HEADER DNA BINDING PROTEIN/DNA 20-JUL-23 8TIT TITLE ISORETICULAR, INTERPENETRATING CO-CRYSTAL OF REPLICATION INITIATOR TITLE 2 PROTEIN REPE54 AND SYMMETRICAL EXPANDED DUPLEX (31MER) CONTAINING THE TITLE 3 COGNATE REPE54 SEQUENCE AND AN ADDITIONAL G-C RICH SEQUENCE WITH 2 TITLE 4 STICKY BASE OVERHANGS AND NO TERMINAL PHOSPHATES. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(CP*CP*CP*GP*GP*AP*CP*CP*TP*GP*TP*GP*AP*CP*AP*AP*AP*TP*TP*GP*CP*CP*C COMPND 4 P*TP*CP*AP*GP*AP*CP*GP*G)-3')|; COMPND 5 CHAIN: A; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'- COMPND 9 D(GP*GP*CP*CP*GP*TP*CP*TP*GP*AP*GP*GP*GP*CP*AP*AP*TP*TP*TP*GP*TP*CP*A COMPND 10 P*CP*AP*GP*GP*TP*CP*CP*GP)-3'); COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: REPLICATION INITIATION PROTEIN; COMPND 15 CHAIN: C; COMPND 16 SYNONYM: PROTEIN E,PROTEIN REP,PROTEIN F4; COMPND 17 ENGINEERED: YES; COMPND 18 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 4 ORGANISM_TAXID: 562; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 8 ORGANISM_TAXID: 562; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 11 ORGANISM_TAXID: 83333; SOURCE 12 STRAIN: K-12; SOURCE 13 GENE: REPE, E, REP, ECOK12F045; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS REPLICATION INITIATOR REPE COMPLEX CO-CRYSTAL, DNA BINDING PROTEIN- KEYWDS 2 DNA COMPLEX, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.R.ORUN,E.T.SHIELDS,R.SHRESTHA,C.K.SLAUGHTER,C.D.SNOW REVDAT 1 02-AUG-23 8TIT 0 JRNL AUTH A.R.ORUN,A.VAJAPAYAJULA,S.DMYTRIW,E.T.SHIELDS,C.K.SLAUGHTER, JRNL AUTH 2 R.SHRESTHA,C.D.SNOW JRNL TITL TUNING CHEMICAL DNA LIGATION WITHIN DNA CRYSTALS AND JRNL TITL 2 CO-CRYSTALS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.V.AFONINE,R.W.GROSSE-KUNSTLEVE,N.ECHOLS,J.J.HEADD, REMARK 1 AUTH 2 N.W.MORIARTY,M.MUSTYAKIMOV,T.C.TERWILLIGER,A.URZHUMTSEV, REMARK 1 AUTH 3 P.H.ZWART,P.D.ADAMS REMARK 1 TITL TOWARDS AUTOMATED CRYSTALLOGRAPHIC STRUCTURE REFINEMENT WITH REMARK 1 TITL 2 PHENIX.REFINE. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 68 352 2012 REMARK 1 REFN ESSN 1399-0047 REMARK 1 PMID 22505256 REMARK 1 DOI 10.1107/S0907444912001308 REMARK 1 REFERENCE 2 REMARK 1 AUTH D.LIEBSCHNER,P.V.AFONINE,M.L.BAKER,G.BUNKOCZI,V.B.CHEN, REMARK 1 AUTH 2 T.I.CROLL,B.HINTZE,L.W.HUNG,S.JAIN,A.J.MCCOY,N.W.MORIARTY, REMARK 1 AUTH 3 R.D.OEFFNER,B.K.POON,M.G.PRISANT,R.J.READ,J.S.RICHARDSON, REMARK 1 AUTH 4 D.C.RICHARDSON,M.D.SAMMITO,O.V.SOBOLEV,D.H.STOCKWELL, REMARK 1 AUTH 5 T.C.TERWILLIGER,A.G.URZHUMTSEV,L.L.VIDEAU,C.J.WILLIAMS, REMARK 1 AUTH 6 P.D.ADAMS REMARK 1 TITL MACROMOLECULAR STRUCTURE DETERMINATION USING X-RAYS, REMARK 1 TITL 2 NEUTRONS AND ELECTRONS: RECENT DEVELOPMENTS IN PHENIX. REMARK 1 REF ACTA CRYSTALLOGR D STRUCT V. 75 861 2019 REMARK 1 REF 2 BIOL REMARK 1 REFN ISSN 2059-7983 REMARK 1 PMID 31588918 REMARK 1 DOI 10.1107/S2059798319011471 REMARK 2 REMARK 2 RESOLUTION. 