1.00 2529 106 0.2528 0.3169 REMARK 3 7 3.0808 - 2.9271 1.00 2468 157 0.2969 0.3655 REMARK 3 8 2.9271 - 2.8000 1.00 2488 140 0.3389 0.4168 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.460 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.270 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 55.92 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 4120 REMARK 3 ANGLE : 1.338 5823 REMARK 3 CHIRALITY : 0.062 680 REMARK 3 PLANARITY : 0.005 474 REMARK 3 DIHEDRAL : 25.257 1686 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 2:77) REMARK 3 ORIGIN FOR THE GROUP (A): -16.2496 23.0336 -5.5475 REMARK 3 T TENSOR REMARK 3 T11: -0.2638 T22: 0.7102 REMARK 3 T33: 0.3745 T12: -0.3077 REMARK 3 T13: -0.1168 T23: -0.2306 REMARK 3 L TENSOR REMARK 3 L11: 0.0927 L22: 0.2011 REMARK 3 L33: 0.0731 L12: -0.0932 REMARK 3 L13: 0.0678 L23: -0.1011 REMARK 3 S TENSOR REMARK 3 S11: -0.3827 S12: 0.2067 S13: -0.1859 REMARK 3 S21: 0.1380 S22: 0.3834 S23: -0.5221 REMARK 3 S31: 0.0354 S32: 0.0233 S33: -0.0589 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN B AND RESSEQ 2:78) REMARK 3 ORIGIN FOR THE GROUP (A): -34.2542 23.2155 -16.3440 REMARK 3 T TENSOR REMARK 3 T11: 0.1470 T22: 0.5508 REMARK 3 T33: 0.3411 T12: -0.0998 REMARK 3 T13: 0.0010 T23: -0.0027 REMARK 3 L TENSOR REMARK 3 L11: 0.1067 L22: 0.1113 REMARK 3 L33: 0.1820 L12: -0.0435 REMARK 3 L13: 0.1048 L23: 0.0210 REMARK 3 S TENSOR REMARK 3 S11: -0.0700 S12: 0.1766 S13: -0.0571 REMARK 3 S21: -0.0506 S22: 0.3501 S23: 0.3765 REMARK 3 S31: -0.1832 S32: 0.2963 S33: 0.2725 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 2:78) REMARK 3 ORIGIN FOR THE GROUP (A): -69.9807 23.2310 -6.9145 REMARK 3 T TENSOR REMARK 3 T11: 0.1780 T22: 0.4985 REMARK 3 T33: 0.3622 T12: 0.1045 REMARK 3 T13: 0.0043 T23: 0.0248 REMARK 3 L TENSOR REMARK 3 L11: 0.0699 L22: 0.2559 REMARK 3 L33: 0.1228 L12: 0.0984 REMARK 3 L13: 0.0799 L23: 0.0267 REMARK 3 S TENSOR REMARK 3 S11: -0.0590 S12: -0.2149 S13: -0.0392 REMARK 3 S21: 0.0399 S22: 0.2123 S23: -0.3851 REMARK 3 S31: -0.1222 S32: -0.1554 S33: 0.1451 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN D AND RESSEQ 2:77) REMARK 3 ORIGIN FOR THE GROUP (A): -88.0702 23.1106 -17.6196 REMARK 3 T TENSOR REMARK 3 T11: -0.1089 T22: 0.7518 REMARK 3 T33: 0.3464 T12: 0.2821 REMARK 3 T13: -0.1477 T23: 0.2398 REMARK 3 L TENSOR REMARK 3 L11: 0.0778 L22: 0.2011 REMARK 3 L33: 0.0648 L12: 0.0709 REMARK 3 L13: 0.0629 L23: 0.1030 REMARK 3 S TENSOR REMARK 3 S11: -0.2214 S12: -0.1589 S13: -0.3348 REMARK 3 S21: -0.2302 S22: 0.2485 S23: 0.3808 REMARK 3 S31: -0.0534 S32: -0.0008 S33: -0.0491 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN E AND RESSEQ 1:36) REMARK 3 ORIGIN FOR THE GROUP (A): -52.1475 27.1457 -11.9055 REMARK 3 T TENSOR REMARK 3 T11: 0.2391 T22: 0.8721 REMARK 3 T33: 0.4670 T12: 0.0760 REMARK 3 T13: 0.0005 T23: -0.0353 REMARK 3 L TENSOR REMARK 3 L11: 0.8711 L22: 0.5296 REMARK 3 L33: 0.3335 L12: 0.0222 REMARK 3 L13: -0.2334 L23: -0.3795 REMARK 3 S TENSOR REMARK 3 S11: 0.1963 S12: -0.0549 S13: 0.3663 REMARK 3 S21: -0.0849 S22: 0.2918 S23: -0.1353 REMARK 3 S31: -0.4055 S32: -0.0964 S33: 0.6229 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN F AND RESSEQ 1:36) REMARK 3 ORIGIN FOR THE GROUP (A): -52.1127 27.1443 -11.2024 REMARK 3 T TENSOR REMARK 3 T11: 0.2049 T22: 0.8161 REMARK 3 T33: 0.4742 T12: -0.0687 REMARK 3 T13: 0.0431 T23: 0.0369 REMARK 3 L TENSOR REMARK 3 L11: 0.8978 L22: 0.5300 REMARK 3 L33: 0.4262 L12: -0.0642 REMARK 3 L13: -0.2902 L23: 0.3341 REMARK 3 S TENSOR REMARK 3 S11: 0.2650 S12: 0.0481 S13: 0.3129 REMARK 3 S21: 0.0890 S22: 0.2108 S23: 0.0896 REMARK 3 S31: -0.3711 S32: 0.1484 S33: 0.5729 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 2 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN A REMARK 3 SELECTION : CHAIN B REMARK 3 ATOM PAIRS NUMBER : 1496 REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: CHAIN A REMARK 3 SELECTION : CHAIN C REMARK 3 ATOM PAIRS NUMBER : 1496 REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 3 REMARK 3 REFERENCE SELECTION: CHAIN A REMARK 3 SELECTION : CHAIN D REMARK 3 ATOM PAIRS NUMBER : 1496 REMARK 3 RMSD : NULL REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN E REMARK 3 SELECTION : CHAIN F REMARK 3 ATOM PAIRS NUMBER : 498 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4X4B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1000205045. 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 : 7.5 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.2.8 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21172 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 69.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.0000 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) : 2.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.33000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.500 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: 3CLC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MES, MPD, MGCL2, PH 7.