HEADER DNA BINDING PROTEIN/DNA 20-JUL-23 8TIP 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 TITLE 4 BLUNT ENDS AND 5' TERMINAL PHOSPHATES. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(A*CP*CP*CP*GP*GP*AP*CP*CP*TP*GP*TP*GP*AP*CP*AP*AP*AP*TP*TP*GP*CP*CP COMPND 4 *CP*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(A*CP*CP*GP*TP*CP*TP*GP*AP*GP*GP*GP*CP*AP*AP*TP*TP*TP*GP*TP*CP*AP*CP COMPND 10 *AP*GP*GP*TP*CP*CP*GP*GP*G)-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,C.K.SLAUGHTER,R.SHRESTHA,C.D.SNOW REVDAT 4 06-NOV-24 8TIP 1 JRNL REVDAT 3 14-AUG-24 8TIP 1 JRNL REVDAT 2 22-MAY-24 8TIP 1 REMARK REVDAT 1 02-AUG-23 8TIP 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 COCRYSTALS. JRNL REF ACS NANOSCI AU V. 4 338 2024 JRNL REFN ESSN 2694-2496 JRNL PMID 39430379 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. 2.79 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) : 2.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 17178 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1718 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 38.8500 - 6.3800 0.97 1343 153 0.1850 0.1928 REMARK 3 2 6.3800 - 5.0700 1.00 1326 149 0.1667 0.2206 REMARK 3 3 5.0700 - 4.4300 1.00 1304 146 0.1580 0.1949 REMARK 3 4 4.4300 - 4.0200 0.99 1305 141 0.1670 0.2064 REMARK 3 5 4.0200 - 3.7400 1.00 1283 143 0.1965 0.2931 REMARK 3 6 3.7300 - 3.5200 0.98 1258 134 0.2046 0.2674 REMARK 3 7 3.5100 - 3.3400 0.98 1270 146 0.1787 0.2541 REMARK 3 8 3.3400 - 3.1900 1.00 1278 134 0.2012 0.2883 REMARK 3 9 3.1900 - 3.0700 0.99 1280 143 0.2739 0.3301 REMARK 3 10 3.0700 - 2.9600 1.00 1275 148 0.2869 0.3344 REMARK 3 11 2.9600 - 2.8700 1.00 1271 141 0.3132 0.3785 REMARK 3 12 2.8700 - 2.7900 0.99 1267 140 0.3780 0.4784 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) : 0.429 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.523 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 79.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 95.62 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 3309 REMARK 3 ANGLE : 1.369 4744 REMARK 3 CHIRALITY : 0.078 515 REMARK 3 PLANARITY : 0.011 391 REMARK 3 DIHEDRAL : 27.861 871 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): -21.2330 -7.6935 1.9894 REMARK 3 T TENSOR REMARK 3 T11: 0.9803 T22: 0.7417 REMARK 3 T33: 0.8037 T12: -0.0070 REMARK 3 T13: 0.1720 T23: -0.2879 REMARK 3 L TENSOR REMARK 3 L11: 0.4700 L22: 0.5208 REMARK 3 L33: 1.5360 L12: -0.0875 REMARK 3 L13: -0.4988 L23: 0.5222 REMARK 3 S TENSOR REMARK 3 S11: 0.0504 S12: -0.1718 S13: 0.6413 REMARK 3 S21: 0.2913 S22: 0.0490 S23: -0.3006 REMARK 3 S31: -0.3069 S32: -0.1558 S33: -0.0805 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 17 THROUGH 32 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.1261 -40.2519 -30.4166 REMARK 3 T TENSOR REMARK 3 T11: 1.4631 T22: 1.0705 REMARK 3 T33: 0.9598 T12: 0.1568 REMARK 3 T13: 0.5537 T23: -0.4491 REMARK 3 L TENSOR REMARK 3 L11: 0.7774 L22: 0.6170 REMARK 3 L33: 0.5297 L12: -0.6459 REMARK 3 L13: -0.4738 L23: 0.2703 REMARK 3 S TENSOR REMARK 3 S11: 0.0371 S12: 0.6642 S13: -0.2225 REMARK 3 S21: -0.5332 S22: -0.0063 S23: -0.6695 REMARK 3 S31: 0.5825 S32: 0.0881 S33: -0.0721 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 4 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.0683 -39.5558 -32.8221 REMARK 3 T TENSOR REMARK 3 T11: 1.3325 T22: 1.2346 REMARK 3 T33: 1.1722 T12: 0.1445 REMARK 3 T13: 0.5323 T23: -0.5355 REMARK 3 L TENSOR REMARK 3 L11: 1.4581 L22: 1.1475 REMARK 3 L33: 0.2388 L12: -0.8514 REMARK 3 L13: -0.4046 L23: -0.0732 REMARK 3 S TENSOR REMARK 3 S11: 0.3423 S12: 0.8988 S13: -0.2281 REMARK 3 S21: -0.7652 S22: 0.0663 S23: -0.2431 REMARK 3 S31: 0.1025 S32: 0.1929 S33: 0.3383 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 19 THROUGH 34 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.0933 -9.7835 2.7507 REMARK 3 T TENSOR REMARK 3 T11: 0.9942 T22: 0.6930 REMARK 3 T33: 0.6742 T12: 0.0299 REMARK 3 T13: 0.1000 T23: -0.1499 REMARK 3 L TENSOR REMARK 3 L11: 0.2982 L22: 0.9118 REMARK 3 L33: 0.5792 L12: 0.2075 REMARK 3 L13: 0.3712 L23: 0.5969 REMARK 3 S TENSOR REMARK 3 S11: -0.2724 S12: -0.4961 S13: 0.1266 REMARK 3 S21: 