HEADER DNA BINDING PROTEIN/DNA 20-JUL-23 8TIU 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. 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 8TIU 1 JRNL REVDAT 2 22-MAY-24 8TIU 1 REMARK REVDAT 1 02-AUG-23 8TIU 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. 3.90 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) : 3.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.53 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 6006 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.940 REMARK 3 FREE R VALUE TEST SET COUNT : 597 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 38.5300 - 6.1900 0.99 1455 161 0.1771 0.1866 REMARK 3 2 6.1800 - 4.9100 1.00 1399 163 0.1824 0.2407 REMARK 3 3 4.9100 - 4.2900 0.99 1369 144 0.1863 0.2173 REMARK 3 4 4.2900 - 3.9000 0.86 1186 129 0.2938 0.3918 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) : 0.483 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.295 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 107.8 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 129.5 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 : 0.006 3278 REMARK 3 ANGLE : 0.862 4703 REMARK 3 CHIRALITY : 0.052 512 REMARK 3 PLANARITY : 0.005 385 REMARK 3 DIHEDRAL : 27.162 868 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): -20.3753 -7.8223 1.5627 REMARK 3 T TENSOR REMARK 3 T11: 1.1917 T22: 1.0884 REMARK 3 T33: 1.0521 T12: 0.0306 REMARK 3 T13: 0.0857 T23: -0.3585 REMARK 3 L TENSOR REMARK 3 L11: 0.5647 L22: 1.9426 REMARK 3 L33: 0.4144 L12: 1.0501 REMARK 3 L13: 0.3918 L23: 0.9770 REMARK 3 S TENSOR REMARK 3 S11: -0.2554 S12: -0.0183 S13: 0.5823 REMARK 3 S21: -0.1087 S22: -0.1252 S23: -0.1647 REMARK 3 S31: -0.1249 S32: -0.7716 S33: 0.0002 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 17 THROUGH 33 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.0548 -40.6426 -30.7629 REMARK 3 T TENSOR REMARK 3 T11: 1.3873 T22: 1.3969 REMARK 3 T33: 1.1709 T12: 0.0548 REMARK 3 T13: 0.4494 T23: -0.4862 REMARK 3 L TENSOR REMARK 3 L11: 0.7607 L22: 0.4610 REMARK 3 L33: 1.8837 L12: -0.6246 REMARK 3 L13: 1.2299 L23: -0.9459 REMARK 3 S TENSOR REMARK 3 S11: 0.4774 S12: 0.1527 S13: 0.4104 REMARK 3 S21: -0.8714 S22: 0.3391 S23: -0.9176 REMARK 3 S31: -0.2724 S32: 0.2411 S33: 0.0103 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.4222 -45.0513 -35.4319 REMARK 3 T TENSOR REMARK 3 T11: 1.7429 T22: 1.8248 REMARK 3 T33: 1.5622 T12: 0.2606 REMARK 3 T13: 0.4062 T23: -0.4279 REMARK 3 L TENSOR REMARK 3 L11: 0.0495 L22: 0.1095 REMARK 3 L33: 0.0354 L12: -0.0908 REMARK 3 L13: -0.1334 L23: 0.1667 REMARK 3 S TENSOR REMARK 3 S11: 1.0271 S12: 0.5199 S13: 0.2883 REMARK 3 S21: -0.4047 S22: -0.2446 S23: 0.4421 REMARK 3 S31: -0.3447 S32: -0.1526 S33: 0.0135 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 17 THROUGH 33 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.9610 -12.7625 -2.9905 REMARK 3 T TENSOR REMARK 3 T11: 1.1763 T22: 1.0475 REMARK 3 T33: 0.9100 T12: -0.0938 REMARK 3 T13: 0.1288 T23: -0.2514 REMARK 3 L TENSOR REMARK 3 L11: 1.0021 L22: 3.3870 REMARK 3 L33: 0.3158 L12: -0.0293 REMARK 3 L13: -0.2023 L23: -0.9417 REMARK 3 S TENSOR REMARK 3 S11: 0.2568 S12: -0.4436 S13: 0.3349 REMARK 3 S21: -0.0977 S22: 0.1345 S23: -0.4991 REMARK 3 S31: -0.5275 S32: 0.5066 S33: 0.0003 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 14 THROUGH 89 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.8649 -47.3968 -14.7107 REMARK 3 T TENSOR REMARK 3 T11: 1.0507 T22: 1.0500 REMARK 3 T33: 1.2650 T12: 0.0936 REMARK 3 T13: 0.2877 T23: -0.3952 REMARK 3 L TENSOR REMARK 3 L11: 2.1058 L22: 1.1756 REMARK 3 L33: 0.8694 