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293.15K 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 92.75333 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 46.37667 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 69.56500 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 23.18833 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 115.94167 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: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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: 13360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -93.0 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: 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 OH TYR C 37 OP2 DA F 13 2.11 REMARK 500 OH TYR B 37 OP2 DG E 13 2.15 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 DA E 10 O3' DA E 10 C3' -0.060 REMARK 500 DA E 32 O3' DA E 32 C3' -0.042 REMARK 500 DA F 10 O3' DA F 10 C3' -0.057 REMARK 500 DA F 25 O3' DA F 25 C3' -0.045 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 DA E 6 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT E 11 C3' - C2' - C1' ANGL. DEV. = -5.5 DEGREES REMARK 500 DT E 11 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG E 13 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DC E 16 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG E 17 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT E 20 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG E 21 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT E 29 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC E 30 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DT F 11 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DT F 11 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DA F 13 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC F 17 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 DT F 26 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DT F 26 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG F 29 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DA F 32 O4' - C1' - N9 ANGL. DEV. = 2.0 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 GLU A 61 74.32 50.50 REMARK 500 LEU A 76 43.13 -85.59 REMARK 500 TYR B 29 -72.01 -68.96 REMARK 500 ASN B 32 49.88 32.71 REMARK 500 SER B 45 42.64 32.45 REMARK 500 LEU C 76 41.70 -79.41 REMARK 500 GLU D 61 71.47 49.89 REMARK 500 LEU D 76 49.22 -91.33 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 E 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG F 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3CLC RELATED DB: PDB REMARK 900 THIS NEW STRUCTURE IS PART OF A SPECIFIC RADIATION DAMAGE STUDY REMARK 900 OVER 8 INCREASING ABSORBED DOSE LEVELS ON THE PROTEIN-DNA COMPLEX REMARK 900 WITH PDB ENTRY 3CLC DBREF 4X4B A 1 79 UNP Q8GGH0 Q8GGH0_9ENTR 1 79 DBREF 4X4B B 1 79 UNP Q8GGH0 Q8GGH0_9ENTR 1 79 DBREF 4X4B C 1 79 UNP Q8GGH0 Q8GGH0_9ENTR 1 79 DBREF 4X4B D 1 79 UNP Q8GGH0 Q8GGH0_9ENTR 1 79 DBREF 4X4B E 1 35 PDB 4X4B 4X4B 1 35 DBREF 4X4B F 1 35 PDB 4X4B 4X4B 1 35 SEQADV 4X4B GLY A -2 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B SER A -1 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B HIS A 0 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B GLY B -2 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B SER B -1 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B HIS B 0 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B GLY C -2 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B SER C -1 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B HIS C 0 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B GLY D -2 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B SER D -1 UNP Q8GGH0 EXPRESSION TAG SEQADV 4X4B 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 101 1 HET MG F 101 1 HETNAM MG MAGNESIUM ION FORMUL 7 MG 2(MG 2+) FORMUL 9 HOH *5(H2 O) HELIX 1 AA1 SER A 3 LYS A 20 1 18 HELIX 2 AA2 THR A 23 ASN A 32 1 10 HELIX 3 AA3 ASP A 34 ARG A 43 1 10 HELIX 4 AA4 THR A 49 GLU A 61 1 13 HELIX 5 AA5 SER A 63 LEU A 76 1 14 HELIX 6 AA6 SER B 3 LYS B 20 1 18 HELIX 7 AA7 THR B 23 SER B 31 1 9 HELIX 8 AA8 ASP B 34 SER B 45 1 12 HELIX 9 AA9 THR B 49 LEU B 60 1 12 HELIX 10 AB1 SER B 63 LEU B 76 1 14 HELIX 11 AB2 SER C 3 LYS C 20 1 18 HELIX 12 AB3 THR C 23 SER C 31 1 9 HELIX 13 AB4 ASP C 34 ASN C 44 1 11 HELIX 14 AB5 THR C 49 LEU C 60 1 12 HELIX 15 AB6 SER C 63 LEU C 76 1 14 HELIX 16 AB7 SER D 3 LYS D 20 1 18 HELIX 17 AB8 THR D 23 ASN D 32 1 10 HELIX 18 AB9 ASP D 34 ARG D 43 1 10 HELIX 19 AC1 THR D 49 LEU D 60 1 12 HELIX 20 AC2 SER D 63 LEU D 76 1 14 SITE 1 AC1 3 TYR D 37 DG E 28 DT E 29 SITE 1 AC2 3 TYR A 37 DA F 28 DG F 29 CRYST1 104.310 104.310 139.130 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 0.009587 0.005535 0.000000 0.00000 SCALE2 0.000000 0.011070 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007188 0.00000 MASTER 468 0 2 20 0 0 2 6 3932 6 0 34 END