HEADER DNA BINDING PROTEIN/DNA 20-JUL-23 8TJ1 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 3' TERMINAL PHOSPHATES AND CROSSLINKED WITH TITLE 5 EDC. 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*GP*A)-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*A)-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 3 14-AUG-24 8TJ1 1 JRNL REVDAT 2 22-MAY-24 8TJ1 1 REMARK REVDAT 1 02-AUG-23 8TJ1 0 JRNL AUTH A.R.ORUN,C.K.SLAUGHTER,E.T.SHIELDS,A.VAJAPAYAJULA,S.JONES, JRNL AUTH 2 R.SHRESTHA,C.D.SNOW JRNL TITL TUNING CHEMICAL DNA LIGATION WITHIN DNA CRYSTALS AND JRNL TITL 2 PROTEIN-DNA CO-CRYSTALS JRNL REF ACS NANOSCI AU 2024 JRNL REFN ESSN 2694-2496 JRNL DOI 10.1021/ACSNANOSCIENCEAU.4C00013 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. 3.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2_3874 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) : 3.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 11479 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.910 REMARK 3 FREE R VALUE TEST SET COUNT : 1138 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 37.9900 - 6.2900 0.97 1344 154 0.1668 0.1900 REMARK 3 2 6.2900 - 5.0000 1.00 1332 147 0.1997 0.2133 REMARK 3 3 5.0000 - 4.3700 0.99 1309 146 0.1912 0.2084 REMARK 3 4 4.3700 - 3.9700 0.99 1300 136 0.2079 0.2562 REMARK 3 5 3.9700 - 3.6800 0.99 1284 145 0.2316 0.2456 REMARK 3 6 3.6800 - 3.4700 0.99 1266 133 0.2549 0.2588 REMARK 3 7 3.4700 - 3.2900 0.97 1268 137 0.2531 0.2906 REMARK 3 8 3.2900 - 3.1500 0.97 1238 140 0.3463 0.3830 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) : 0.379 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.235 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 94.85 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 128.8 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 : 0.013 3249 REMARK 3 ANGLE : 1.434 4658 REMARK 3 CHIRALITY : 0.080 505 REMARK 3 PLANARITY : 0.012 379 REMARK 3 DIHEDRAL : 27.400 862 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 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.8823 2.4081 -56.2154 REMARK 3 T TENSOR REMARK 3 T11: 2.0603 T22: 1.4306 REMARK 3 T33: 1.2104 T12: 0.4161 REMARK 3 T13: -0.3454 T23: 0.4783 REMARK 3 L TENSOR REMARK 3 L11: -0.1916 L22: -0.0171 REMARK 3 L33: 0.3286 L12: 0.0896 REMARK 3 L13: -0.1019 L23: 0.0248 REMARK 3 S TENSOR REMARK 3 S11: 0.4857 S12: 1.1116 S13: 1.1273 REMARK 3 S21: -2.0120 S22: -0.2041 S23: 0.5384 REMARK 3 S31: -0.3980 S32: 0.5695 S33: 0.0306 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 17 THROUGH 32 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.9076 -30.1035 -24.0313 REMARK 3 T TENSOR REMARK 3 T11: 2.1104 T22: 0.9356 REMARK 3 T33: 1.5104 T12: 0.5116 REMARK 3 T13: -0.2194 T23: 0.5340 REMARK 3 L TENSOR REMARK 3 L11: 0.5822 L22: 0.7384 REMARK 3 L33: 0.0336 L12: 0.0952 REMARK 3 L13: -0.1673 L23: 0.4817 REMARK 3 S TENSOR REMARK 3 S11: 0.2154 S12: -0.2314 S13: -1.1093 REMARK 3 S21: 0.8282 S22: -0.0189 S23: 0.0331 REMARK 3 S31: 0.7374 S32: 0.5597 S33: -0.2333 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.2368 -35.1486 -19.2378 REMARK 3 T TENSOR REMARK 3 T11: 2.7773 T22: 1.2162 REMARK 3 T33: 1.8522 T12: 0.7536 REMARK 3 T13: -1.1049 T23: 1.0716 REMARK 3 L TENSOR REMARK 3 L11: 0.7064 L22: 0.7324 REMARK 3 L33: 0.0551 L12: -0.0707 REMARK 3 L13: -0.2664 L23: 0.5209 REMARK 3 S TENSOR REMARK 3 S11: 1.9635 S12: 0.1414 S13: -1.9252 REMARK 3 S21: 0.3801 S22: -0.8974 S23: -1.1394 REMARK 3 S31: 2.0197 S32: 0.5788 S33: -0.0069 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 17 THROUGH 32 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.3658 -2.5824 -51.4453 REMARK 3 T TENSOR REMARK 3 T11: 1.6975 T22: 1.0198 REMARK 3 T33: 0.9090 T12: 0.5855 REMARK 3 T13: -0.4414 T23: 0.6518 REMARK 3 L TENSOR REMARK 3 L11: 0.5126 L22: 0.3448 REMARK 3 L33: 1.8096 L12: 0.0261 REMARK 3 L13: 0.1434 L23: 0.4073 REMARK 3 S TENSOR REMARK 3 S11: 0.2523 S12: 2.1584 S13: -0.2851 REMARK 3 S21: -2.8199 S22: 0.0037 S23: 1.2385 REMARK 3 S31: 0.4453 S32: 0.9496 S33: 