2.84 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.84 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.82 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 16091 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.960 REMARK 3 FREE R VALUE TEST SET COUNT : 1602 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 38.8200 - 6.3100 0.98 1381 156 0.1947 0.2055 REMARK 3 2 6.3100 - 5.0100 1.00 1342 151 0.1855 0.2330 REMARK 3 3 5.0100 - 4.3800 1.00 1328 147 0.1754 0.1994 REMARK 3 4 4.3800 - 3.9800 1.00 1325 144 0.1898 0.2241 REMARK 3 5 3.9800 - 3.6900 1.00 1322 146 0.2024 0.2622 REMARK 3 6 3.6900 - 3.4800 1.00 1304 149 0.2216 0.2460 REMARK 3 7 3.4800 - 3.3000 0.99 1303 135 0.1984 0.2580 REMARK 3 8 3.3000 - 3.1600 0.99 1283 146 0.2310 0.3102 REMARK 3 9 3.1600 - 3.0400 1.00 1306 144 0.3131 0.3555 REMARK 3 10 3.0400 - 2.9300 1.00 1302 140 0.3116 0.3637 REMARK 3 11 2.9300 - 2.8400 1.00 1293 144 0.3058 0.3549 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) : 0.373 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.209 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 78.42 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 91.83 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 : 0.012 3249 REMARK 3 ANGLE : 1.537 4655 REMARK 3 CHIRALITY : 0.090 503 REMARK 3 PLANARITY : 0.014 382 REMARK 3 DIHEDRAL : 28.412 856 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 2:16 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.037 -7.837 1.602 REMARK 3 T TENSOR REMARK 3 T11: 0.7396 T22: 0.7895 REMARK 3 T33: 0.7820 T12: -0.0097 REMARK 3 T13: 0.1305 T23: -0.3312 REMARK 3 L TENSOR REMARK 3 L11: 0.0340 L22: 0.0648 REMARK 3 L33: 0.0082 L12: 0.0556 REMARK 3 L13: 0.0166 L23: -0.0178 REMARK 3 S TENSOR REMARK 3 S11: -0.1033 S12: -0.2920 S13: 0.2836 REMARK 3 S21: 0.0432 S22: 0.0677 S23: -0.0082 REMARK 3 S31: -0.1211 S32: -0.1357 S33: -0.0003 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 17:32 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.155 -39.997 -30.421 REMARK 3 T TENSOR REMARK 3 T11: 1.1854 T22: 1.1992 REMARK 3 T33: 0.8198 T12: 0.0092 REMARK 3 T13: 0.5713 T23: -0.8350 REMARK 3 L TENSOR REMARK 3 L11: 0.0789 L22: 0.0133 REMARK 3 L33: 0.0368 L12: -0.0249 REMARK 3 L13: -0.0342 L23: 0.0177 REMARK 3 S TENSOR REMARK 3 S11: 0.0333 S12: 0.3515 S13: -0.2059 REMARK 3 S21: -0.3078 S22: -0.1116 S23: -0.2110 REMARK 3 S31: 0.3374 S32: 0.0751 S33: 0.0424 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN B AND RESID 2:16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.214 -44.641 -35.441 REMARK 3 T TENSOR REMARK 3 T11: 1.3949 T22: 1.2887 REMARK 3 T33: 1.1489 T12: 0.2877 REMARK 3 T13: 0.6626 T23: -0.9373 REMARK 3 L TENSOR REMARK 3 L11: 0.1670 L22: 0.1576 REMARK 3 L33: 0.0438 L12: -0.0495 REMARK 3 L13: -0.0887 L23: 0.0575 REMARK 3 S TENSOR REMARK 3 S11: 0.3993 S12: 0.3726 S13: -0.1517 REMARK 3 S21: -0.2181 S22: 0.0591 S23: 0.0414 REMARK 3 S31: 0.2404 S32: 0.0650 S33: 0.2887 