PDB Short entry for 3F2C HEADER TRANSFERASE/DNA 29-OCT-08 3F2C TITLE DNA POLYMERASE POLC FROM GEOBACILLUS KAUSTOPHILUS COMPLEX WITH DNA, TITLE 2 DGTP AND MN COMPND MOL_ID: 1; COMPND 2 MOLECULE: GEOBACILLUS KAUSTOPHILUS DNA POLC; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GKAPOLC, DELTA 1-227, DELTA 412-617; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*DCP*DAP*DGP*DTP*DGP*DAP*DGP*DAP*DCP*DGP*DGP*DGP*DCP*D COMPND 9 AP*DAP*DCP*DC)-3'; COMPND 10 CHAIN: P; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: DNA PRIMER STRAND; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: 5'-D(*DAP*DTP*DAP*DAP*DCP*DGP*DGP*DTP*DTP*DGP*DCP*DCP*DCP*D COMPND 15 GP*DTP*DCP*DTP*DCP*DAP*DCP*DTP*DG)-3'; COMPND 16 CHAIN: T; COMPND 17 ENGINEERED: YES; COMPND 18 OTHER_DETAILS: DNA TEMPLATE STRAND SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS KAUSTOPHILUS; SOURCE 3 ORGANISM_TAXID: 1462; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 OTHER_DETAILS: PRIMER STRAND IS SYNTHETIC OLIGONUCLEOTIDE; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES; SOURCE 11 OTHER_DETAILS: TEMPLATE STRAND IS SYNTHETIC OLIGONUCLEOTIDE KEYWDS DNA POLYMERASE C, DNA POLYMERASE III, TERNARY COMPLEX, PROTEIN-DNA KEYWDS 2 COMPLEX, REPLICATIVE POLYMERASE, GRAM-POSITIVE, TRANSFERASE-DNA KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.R.DAVIES,R.J.EVANS,J.M.BULLARD,J.CHRISTENSEN,L.S.GREEN,J.W.GUILES, AUTHOR 2 W.K.RIBBLE,N.JANJIC,T.C.JARVIS REVDAT 5 06-SEP-23 3F2C 1 REMARK SEQADV LINK REVDAT 4 26-JUL-17 3F2C 1 SOURCE REMARK REVDAT 3 13-JUL-11 3F2C 1 VERSN REVDAT 2 02-MAR-10 3F2C 1 REMARK REVDAT 1 20-JAN-09 3F2C 0 JRNL AUTH R.J.EVANS,D.R.DAVIES,J.M.BULLARD,J.CHRISTENSEN,L.S.GREEN, JRNL AUTH 2 J.W.GUILES,J.D.PATA,W.K.RIBBLE,N.JANJIC,T.C.JARVIS JRNL TITL STRUCTURE OF POLC REVEALS UNIQUE DNA BINDING AND FIDELITY JRNL TITL 2 DETERMINANTS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 20695 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 19106298 JRNL DOI 10.1073/PNAS.0809989106 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0069 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 51791 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2641 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3189 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.28 REMARK 3 BIN R VALUE (WORKING SET) : 0.3230 REMARK 3 BIN FREE R VALUE SET COUNT : 166 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7796 REMARK 3 NUCLEIC ACID ATOMS : 631 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 155 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.82000 REMARK 3 B22 (A**2) : 2.62000 REMARK 3 B33 (A**2) : -0.80000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.413 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.273 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.736 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.912 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 8704 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 11920 ; 1.452 ; 2.067 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 