0.6554 S22: 0.1617 S23: -0.2020 REMARK 3 S31: -0.3715 S32: 0.0860 S33: 0.1248 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 15 THROUGH 89 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.7661 -47.4701 -14.5371 REMARK 3 T TENSOR REMARK 3 T11: 0.6217 T22: 0.4264 REMARK 3 T33: 1.0889 T12: 0.0213 REMARK 3 T13: 0.5186 T23: -0.5954 REMARK 3 L TENSOR REMARK 3 L11: 1.4921 L22: 0.6800 REMARK 3 L33: 1.7882 L12: -0.8981 REMARK 3 L13: 0.4011 L23: -0.0683 REMARK 3 S TENSOR REMARK 3 S11: 0.2097 S12: 0.0949 S13: -0.8298 REMARK 3 S21: -0.7305 S22: 0.1207 S23: 0.0447 REMARK 3 S31: 0.2552 S32: 0.1393 S33: 0.6187 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 90 THROUGH 132 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.4284 -48.4381 -6.2371 REMARK 3 T TENSOR REMARK 3 T11: 0.5492 T22: 0.6406 REMARK 3 T33: 1.0832 T12: 0.0481 REMARK 3 T13: 0.3299 T23: -0.1545 REMARK 3 L TENSOR REMARK 3 L11: 1.1354 L22: 0.9532 REMARK 3 L33: 1.1139 L12: 0.1979 REMARK 3 L13: 0.2370 L23: -0.8062 REMARK 3 S TENSOR REMARK 3 S11: -0.0531 S12: -0.0623 S13: -0.6936 REMARK 3 S21: -0.0466 S22: 0.3257 S23: -0.2352 REMARK 3 S31: 0.2857 S32: 0.2455 S33: 0.0907 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 133 THROUGH 208 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.5836 -38.7544 -5.0249 REMARK 3 T TENSOR REMARK 3 T11: 0.4523 T22: 0.5639 REMARK 3 T33: 0.9110 T12: -0.0609 REMARK 3 T13: 0.1572 T23: -0.1756 REMARK 3 L TENSOR REMARK 3 L11: 0.5195 L22: 0.9822 REMARK 3 L33: 0.7093 L12: -0.0917 REMARK 3 L13: -0.2052 L23: -0.3748 REMARK 3 S TENSOR REMARK 3 S11: -0.1505 S12: -0.1504 S13: -0.6321 REMARK 3 S21: 0.0557 S22: 0.1141 S23: 0.0809 REMARK 3 S31: 0.2137 S32: -0.2515 S33: -0.0065 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 209 THROUGH 245 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.2291 -31.1258 -7.6671 REMARK 3 T TENSOR REMARK 3 T11: 0.4615 T22: 0.6439 REMARK 3 T33: 0.7674 T12: -0.0037 REMARK 3 T13: 0.0368 T23: -0.1927 REMARK 3 L TENSOR REMARK 3 L11: 1.7663 L22: 2.5812 REMARK 3 L33: 3.3039 L12: 0.2403 REMARK 3 L13: -0.0442 L23: 1.2243 REMARK 3 S TENSOR REMARK 3 S11: 0.0300 S12: 0.3025 S13: -0.2871 REMARK 3 S21: -0.1791 S22: 0.0824 S23: 0.3293 REMARK 3 S31: 0.0771 S32: -0.4347 S33: 0.0829 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 8TIP 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_1000266226. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-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 : 17285 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.790 REMARK 200 RESOLUTION RANGE LOW (A) : 38.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.06383 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.8600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 1.11500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.750 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 (%): 67.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 400 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 37.42500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 66.45650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 68.18700 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.42500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 66.45650 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 68.18700 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.42500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 66.45650 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 68.18700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.42500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 66.45650 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 68.18700 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: 6520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.0 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 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 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 GLY C 141 REMARK 465 LEU C 142 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 1 O5' C5' C4' O4' C3' C2' C1' REMARK 470 DA A 1 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA A 1 C2 N3 C4 REMARK 470 