0.1493 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 15 THROUGH 89 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.3942 -14.9225 -16.9880 REMARK 3 T TENSOR REMARK 3 T11: 0.8962 T22: 0.8871 REMARK 3 T33: 0.8717 T12: 0.1362 REMARK 3 T13: 0.0211 T23: 0.3611 REMARK 3 L TENSOR REMARK 3 L11: 0.4117 L22: 0.7313 REMARK 3 L33: 0.9271 L12: 0.2602 REMARK 3 L13: 0.6881 L23: 0.2105 REMARK 3 S TENSOR REMARK 3 S11: 0.3973 S12: -0.1444 S13: -0.6988 REMARK 3 S21: 0.2608 S22: -0.5449 S23: 0.1266 REMARK 3 S31: 1.1698 S32: -0.5817 S33: -0.1178 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 90 THROUGH 132 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.2488 -6.3315 -15.4235 REMARK 3 T TENSOR REMARK 3 T11: 0.8787 T22: 1.0684 REMARK 3 T33: 0.7153 T12: 0.2437 REMARK 3 T13: -0.0652 T23: 0.1160 REMARK 3 L TENSOR REMARK 3 L11: 1.3274 L22: 0.4274 REMARK 3 L33: 0.3294 L12: 0.9408 REMARK 3 L13: 0.1016 L23: 0.1612 REMARK 3 S TENSOR REMARK 3 S11: 0.0541 S12: -1.1251 S13: 0.2273 REMARK 3 S21: 0.3108 S22: -0.1150 S23: -0.0829 REMARK 3 S31: 0.4658 S32: -0.0445 S33: 0.0346 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 133 THROUGH 208 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.8652 -5.5029 -26.1364 REMARK 3 T TENSOR REMARK 3 T11: 0.4233 T22: 0.9233 REMARK 3 T33: 0.7660 T12: 0.0970 REMARK 3 T13: 0.0892 T23: 0.1830 REMARK 3 L TENSOR REMARK 3 L11: 0.6703 L22: 1.4609 REMARK 3 L33: 1.4519 L12: -0.1838 REMARK 3 L13: 0.2901 L23: -0.4836 REMARK 3 S TENSOR REMARK 3 S11: 0.0087 S12: -0.3156 S13: 0.2309 REMARK 3 S21: -0.1567 S22: 0.1706 S23: 0.5830 REMARK 3 S31: 0.4403 S32: -0.5193 S33: 0.0512 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 209 THROUGH 245 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.2114 -7.7812 -33.8370 REMARK 3 T TENSOR REMARK 3 T11: 0.6481 T22: 0.9873 REMARK 3 T33: 1.3204 T12: 0.0679 REMARK 3 T13: -0.1490 T23: 0.2827 REMARK 3 L TENSOR REMARK 3 L11: 0.1664 L22: 0.1997 REMARK 3 L33: 0.4850 L12: -0.1522 REMARK 3 L13: -0.0986 L23: -0.1073 REMARK 3 S TENSOR REMARK 3 S11: 0.2553 S12: 0.8801 S13: -0.0224 REMARK 3 S21: -0.5995 S22: -0.3493 S23: 1.1498 REMARK 3 S31: 0.2827 S32: -0.8678 S33: -0.0545 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 8TJ1 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_1000273290. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-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 : 11592 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.150 REMARK 200 RESOLUTION RANGE LOW (A) : 37.990 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.16140 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 1.18000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.940 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 (%): 66.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 400 MM MGCL2, 30% 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 36.47300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 66.75300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 67.03000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 36.47300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 66.75300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 67.03000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 36.47300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 66.75300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 67.03000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 36.47300 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 66.75300 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 67.03000 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: 5980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 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 DA A 33 OP2 C5' C4' O4' C3' O3' C2' REMARK 470 DA A 33 C1' N9 C8 N7 C5 C6 N6 REMARK 470 DA A 33 N1 C2 N3 C4 REMARK 470 DA B 33 O5' C5' C4' O4' C3' O3' C2' REMARK 470 DA B 33 C1' N9 C8 N7 C5 C6 N6 REMARK 470 DA B 33 N1 C2 N3 C4 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: 