989 ; 5.865 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 361 ;38.351 ;24.294 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1387 ;20.096 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;20.862 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1333 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6338 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 4940 ; 0.391 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7993 ; 0.772 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3764 ; 1.259 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3927 ; 2.079 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 233 A 331 REMARK 3 ORIGIN FOR THE GROUP (A): 38.2084 11.9867 16.2396 REMARK 3 T TENSOR REMARK 3 T11: -0.0939 T22: -0.1244 REMARK 3 T33: -0.1570 T12: 0.0382 REMARK 3 T13: 0.0149 T23: 0.0636 REMARK 3 L TENSOR REMARK 3 L11: 6.9397 L22: 3.4265 REMARK 3 L33: 4.3538 L12: 1.8614 REMARK 3 L13: -1.6834 L23: -2.2034 REMARK 3 S TENSOR REMARK 3 S11: 0.0477 S12: -0.1372 S13: 0.0471 REMARK 3 S21: 0.1947 S22: 0.1070 S23: 0.2260 REMARK 3 S31: -0.3788 S32: 0.0223 S33: -0.1547 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 332 A 411 REMARK 3 ORIGIN FOR THE GROUP (A): 38.3642 -4.4753 46.4072 REMARK 3 T TENSOR REMARK 3 T11: 0.0477 T22: -0.0435 REMARK 3 T33: -0.1160 T12: 0.1902 REMARK 3 T13: 0.0805 T23: 0.0066 REMARK 3 L TENSOR REMARK 3 L11: 0.5268 L22: 2.5295 REMARK 3 L33: 3.0740 L12: -0.2996 REMARK 3 L13: 0.6261 L23: -0.1010 REMARK 3 S TENSOR REMARK 3 S11: -0.1605 S12: -0.0300 S13: 0.1717 REMARK 3 S21: 0.1650 S22: 0.3536 S23: -0.0528 REMARK 3 S31: -0.6574 S32: -0.4296 S33: -0.1931 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 619 A 708 REMARK 3 ORIGIN FOR THE GROUP (A): 27.8924 -12.4281 57.1160 REMARK 3 T TENSOR REMARK 3 T11: -0.0914 T22: 0.2818 REMARK 3 T33: -0.1948 T12: 0.3122 REMARK 3 T13: 0.1107 T23: 0.1050 REMARK 3 L TENSOR REMARK 3 L11: 1.7111 L22: 3.6482 REMARK 3 L33: 2.8538 L12: -0.0120 REMARK 3 L13: -0.7749 L23: 0.2808 REMARK 3 S TENSOR REMARK 3 S11: -0.0727 S12: -0.2165 S13: -0.1141 REMARK 3 S21: 0.4400 S22: 0.2442 S23: 0.3224 REMARK 3 S31: -0.3418 S32: -1.0216 S33: -0.1716 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 716 A 772 REMARK 3 ORIGIN FOR THE GROUP (A): 23.6364 1.4188 48.9645 REMARK 3 T TENSOR REMARK 3 T11: 0.1447 T22: 0.3369 REMARK 3 T33: -0.0921 T12: 0.5460 REMARK 3 T13: 0.1561 T23: 0.1148 REMARK 3 L TENSOR REMARK 3 L11: 0.6096 L22: 1.0290 REMARK 3 L33: 8.2219 L12: 0.1770 REMARK 3 L13: 1.5894 L23: 0.4039 REMARK 3 S TENSOR REMARK 3 S11: -0.2881 S12: -0.5017 S13: 0.0821 REMARK 3 S21: 0.3759 S22: 0.5005 S23: 0.2951 REMARK 3 S31: -0.8240 S32: -1.7698 S33: -0.2124 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 773 A 825 REMARK 3 ORIGIN FOR THE GROUP (A): 38.6683 -1.1783 53.3823 REMARK 3 T TENSOR REMARK 3 T11: 0.1036 T22: -0.0155 REMARK 3 T33: -0.1919 T12: 0.2770 REMARK 3 T13: 0.0434 T23: 0.0064 REMARK 3 L TENSOR REMARK 3 L11: 0.7698 L22: 2.7929 REMARK 3 L33: 2.3983 L12: -1.0055 REMARK 3 L13: -0.1540 L23: -0.4005 