DA B 3 O5' C5' C4' O4' C3' C2' C1' REMARK 470 DA B 3 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA B 3 C2 N3 C4 REMARK 470 ASN C 14 CG OD1 ND2 REMARK 470 ARG C 17 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 117 CE NZ 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 DG B 28 O3' DG B 28 C3' -0.045 REMARK 500 VAL C 94 CB VAL C 94 CG2 -0.135 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. = 1.8 DEGREES REMARK 500 DC A 26 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT B 20 O5' - P - OP1 ANGL. DEV. = -7.8 DEGREES REMARK 500 DT B 20 O5' - P - OP2 ANGL. DEV. = 11.1 DEGREES REMARK 500 DC B 23 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG B 28 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 ASN C 132 108.19 -51.14 REMARK 500 THR C 246 45.86 -90.80 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 B 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 201 O REMARK 620 2 HOH A 202 O 79.3 REMARK 620 3 HOH A 203 O 111.3 96.7 REMARK 620 4 DG B 27 OP1 98.3 162.0 100.7 REMARK 620 5 HOH B 205 O 70.2 86.1 177.0 76.4 REMARK 620 6 HOH B 207 O 134.9 77.6 109.5 92.3 70.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 102 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG B 27 OP2 REMARK 620 2 HOH B 201 O 61.9 REMARK 620 3 HOH B 202 O 57.2 21.5 REMARK 620 4 HOH B 203 O 69.5 12.4 17.3 REMARK 620 5 HOH B 204 O 66.5 19.9 9.6 10.5 REMARK 620 6 HOH B 206 O 72.4 23.2 15.3 11.5 6.0 REMARK 620 N 1 2 3 4 5 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 93.4 REMARK 620 3 HOH C 401 O 170.7 83.4 REMARK 620 4 HOH C 402 O 78.7 160.5 101.5 REMARK 620 5 HOH C 403 O 92.5 72.6 94.9 125.1 REMARK 620 6 HOH C 404 O 79.0 89.0 92.2 72.1 159.3 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 8TIP A 1 32 PDB 8TIP 8TIP 1 32 DBREF 8TIP B 3 34 PDB 8TIP 8TIP 3 34 DBREF 8TIP C 1 251 UNP P03856 REPE1_ECOLI 1 251 SEQADV 8TIP MET C -11 UNP P03856 INITIATING METHIONINE SEQADV 8TIP ARG C -10 UNP P03856 EXPRESSION TAG SEQADV 8TIP GLY C -9 UNP P03856 EXPRESSION TAG SEQADV 8TIP SER C -8 UNP P03856 EXPRESSION TAG SEQADV 8TIP HIS C -7 UNP P03856 EXPRESSION TAG SEQADV 8TIP HIS C -6 UNP P03856 EXPRESSION TAG SEQADV 8TIP HIS C -5 UNP P03856 EXPRESSION TAG SEQADV 8TIP HIS C -4 UNP P03856 EXPRESSION TAG SEQADV 8TIP HIS C -3 UNP P03856 EXPRESSION TAG SEQADV 8TIP HIS C -2 UNP P03856 EXPRESSION TAG SEQADV 8TIP GLY C -1 UNP P03856 EXPRESSION TAG SEQADV 8TIP SER C 0 UNP P03856 EXPRESSION TAG SEQADV 8TIP PRO C 118 UNP P03856 ARG 118 ENGINEERED MUTATION SEQRES 1 A 32 DA DC DC DC DG DG DA DC DC DT DG DT DG SEQRES 2 A 32 DA DC DA DA DA DT DT DG DC DC DC DT DC SEQRES 3 A 32 DA DG DA DC DG DG SEQRES 1 B 32 DA DC DC DG DT DC DT DG DA DG DG DG DC SEQRES 2 B 32 DA DA DT DT DT DG DT DC DA DC DA DG DG SEQRES 3 B 32 DT DC DC DG DG 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 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 5(MG 2+) FORMUL 9 HOH *16(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 PHE C 89 1 16 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 TYR C 127 N ILE C 62 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 MG MG A 101 O HOH A 204 1555 4555 2.58 LINK O HOH A 201 MG MG B 101 4555 1555 2.22 LINK O HOH A 202 MG MG B 101 4555 1555 2.94 LINK O HOH A 203 MG MG B 101 4555 1555 2.16 LINK OP1 DG B 27 MG MG B 101 1555 1555 2.24 LINK OP2 DG B 27 MG MG B 102 1555 4555 1.86 LINK MG MG B 101 O HOH B 205 1555 1555 2.14 LINK MG MG B 101 O HOH B 207 1555 1555 2.47 LINK MG MG B 102 O HOH B 201 1555 4555 2.04 LINK MG MG B 102 O HOH B 202 1555 1555 2.85 LINK MG MG B 102 O HOH B 203 1555 4555 1.82 LINK MG MG B 102 O HOH B 204 1555 4555 1.95 LINK MG MG B 102 O HOH B 206 1555 4555 2.23 LINK OE2 GLU C 77 MG MG C 301 1555 1555 2.27 LINK OD1 ASP C 81 MG MG C 301 1555 1555 2.24 LINK MG MG C 301 O HOH C 401 1555 1555 2.04 LINK MG MG C 301 O HOH C 402 1555 1555 1.97 LINK MG MG C 301 O HOH C 403 1555 1555 2.52 LINK MG MG C 301 O HOH C 404 1555 1555 2.34 CRYST1 74.850 132.913 136.374 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 0.013360 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007524 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007333 0.00000