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN B AND RESID 17:32 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.378 -12.817 -3.389 REMARK 3 T TENSOR REMARK 3 T11: 0.7439 T22: 0.7726 REMARK 3 T33: 0.6112 T12: -0.0543 REMARK 3 T13: 0.2029 T23: -0.2338 REMARK 3 L TENSOR REMARK 3 L11: 0.0499 L22: 0.1186 REMARK 3 L33: 0.0046 L12: 0.0098 REMARK 3 L13: 0.0099 L23: -0.0578 REMARK 3 S TENSOR REMARK 3 S11: -0.1404 S12: -0.0328 S13: 0.1842 REMARK 3 S21: 0.1512 S22: 0.1705 S23: -0.1162 REMARK 3 S31: -0.2354 S32: -0.1366 S33: -0.0288 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN C AND RESID 15:89 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.853 -47.071 -14.661 REMARK 3 T TENSOR REMARK 3 T11: 0.6113 T22: 0.5940 REMARK 3 T33: 1.0901 T12: -0.0317 REMARK 3 T13: 0.3000 T23: -0.5115 REMARK 3 L TENSOR REMARK 3 L11: 0.1301 L22: 0.0410 REMARK 3 L33: 0.1462 L12: -0.0630 REMARK 3 L13: 0.1321 L23: -0.0646 REMARK 3 S TENSOR REMARK 3 S11: 0.0863 S12: 0.0635 S13: -0.3319 REMARK 3 S21: -0.4065 S22: 0.2526 S23: 0.0338 REMARK 3 S31: -0.0236 S32: 0.1934 S33: 0.2011 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN C AND RESID 90:132 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.455 -48.229 -6.236 REMARK 3 T TENSOR REMARK 3 T11: 0.6454 T22: 0.6936 REMARK 3 T33: 1.1571 T12: -0.0076 REMARK 3 T13: 0.2338 T23: -0.1449 REMARK 3 L TENSOR REMARK 3 L11: 0.0067 L22: 0.0332 REMARK 3 L33: 0.0148 L12: -0.0290 REMARK 3 L13: 0.0030 L23: -0.0186 REMARK 3 S TENSOR REMARK 3 S11: 0.1210 S12: -0.0843 S13: -0.3763 REMARK 3 S21: -0.1395 S22: 0.1792 S23: -0.1504 REMARK 3 S31: 0.0738 S32: 0.0367 S33: 0.0001 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN C AND RESID 133:208 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.418 -38.159 -5.226 REMARK 3 T TENSOR REMARK 3 T11: -0.0387 T22: 0.4968 REMARK 3 T33: 0.8384 T12: -0.0969 REMARK 3 T13: 0.2926 T23: -0.3407 REMARK 3 L TENSOR REMARK 3 L11: 0.0673 L22: 0.1241 REMARK 3 L33: 0.2546 L12: -0.1069 REMARK 3 L13: -0.0121 L23: -0.0116 REMARK 3 S TENSOR REMARK 3 S11: -0.0148 S12: -0.3121 S13: -0.3370 REMARK 3 S21: -0.1377 S22: 0.0443 S23: 0.1850 REMARK 3 S31: -0.1433 S32: -0.3556 S33: -0.0229 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: ( CHAIN C AND RESID 209:245 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.229 -31.061 -7.712 REMARK 3 T TENSOR REMARK 3 T11: 0.5338 T22: 0.6263 REMARK 3 T33: 0.6756 T12: -0.1018 REMARK 3 T13: 0.0494 T23: -0.1979 REMARK 3 L TENSOR REMARK 3 L11: 0.0225 L22: 0.0201 REMARK 3 L33: 0.0088 L12: 0.0075 REMARK 3 L13: -0.0064 L23: 0.0080 REMARK 3 S TENSOR REMARK 3 S11: -0.0474 S12: 0.0806 S13: -0.0909 REMARK 3 S21: -0.1144 S22: 0.1952 S23: 0.1060 REMARK 3 S31: -0.0427 S32: -0.1014 S33: 6.3130 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8TIT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1000266227. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-OCT-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 4.