REMARK 3 S TENSOR REMARK 3 S11: -0.2083 S12: -0.3267 S13: 0.1679 REMARK 3 S21: 0.5098 S22: 0.5394 S23: -0.3862 REMARK 3 S31: -0.7219 S32: -0.4012 S33: -0.3310 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 826 A 996 REMARK 3 ORIGIN FOR THE GROUP (A): 55.6121 -44.6768 25.9865 REMARK 3 T TENSOR REMARK 3 T11: -0.0101 T22: -0.1509 REMARK 3 T33: -0.0512 T12: -0.0006 REMARK 3 T13: -0.0340 T23: -0.0040 REMARK 3 L TENSOR REMARK 3 L11: 1.4144 L22: 1.2930 REMARK 3 L33: 2.8199 L12: -0.2406 REMARK 3 L13: -0.2327 L23: -0.1287 REMARK 3 S TENSOR REMARK 3 S11: 0.0890 S12: 0.0163 S13: -0.1739 REMARK 3 S21: -0.0492 S22: -0.0320 S23: -0.1285 REMARK 3 S31: 0.5638 S32: 0.1901 S33: -0.0569 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 997 A 1122 REMARK 3 ORIGIN FOR THE GROUP (A): 34.3961 -24.5378 31.5109 REMARK 3 T TENSOR REMARK 3 T11: -0.1116 T22: 0.0499 REMARK 3 T33: -0.0683 T12: -0.0196 REMARK 3 T13: 0.0169 T23: 0.0554 REMARK 3 L TENSOR REMARK 3 L11: 0.2428 L22: 0.7389 REMARK 3 L33: 0.3734 L12: 0.0222 REMARK 3 L13: 0.0115 L23: -0.1067 REMARK 3 S TENSOR REMARK 3 S11: 0.0188 S12: -0.0146 S13: -0.0782 REMARK 3 S21: -0.0185 S22: 0.1687 S23: 0.1499 REMARK 3 S31: 0.0546 S32: -0.2712 S33: -0.1875 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1123 A 1307 REMARK 3 ORIGIN FOR THE GROUP (A): 51.4769 -28.6095 9.8977 REMARK 3 T TENSOR REMARK 3 T11: -0.0558 T22: -0.0780 REMARK 3 T33: -0.0944 T12: -0.0408 REMARK 3 T13: 0.0233 T23: -0.0159 REMARK 3 L TENSOR REMARK 3 L11: 1.9459 L22: 0.5855 REMARK 3 L33: 1.2568 L12: 0.6535 REMARK 3 L13: 0.5308 L23: -0.1364 REMARK 3 S TENSOR REMARK 3 S11: -0.0005 S12: 0.1668 S13: -0.0080 REMARK 3 S21: -0.1406 S22: 0.0461 S23: -0.0466 REMARK 3 S31: -0.0699 S32: 0.0820 S33: -0.0456 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1308 A 1359 REMARK 3 ORIGIN FOR THE GROUP (A): 25.5823 -30.3855 1.1107 REMARK 3 T TENSOR REMARK 3 T11: -0.0996 T22: -0.0148 REMARK 3 T33: -0.0931 T12: -0.0641 REMARK 3 T13: -0.0104 T23: 0.0757 REMARK 3 L TENSOR REMARK 3 L11: 4.6777 L22: 5.3590 REMARK 3 L33: 3.8951 L12: 2.3403 REMARK 3 L13: 1.5058 L23: -1.0652 REMARK 3 S TENSOR REMARK 3 S11: -0.0377 S12: 0.3478 S13: 0.5815 REMARK 3 S21: -0.1575 S22: -0.0106 S23: 0.4480 REMARK 3 S31: -0.3113 S32: -0.4135 S33: 0.0483 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1360 A 1444 REMARK 3 ORIGIN FOR THE GROUP (A): 9.0143 -45.2742 12.4399 REMARK 3 T TENSOR REMARK 3 T11: -0.0503 T22: 0.0533 REMARK 3 T33: -0.0866 T12: -0.1044 REMARK 3 T13: -0.0274 T23: 0.0172 REMARK 3 L TENSOR REMARK 3 L11: 8.0754 L22: 0.9586 REMARK 3 L33: 0.2821 L12: 2.7721 REMARK 3 L13: -1.2153 L23: -0.3909 REMARK 3 S TENSOR REMARK 3 S11: 0.0988 S12: -0.4760 S13: -0.2170 REMARK 3 S21: 0.2034 S22: -0.1870 S23: -0.0248 REMARK 3 S31: -0.0115 S32: -0.0272 S33: 0.0882 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : P 5 P 17 REMARK 3 RESIDUE RANGE : T 1 T 18 REMARK 3 ORIGIN FOR THE GROUP (A): 23.5739 -24.4585 19.9520 REMARK 3 T TENSOR REMARK 3 T11: -0.1237 T22: 0.1708 REMARK 3 T33: 0.1447 T12: -0.0816 REMARK 3 T13: -0.0485 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 1.6546 L22: 1.2605 REMARK 3 L33: 1.3780 L12: -0.8080 REMARK 3 L13: -0.4813 L23: 1.2704 REMARK 3 S TENSOR REMARK 3 S11: -0.1848 S12: -0.0209 S13: -0.1744 REMARK 3 S21: -0.1200 S22: -0.1999 S23: 0.4812 REMARK 3 S31: 0.3065 S32: -0.5138 S33: 0.3847 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3F2C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1000050058. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.30 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51829 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 43.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.58900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3F2B REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 2000 MME, 0.1M PHOSPHATE REMARK 280 CITRATE, 200MM LITHIUM SULFATE, 2 MM MNCL2, PH 5.3, VAPOR REMARK 280 DIFFUSION , PH 5.30, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 92.37000 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 92.37000 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 57.94450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 70.59250 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 57.94450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 70.59250 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 92.37000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 57.94450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 70.59250 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 92.37000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 57.94450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 70.59250 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYMMETRIC UNIT 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: 6420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, P, T 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 A 227 REMARK 465 ARG A 228 REMARK 465 ASP A 229 REMARK 465 GLU A 230 REMARK 465 GLU A 231 REMARK 465 PRO A 232 REMARK 465 GLY A 412 REMARK 465 VAL A 413 REMARK 465 PRO A 414 REMARK 465 ILE A 415 REMARK 465 ALA A 416 REMARK 465 TYR A 417 REMARK 465 ASN A 418 REMARK 465 GLU A 419 REMARK 465 THR A 420 REMARK 465 HIS A 421 REMARK 465 ARG A 422 REMARK 465 ARG A 423 REMARK 465 LEU A 424 REMARK 465 GLY A 425 REMARK 465 SER A 426 REMARK 465 GLY A 427 REMARK 465 SER A 428 REMARK 465 GLY A 429 REMARK 465 LEU A 679 REMARK 465 ILE A 680 REMARK 465 GLN A 681 REMARK 465 LYS A 682 REMARK 465 ALA A 683 REMARK 465 PRO A 684 REMARK 465 GLU A 685 REMARK 465 GLU A 686 REMARK 465 ILE A 709 REMARK 465 GLU A 710 REMARK 465 MET A 711 REMARK 465 ASP A 712 REMARK 465 TYR A 713 REMARK 465 SER A 1445 REMARK 465 GLY A 1446 REMARK 465 GLY A 1447 REMARK 465 HIS A 1448 REMARK 465 HIS A 1449 REMARK 465 HIS A 1450 REMARK 465 HIS A 1451 REMARK 465 HIS A 1452 REMARK 465 HIS A 1453 REMARK 465 HIS A 1454 REMARK 465 HIS A 1455 REMARK 465 DC P 1 REMARK 465 DA P 2 REMARK 465 DG P 3 REMARK 465 DT P 4 REMARK 465 DA T 19 REMARK 465 DC T 20 REMARK 465 DT T 21 REMARK 465 DG T 22 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 