L12: -0.1623 REMARK 3 L13: 0.4229 L23: -0.2431 REMARK 3 S TENSOR REMARK 3 S11: -0.1287 S12: 0.2237 S13: -0.4138 REMARK 3 S21: -0.7662 S22: 0.0696 S23: -0.0394 REMARK 3 S31: -0.2121 S32: -0.1458 S33: -0.0001 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 90 THROUGH 132 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.3808 -48.3870 -6.2969 REMARK 3 T TENSOR REMARK 3 T11: 0.9270 T22: 1.1596 REMARK 3 T33: 1.2180 T12: -0.0283 REMARK 3 T13: 0.2458 T23: -0.0440 REMARK 3 L TENSOR REMARK 3 L11: 0.5238 L22: 1.7792 REMARK 3 L33: 0.7427 L12: -0.8256 REMARK 3 L13: 0.2497 L23: -1.0043 REMARK 3 S TENSOR REMARK 3 S11: -0.3558 S12: -0.5323 S13: -1.0752 REMARK 3 S21: -0.3815 S22: -0.2181 S23: -0.3390 REMARK 3 S31: 0.5687 S32: 0.3490 S33: -0.0005 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 133 THROUGH 208 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.1724 -38.1459 -5.3261 REMARK 3 T TENSOR REMARK 3 T11: 0.7615 T22: 0.8537 REMARK 3 T33: 1.1360 T12: -0.0127 REMARK 3 T13: 0.1775 T23: -0.2481 REMARK 3 L TENSOR REMARK 3 L11: 2.3518 L22: 3.2874 REMARK 3 L33: 1.5069 L12: -1.2936 REMARK 3 L13: -1.3208 L23: -0.9392 REMARK 3 S TENSOR REMARK 3 S11: -0.2408 S12: -0.0610 S13: -0.5073 REMARK 3 S21: 0.0289 S22: -0.0849 S23: 0.3236 REMARK 3 S31: -0.0554 S32: -0.1234 S33: -0.0163 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 209 THROUGH 246 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.1035 -31.2058 -8.0735 REMARK 3 T TENSOR REMARK 3 T11: 0.9427 T22: 1.0231 REMARK 3 T33: 1.0238 T12: -0.1268 REMARK 3 T13: 0.1849 T23: -0.1374 REMARK 3 L TENSOR REMARK 3 L11: 1.3721 L22: 1.5940 REMARK 3 L33: 0.8290 L12: -0.5903 REMARK 3 L13: -0.0308 L23: -0.8606 REMARK 3 S TENSOR REMARK 3 S11: -0.1094 S12: 0.2139 S13: -0.0262 REMARK 3 S21: -0.6322 S22: 0.2594 S23: 0.1929 REMARK 3 S31: -0.0355 S32: -0.4391 S33: 0.0000 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 8TIU 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_1000266230. 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 : 6251 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.900 REMARK 200 RESOLUTION RANGE LOW (A) : 38.530 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.06287 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.3100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 4.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.1 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 0.22400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 10.29 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 (%): 66.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.25 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 37.09300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.28450 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 67.63300 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.09300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.28450 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 67.63300 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.09300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 65.28450 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 67.63300 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.09300 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 65.28450 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 67.63300 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: 6350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.0 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 LEU C 142 REMARK 465 GLN C 143 REMARK 465 ASN C 144 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 