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI (111) DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CMOS REMARK 200 DETECTOR MANUFACTURER : RDI CMOS_8M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS JAN 31, 2020 REMARK 200 DATA SCALING SOFTWARE : XSCALE JAN 31, 2020, SCALA REMARK 200 3.3.22 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16128 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.840 REMARK 200 RESOLUTION RANGE LOW (A) : 38.820 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.06415 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.3300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.84 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 1.18300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.820 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.2 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 450 MM MGCL2, 25% PEG 400, AND 100 MM REMARK 280 TRIS HCL, PH 8.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 37.46750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.35300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 68.08800 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.46750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.35300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 68.08800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.46750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 65.35300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 68.08800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.46750 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 65.35300 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 68.08800 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 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -65.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 C -11 REMARK 465 ARG C -10 REMARK 465 GLY C -9 REMARK 465 SER C -8 REMARK 465 HIS C -7 REMARK 465 HIS C -6 REMARK 465 HIS C -5 REMARK 465 HIS C -4 REMARK 465 HIS C -3 REMARK 465 HIS C -2 REMARK 465 GLY C -1 REMARK 465 SER C 0 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 GLU C 3 REMARK 465 THR C 4 REMARK 465 ALA C 5 REMARK 465 VAL C 6 REMARK 465 ILE C 7 REMARK 465 ASN C 8 REMARK 465 HIS C 9 REMARK 465 LYS C 10 REMARK 465 LYS C 11 REMARK 465 ARG C 12 REMARK 465 LYS C 13 REMARK 465 ASN C 14 REMARK 465 ASP C 50 REMARK 465 GLY C 51 REMARK 465 THR C 52 REMARK 465 LEU C 53 REMARK 465 GLN C 54 REMARK 465 GLU C 55 REMARK 465 HIS C 56 REMARK 465 ARG C 98 REMARK 465 PRO C 99 REMARK 465 GLU C 100 REMARK 465 GLU C 101 REMARK 465 ASP C 102 REMARK 465 ALA C 103 REMARK 465 GLY C 104 REMARK 465 ASP C 105 REMARK 465 GLU C 106 REMARK 465 LYS C 107 REMARK 465 GLY C 108 REMARK 465 LEU C 142 REMARK 465 GLN C 143 REMARK 465 ASN C 144 REMARK 465 THR C 246 REMARK 465 SER C 247 REMARK 465 MET C 248 REMARK 465 THR C 249 REMARK 