ARG A 244 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 261 CG CD CE NZ REMARK 470 ARG A 305 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 330 CG OD1 ND2 REMARK 470 GLU A 340 CG CD OE1 OE2 REMARK 470 ARG A 648 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 706 CG CD CE NZ REMARK 470 LEU A 708 CG CD1 CD2 REMARK 470 VAL A 714 CG1 CG2 REMARK 470 LYS A 715 CG CD CE NZ REMARK 470 ARG A 770 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 771 CG ND1 CD2 CE1 NE2 REMARK 470 ASP A 969 CG OD1 OD2 REMARK 470 LYS A1232 CG CD CE NZ REMARK 470 DC P 17 O3' 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 SG CYS A 947 OG1 THR A 949 2.05 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 ARG A 725 CD ARG A 725 NE 0.152 REMARK 500 ARG A 725 NE ARG A 725 CZ 0.116 REMARK 500 ARG A 725 CZ ARG A 725 NH1 0.122 REMARK 500 ARG A 725 CZ ARG A 725 NH2 0.117 REMARK 500 DC P 16 O4' DC P 16 C1' -0.073 REMARK 500 DT T 8 O4' DT T 8 C1' 0.089 REMARK 500 DT T 8 O4' DT T 8 C4' -0.171 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 ARG A 725 NE - CZ - NH2 ANGL. DEV. = -4.9 DEGREES REMARK 500 LEU A1441 CA - CB - CG ANGL. DEV. = 14.4 DEGREES REMARK 500 DG P 7 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 DG P 12 O4' - C1' - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DC P 16 C5' - C4' - O4' ANGL. DEV. = 10.0 DEGREES REMARK 500 DC P 16 O4' - C1' - N1 ANGL. DEV. = 12.6 DEGREES REMARK 500 DT T 8 O5' - P - OP2 ANGL. DEV. = -5.7 DEGREES REMARK 500 DT T 8 O4' - C4' - C3' ANGL. DEV. = 7.0 DEGREES REMARK 500 DT T 8 C5' - C4' - O4' ANGL. DEV. = 11.3 DEGREES REMARK 500 DT T 8 N1 - C1' - C2' ANGL. DEV. = -23.7 DEGREES REMARK 500 DT T 8 O4' - C1' - N1 ANGL. DEV. = 20.3 DEGREES REMARK 500 DT T 8 N3 - C4 - O4 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC T 13 O5' - C5' - C4' ANGL. DEV. = -5.1 DEGREES REMARK 500 DT T 15 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT T 15 C4 - C5 - C7 ANGL. DEV. = 4.4 DEGREES REMARK 500 DT T 15 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 DC T 16 C3' - O3' - P ANGL. DEV. = 8.7 DEGREES REMARK 500 DT T 17 C4' - C3' - C2' ANGL. DEV. = -6.0 DEGREES REMARK 500 DT T 17 O4' - C1' - N1 ANGL. DEV. = 6.7 DEGREES REMARK 500 DC T 18 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC T 18 N1 - C2 - O2 ANGL. DEV. = 4.7 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 TYR A 274 2.14 83.52 REMARK 500 ASN A 276 -167.96 -168.39 REMARK 500 ASN A 330 68.27 30.50 REMARK 500 ARG A 332 118.99 -32.12 REMARK 500 GLN A 353 119.10 -28.35 REMARK 500 ALA A 381 -5.50 62.21 REMARK 500 LEU A 404 126.20 -175.07 REMARK 500 ILE A 643 -88.89 -110.55 REMARK 500 HIS A 647 -90.39 -96.10 REMARK 500 CYS A 670 -172.21 -58.38 REMARK 500 ASP A 677 19.24 -69.58 REMARK 500 PRO A 707 105.91 -57.54 REMARK 500 PRO A 767 54.61 25.00 REMARK 500 VAL A 801 -54.47 -120.37 REMARK 500 ASN A 921 -76.93 -107.77 REMARK 500 LYS A 923 10.09 80.66 REMARK 500 ASP A 930 -18.75 -47.38 REMARK 500 PRO A 945 7.68 -58.18 REMARK 500 MET A1061 -166.32 -120.83 REMARK 500 