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DA A 33 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA A 33 C2 N3 C4 REMARK 470 DA B 33 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DA B 33 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA B 33 C2 N3 C4 REMARK 470 ASN C 14 CG OD1 ND2 REMARK 470 ARG C 17 CG CD NE CZ NH1 NH2 REMARK 470 HIS C 56 CG ND1 CD2 CE1 NE2 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 B 31 O3' DC B 31 C3' -0.038 REMARK 500 DG B 32 O3' DG B 32 C3' -0.055 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 DC A 26 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG B 10 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG B 14 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC B 23 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG B 32 O5' - P - OP2 ANGL. DEV. = -10.5 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 132 108.70 -50.66 REMARK 500 ILE C 245 -44.62 -24.81 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 203 O 73.2 REMARK 620 3 HOH A 204 O 80.7 64.6 REMARK 620 4 DG B 27 OP1 85.1 111.2 165.8 REMARK 620 5 HOH B 203 O 62.6 126.3 79.0 94.5 REMARK 620 6 HOH B 205 O 163.0 123.6 104.0 89.7 101.8 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 HOH A 202 O REMARK 620 2 GLU C 77 OE2 62.1 REMARK 620 3 ASP C 81 OD1 117.9 90.1 REMARK 620 4 HOH C 402 O 54.8 101.4 82.5 REMARK 620 N 1 2 3 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 50.6 REMARK 620 3 HOH B 202 O 54.2 12.5 REMARK 620 4 HOH B 204 O 59.1 16.4 5.2 REMARK 620 5 HOH B 206 O 65.3 15.0 19.1 18.9 REMARK 620 6 HOH B 207 O 62.0 13.4 21.4 22.6 6.0 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 8TIU A 2 33 PDB 8TIU 8TIU 2 33 DBREF 8TIU B 2 33 PDB 8TIU 8TIU 2 33 DBREF 8TIU C 1 251 UNP P03856 REPE1_ECOLI 1 251 SEQADV 8TIU MET C -11 UNP P03856 INITIATING METHIONINE SEQADV 8TIU ARG C -10 UNP P03856 EXPRESSION TAG SEQADV 8TIU GLY C -9 UNP P03856 EXPRESSION TAG SEQADV 8TIU SER C -8 UNP P03856 EXPRESSION TAG SEQADV 8TIU HIS C -7 UNP P03856 EXPRESSION TAG SEQADV 8TIU HIS C -6 UNP P03856 EXPRESSION TAG SEQADV 8TIU HIS C -5 UNP P03856 EXPRESSION TAG SEQADV 8TIU HIS C -4 UNP P03856 EXPRESSION TAG SEQADV 8TIU HIS C -3 UNP P03856 EXPRESSION TAG SEQADV 8TIU HIS C -2 UNP P03856 EXPRESSION TAG SEQADV 8TIU GLY C -1 UNP P03856 EXPRESSION TAG SEQADV 8TIU SER C 0 UNP P03856 EXPRESSION TAG SEQADV 8TIU 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 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 *13(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 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 GLN C 193 1 9 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 SER C 225 O SER C 241 LINK O HOH A 201 MG MG B 101 4555 1555 2.98 LINK O HOH A 202 MG MG C 301 1555 1555 2.82 LINK O HOH A 203 MG MG B 101 4555 1555 2.26 LINK O HOH A 204 MG MG B 101 4555 1555 2.75 LINK OP1 DG B 27 MG MG B 101 1555 1555 1.99 LINK OP2 DG B 27 MG MG B 102 1555 4555 1.98 LINK MG MG B 101 O HOH B 203 1555 1555 1.96 LINK MG MG B 101 O HOH B 205 1555 1555 2.29 LINK MG MG B 102 O HOH B 201 1555 1555 2.44 LINK MG MG B 102 O HOH B 202 1555 4555 2.13 LINK MG MG B 102 O HOH B 204 1555 4555 2.02 LINK MG MG B 102 O HOH B 206 1555 4555 2.00 LINK MG MG B 102 O HOH B 207 1555 4555 2.55 LINK OE2 GLU C 77 MG MG C 301 1555 1555 2.46 LINK OD1 ASP C 81 MG MG C 301 1555 1555 2.08 LINK MG MG C 301 O HOH C 402 1555 1555 2.37 CRYST1 74.186 130.569 135.266 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 0.013480 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007659 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007393 0.00000