465 THR C 250 REMARK 465 GLY C 251 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DC A 3 C3' REMARK 470 DG B 27 OP2 REMARK 470 ARG C 17 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 117 CE NZ REMARK 470 ARG C 145 CG CD NE CZ NH1 NH2 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 DC A 2 C1' DC A 2 N1 0.084 REMARK 500 LYS C 66 CD LYS C 66 CE -0.182 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 DT A 10 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG A 21 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT A 25 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC A 26 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG A 32 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DC B 23 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG B 27 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG B 28 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG B 32 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 LEU C 31 CB - CG - CD1 ANGL. DEV. = 12.2 DEGREES REMARK 500 ASP C 176 CB - CG - OD2 ANGL. DEV. = -7.9 DEGREES REMARK 500 ARG C 243 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG C 243 NE - CZ - NH2 ANGL. DEV. = -3.2 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 ASN C 132 108.86 -50.61 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 GLN C 84 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 201 O REMARK 620 2 HOH A 202 O 67.8 REMARK 620 3 GLU C 77 OE2 76.4 117.6 REMARK 620 4 ASP C 81 OD1 167.5 103.4 101.4 REMARK 620 5 HOH C 401 O 116.6 77.2 164.2 67.9 REMARK 620 6 HOH C 402 O 73.7 135.4 72.2 117.6 101.8 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7U6K RELATED DB: PDB REMARK 900 ALSO A DESIGNED INTERPENTRATING, ISORETICULAR CO-CRYSTAL OF REPE54 REMARK 900 INITIATOR PROTEIN AND 31MER DNA DBREF 8TIT A 2 32 PDB 8TIT 8TIT 2 32 DBREF 8TIT B 2 32 PDB 8TIT 8TIT 2 32 DBREF 8TIT C 1 251 UNP P03856 REPE1_ECOLI 1 251 SEQADV 8TIT MET C -11 UNP P03856 INITIATING METHIONINE SEQADV 8TIT ARG C -10 UNP P03856 EXPRESSION TAG SEQADV 8TIT GLY C -9 UNP P03856 EXPRESSION TAG SEQADV 8TIT SER C -8 UNP P03856 EXPRESSION TAG SEQADV 8TIT HIS C -7 UNP P03856 EXPRESSION TAG SEQADV 8TIT HIS C -6 UNP P03856 EXPRESSION TAG SEQADV 8TIT HIS C -5 UNP P03856 EXPRESSION TAG SEQADV 8TIT HIS C -4 UNP P03856 EXPRESSION TAG SEQADV 8TIT HIS C -3 UNP P03856 EXPRESSION TAG SEQADV 8TIT HIS C -2 UNP P03856 EXPRESSION TAG SEQADV 8TIT GLY C -1 UNP P03856 EXPRESSION TAG SEQADV 8TIT SER C 0 UNP P03856 EXPRESSION TAG SEQADV 8TIT PRO C 118 UNP P03856 ARG 118 ENGINEERED MUTATION SEQRES 1 A 31 DC DC DC DG DG DA DC DC DT DG DT DG DA SEQRES 2 A 31 DC DA DA DA DT DT DG DC DC DC DT DC DA SEQRES 3 A 31 DG DA DC DG DG SEQRES 1 B 31 DG DG DC DC DG DT DC DT DG DA DG DG DG SEQRES 2 B 31 DC DA DA DT DT DT DG DT DC DA DC DA DG SEQRES 3 B 31 DG DT DC DC DG SEQRES 1 C 263 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER MET SEQRES 2 C 