GLN A1070 -168.13 -171.44 REMARK 500 ALA A1073 15.34 53.43 REMARK 500 HIS A1091 -35.65 -36.22 REMARK 500 ASP A1125 30.67 -148.73 REMARK 500 CYS A1148 142.62 -170.45 REMARK 500 GLU A1157 -43.89 70.60 REMARK 500 ARG A1171 58.33 37.43 REMARK 500 ASN A1194 -103.81 -140.46 REMARK 500 GLU A1307 -1.79 -140.07 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 MN A 1 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 973 OD2 REMARK 620 2 ASP A 975 OD2 89.9 REMARK 620 3 DGT A1456 O1B 168.3 92.7 REMARK 620 4 DGT A1456 O2A 95.1 99.3 95.6 REMARK 620 5 DGT A1456 O2G 89.1 174.2 87.1 86.4 REMARK 620 6 HOH A1457 O 78.6 84.9 90.3 172.5 89.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 2 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 620 ND1 REMARK 620 2 CYS A 670 SG 165.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 3 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 346 NE2 REMARK 620 2 HIS A 348 NE2 98.7 REMARK 620 3 GLU A 405 OE2 87.0 78.7 REMARK 620 4 ASN A 743 OD1 69.5 83.6 148.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 4 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 919 SG REMARK 620 2 CYS A 922 SG 111.1 REMARK 620 3 CYS A 944 SG 119.2 91.1 REMARK 620 4 CYS A 947 SG 87.0 121.2 129.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DGT A1456 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3F2B RELATED DB: PDB REMARK 900 SAME PROTEIN-DNA COMPLEX CRYSTALLIZED WITH MG AND ZN REMARK 900 RELATED ID: 3F2D RELATED DB: PDB REMARK 900 SAME PROTEIN-DNA COMPLEX CRYSTALLIZED WITH COMPLEX WITH DGTP, MN REMARK 900 AND ZN DBREF 3F2C A 228 424 UNP Q5L0J3 Q5L0J3_GEOKA 227 423 DBREF 3F2C A 618 1444 UNP Q5L0J3 Q5L0J3_GEOKA 618 1444 DBREF 3F2C P 1 17 PDB 3F2C 3F2C 1 17 DBREF 3F2C T 1 22 PDB 3F2C 3F2C 1 22 SEQADV 3F2C MET A 227 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C GLY A 425 UNP Q5L0J3 LINKER SEQADV 3F2C SER A 426 UNP Q5L0J3 LINKER SEQADV 3F2C GLY A 427 UNP Q5L0J3 LINKER SEQADV 3F2C SER A 428 UNP Q5L0J3 LINKER SEQADV 3F2C GLY A 429 UNP Q5L0J3 LINKER SEQADV 3F2C SER A 1445 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C GLY A 1446 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C GLY A 1447 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C HIS A 1448 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C HIS A 1449 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C HIS A 1450 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C HIS A 1451 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C HIS A 1452 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C HIS A 1453 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C HIS A 1454 UNP Q5L0J3 EXPRESSION TAG SEQADV 3F2C HIS A 1455 UNP Q5L0J3 EXPRESSION TAG SEQRES 1 A 1041 MET ARG ASP GLU GLU PRO VAL ARG ARG LEU GLU THR ILE SEQRES 2 A 1041 VAL GLU GLU GLU ARG ARG VAL VAL VAL GLN GLY TYR VAL SEQRES 3 A 1041 PHE ASP ALA GLU VAL SER GLU LEU LYS SER GLY ARG THR SEQRES 4 A 1041 LEU LEU THR MET LYS ILE THR ASP TYR THR ASN SER ILE SEQRES 5 A 1041 LEU VAL LYS MET PHE SER ARG ASP LYS GLU ASP