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 O HOH C 402 O HOH C 404 1.98 REMARK 500 O HOH C 401 O HOH C 404 2.06 REMARK 500 OE2 GLU C 77 O HOH C 401 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O5' DG B 2 OP1 DA B 33 5545 1.44 REMARK 500 O5' DC A 2 P DA A 33 5454 1.59 REMARK 500 O5' DG B 2 P DA B 33 5545 1.61 REMARK 500 O5' DC A 2 OP1 DA A 33 5454 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DC B 4 C1' DC B 4 N1 0.086 REMARK 500 DT B 19 O3' DT B 19 C3' -0.039 REMARK 500 DA B 24 O3' DA B 24 C3' -0.051 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. = 2.4 DEGREES REMARK 500 DG A 21 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 DC A 22 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC A 24 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT A 25 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DG B 10 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DG B 12 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT B 22 OP1 - P - OP2 ANGL. DEV. = -9.0 DEGREES REMARK 500 DT B 22 O5' - P - OP2 ANGL. DEV. = 12.1 DEGREES REMARK 500 DC B 25 O4' - C1' - N1 ANGL. DEV. = 2.8 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 132 108.62 -50.14 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 GLU C 77 OE2 REMARK 620 2 ASP C 81 OD1 100.7 REMARK 620 3 ASP C 81 OD2 137.9 50.5 REMARK 620 4 HOH C 401 O 49.2 77.5 127.3 REMARK 620 5 HOH C 402 O 119.4 91.3 94.2 77.2 REMARK 620 6 HOH C 403 O 66.5 121.1 151.1 49.9 57.0 REMARK 620 7 HOH C 404 O 92.5 60.5 95.7 43.3 44.4 63.0 REMARK 620 N 1 2 3 4 5 6 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 8TJ1 A 2 33 PDB 8TJ1 8TJ1 2 33 DBREF 8TJ1 B 2 33 PDB 8TJ1 8TJ1 2 33 DBREF 8TJ1 C 1 251 UNP P03856 REPE1_ECOLI 1 251 SEQADV 8TJ1 MET C -11 UNP P03856 INITIATING METHIONINE SEQADV 8TJ1 ARG C -10 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 GLY C -9 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 SER C -8 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 HIS C -7 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 HIS C -6 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 HIS C -5 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 HIS C -4 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 HIS C -3 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 HIS C -2 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 GLY C -1 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 SER C 0 UNP P03856 EXPRESSION TAG SEQADV 8TJ1 PRO C 118 UNP P03856 ARG 118 ENGINEERED MUTATION SEQRES 1 A 32 DC DC DC DG DG DA DC DC DT DG DT DG DA SEQRES 2 A 32 DC DA DA DA DT DT DG DC DC DC DT DC DA SEQRES 3 A 32 DG DA DC DG DG DA SEQRES 1 B 32 DG DG DC DC DG DT DC DT DG DA DG DG DG SEQRES 2 B 32 DC DA DA DT DT DT DG DT DC DA DC DA DG SEQRES 3 B 32 DG DT DC DC DG DA 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 C 301 1 HETNAM MG MAGNESIUM ION FORMUL 4 MG MG 2+ FORMUL 5 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 GLY C 72 1 9 HELIX 4 AA4 THR C 74 SER C 88 1 15 HELIX 5 AA5 ASN C 132 TYR C 134 5 3 HELIX 6 AA6 LEU C 135 ILE C 140 1 6 HELIX 7 AA7 SER C 152 THR C 154 5 3 HELIX 8 AA8 ASN C 159 GLN C 171 1 13 HELIX 9 AA9 ILE C 185 TYR C 192 1 8 HELIX 10 AB1 PRO C 195 GLN C 199 5 5 HELIX 11 AB2 ARG C 200 PHE C 208 1 9 HELIX 12 AB3 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 2 ILE C 59 HIS C 63 0 SHEET 2 AA2 2 LEU C 126 HIS C 130 -1 O VAL C 129 N CYS C 60 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 ILE C 227 O VAL C 239 LINK OE2 GLU C 77 MG MG C 301 1555 1555 2.26 LINK OD1 ASP C 81 MG MG C 301 1555 1555 2.45 LINK OD2 ASP C 81 MG MG C 301 1555 1555 2.69 LINK MG MG C 301 O HOH C 401 1555 1555 2.84 LINK MG MG C 301 O HOH C 402 1555 1555 2.45 LINK MG MG C 301 O HOH C 403 1555 1555 2.50 LINK MG MG C 301 O HOH C 404 1555 1555 2.73 CRYST1 72.946 133.506 134.060 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 0.013709 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007490 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007459 0.00000