263 ALA GLU THR ALA VAL ILE ASN HIS LYS LYS ARG LYS ASN SEQRES 3 C 263 SER PRO ARG ILE VAL GLN SER ASN ASP LEU THR GLU ALA SEQRES 4 C 263 ALA TYR SER LEU SER ARG ASP GLN LYS ARG MET LEU TYR SEQRES 5 C 263 LEU PHE VAL ASP GLN ILE ARG LYS SER ASP GLY THR LEU SEQRES 6 C 263 GLN GLU HIS ASP GLY ILE CYS GLU ILE HIS VAL ALA LYS SEQRES 7 C 263 TYR ALA GLU ILE PHE GLY LEU THR SER ALA GLU ALA SER SEQRES 8 C 263 LYS ASP ILE ARG GLN ALA LEU LYS SER PHE ALA GLY LYS SEQRES 9 C 263 GLU VAL VAL PHE TYR ARG PRO GLU GLU ASP ALA GLY ASP SEQRES 10 C 263 GLU LYS GLY TYR GLU SER PHE PRO TRP PHE ILE LYS PRO SEQRES 11 C 263 ALA HIS SER PRO SER ARG GLY LEU TYR SER VAL HIS ILE SEQRES 12 C 263 ASN PRO TYR LEU ILE PRO PHE PHE ILE GLY LEU GLN ASN SEQRES 13 C 263 ARG PHE THR GLN PHE ARG LEU SER GLU THR LYS GLU ILE SEQRES 14 C 263 THR ASN PRO TYR ALA MET ARG LEU TYR GLU SER LEU CYS SEQRES 15 C 263 GLN TYR ARG LYS PRO ASP GLY SER GLY ILE VAL SER LEU SEQRES 16 C 263 LYS ILE ASP TRP ILE ILE GLU ARG TYR GLN LEU PRO GLN SEQRES 17 C 263 SER TYR GLN ARG MET PRO ASP PHE ARG ARG ARG PHE LEU SEQRES 18 C 263 GLN VAL CYS VAL ASN GLU ILE ASN SER ARG THR PRO MET SEQRES 19 C 263 ARG LEU SER TYR ILE GLU LYS LYS LYS GLY ARG GLN THR SEQRES 20 C 263 THR HIS ILE VAL PHE SER PHE ARG ASP ILE THR SER MET SEQRES 21 C 263 THR THR GLY HET MG A 101 1 HET MG A 102 1 HET MG B 101 1 HET MG B 102 1 HET MG C 301 1 HET MG C 302 1 HETNAM MG MAGNESIUM ION FORMUL 4 MG 6(MG 2+) FORMUL 10 HOH *4(H2 O) HELIX 1 AA1 ASN C 22 GLU C 26 1 5 HELIX 2 AA2 SER C 32 LYS C 48 1 17 HELIX 3 AA3 VAL C 64 PHE C 71 1 8 HELIX 4 AA4 THR C 74 SER C 88 1 15 HELIX 5 AA5 LEU C 135 ILE C 140 1 6 HELIX 6 AA6 SER C 152 THR C 154 5 3 HELIX 7 AA7 ASN C 159 GLN C 171 1 13 HELIX 8 AA8 ILE C 185 TYR C 192 1 8 HELIX 9 AA9 PRO C 195 GLN C 199 5 5 HELIX 10 AB1 ARG C 200 PHE C 208 1 9 HELIX 11 AB2 PHE C 208 THR C 220 1 13 SHEET 1 AA1 2 ARG C 17 SER C 21 0 SHEET 2 AA1 2 PHE C 146 ARG C 150 -1 O THR C 147 N GLN C 20 SHEET 1 AA2 3 ILE C 59 HIS C 63 0 SHEET 2 AA2 3 LEU C 126 ILE C 131 -1 O TYR C 127 N ILE C 62 SHEET 3 AA2 3 PHE C 115 HIS C 120 -1 N HIS C 120 O SER C 128 SHEET 1 AA3 2 GLU C 93 PHE C 96 0 SHEET 2 AA3 2 GLU C 110 PRO C 113 -1 O PHE C 112 N VAL C 94 SHEET 1 AA4 3 GLY C 179 LYS C 184 0 SHEET 2 AA4 3 GLN C 234 ASP C 244 -1 O PHE C 240 N VAL C 181 SHEET 3 AA4 3 MET C 222 LYS C 231 -1 N SER C 225 O SER C 241 LINK O HOH A 201 MG MG C 301 1555 1555 2.13 LINK O HOH A 202 MG MG C 301 1555 1555 1.88 LINK OP1 DG B 27 MG MG B 101 1555 1555 2.58 LINK OE2 GLU C 77 MG MG C 301 1555 1555 2.18 LINK OD1 ASP C 81 MG MG C 301 1555 1555 2.12 LINK MG MG C 301 O HOH C 401 1555 1555 1.92 LINK MG MG C 301 O HOH C 402 1555 1555 2.29 CRYST1 74.935 130.706 136.176 90.00 90.00 90.00 I 2 2 2 8 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 0.013345 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007651 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007343 0.00000