ALA GLU SEQRES 6 A 1041 LEU MET SER GLY VAL LYS LYS GLY MET TRP VAL LYS VAL SEQRES 7 A 1041 ARG GLY SER VAL GLN ASN ASP THR PHE VAL ARG ASP LEU SEQRES 8 A 1041 VAL ILE ILE ALA ASN ASP LEU ASN GLU ILE ALA ALA ASN SEQRES 9 A 1041 GLU ARG GLN ASP THR ALA PRO GLU GLY GLU LYS ARG VAL SEQRES 10 A 1041 GLU LEU HIS LEU HIS THR PRO MET SER GLN MET ASP ALA SEQRES 11 A 1041 VAL THR SER VAL THR LYS LEU ILE GLU GLN ALA LYS LYS SEQRES 12 A 1041 TRP GLY HIS PRO ALA ILE ALA VAL THR ASP HIS ALA VAL SEQRES 13 A 1041 VAL GLN SER PHE PRO GLU ALA TYR SER ALA ALA LYS LYS SEQRES 14 A 1041 HIS GLY MET LYS VAL ILE TYR GLY LEU GLU ALA ASN ILE SEQRES 15 A 1041 VAL ASP ASP GLY VAL PRO ILE ALA TYR ASN GLU THR HIS SEQRES 16 A 1041 ARG ARG LEU GLY SER GLY SER GLY PRO PHE HIS VAL THR SEQRES 17 A 1041 LEU LEU ALA GLN ASN GLU THR GLY LEU LYS ASN LEU PHE SEQRES 18 A 1041 LYS LEU VAL SER LEU SER HIS ILE GLN TYR PHE HIS ARG SEQRES 19 A 1041 VAL PRO ARG ILE PRO ARG SER VAL LEU VAL LYS HIS ARG SEQRES 20 A 1041 ASP GLY LEU LEU VAL GLY SER GLY CYS ASP LYS GLY GLU SEQRES 21 A 1041 LEU PHE ASP ASN LEU ILE GLN LYS ALA PRO GLU GLU VAL SEQRES 22 A 1041 GLU ASP ILE ALA ARG PHE TYR ASP PHE LEU GLU VAL HIS SEQRES 23 A 1041 PRO PRO ASP VAL TYR LYS PRO LEU ILE GLU MET ASP TYR SEQRES 24 A 1041 VAL LYS ASP GLU GLU MET ILE LYS ASN ILE ILE ARG SER SEQRES 25 A 1041 ILE VAL ALA LEU GLY GLU LYS LEU ASP ILE PRO VAL VAL SEQRES 26 A 1041 ALA THR GLY ASN VAL HIS TYR LEU ASN PRO GLU ASP LYS SEQRES 27 A 1041 ILE TYR ARG LYS ILE LEU ILE HIS SER GLN GLY GLY ALA SEQRES 28 A 1041 ASN PRO LEU ASN ARG HIS GLU LEU PRO ASP VAL TYR PHE SEQRES 29 A 1041 ARG THR THR ASN GLU MET LEU ASP CYS PHE SER PHE LEU SEQRES 30 A 1041 GLY PRO GLU LYS ALA LYS GLU ILE VAL VAL ASP ASN THR SEQRES 31 A 1041 GLN LYS ILE ALA SER LEU ILE GLY ASP VAL LYS PRO ILE SEQRES 32 A 1041 LYS ASP GLU LEU TYR THR PRO ARG ILE GLU GLY ALA ASP SEQRES 33 A 1041 GLU GLU ILE ARG GLU MET SER TYR ARG ARG ALA LYS GLU SEQRES 34 A 1041 ILE TYR GLY ASP PRO LEU PRO LYS LEU VAL GLU GLU ARG SEQRES 35 A 1041 LEU GLU LYS GLU LEU LYS SER ILE ILE GLY HIS GLY PHE SEQRES 36 A 1041 ALA VAL ILE TYR LEU ILE SER HIS LYS LEU VAL LYS LYS SEQRES 37 A 1041 SER LEU ASP ASP GLY TYR LEU VAL GLY SER ARG GLY SER SEQRES 38 A 1041 VAL GLY SER SER PHE VAL ALA THR MET THR GLU ILE THR SEQRES 39 A 1041 GLU VAL ASN PRO LEU PRO PRO HIS TYR VAL CYS PRO ASN SEQRES 40 A 1041 CYS LYS HIS SER GLU PHE PHE ASN ASP GLY SER VAL GLY SEQRES 41 A 1041 SER GLY PHE ASP LEU PRO ASP LYS ASN CYS PRO ARG CYS SEQRES 42 A 1041 GLY THR LYS TYR LYS LYS ASP GLY HIS ASP ILE PRO PHE SEQRES 43 A 1041 GLU THR PHE LEU GLY PHE LYS GLY ASP LYS VAL PRO ASP SEQRES 44 A 1041 ILE ASP LEU ASN PHE SER GLY GLU TYR GLN PRO ARG ALA SEQRES 45 A 1041 HIS ASN TYR THR LYS VAL LEU PHE GLY GLU ASP ASN VAL SEQRES 46 A 1041 TYR ARG ALA GLY THR ILE GLY THR VAL ALA ASP LYS THR SEQRES 47 A 1041 ALA TYR GLY PHE VAL LYS ALA TYR ALA SER ASP HIS ASN SEQRES 48 A 1041 LEU GLU LEU ARG GLY ALA GLU ILE ASP ARG LEU ALA ALA SEQRES 49 A 1041 GLY CYS THR GLY VAL LYS ARG THR THR GLY GLN HIS PRO SEQRES 50 A 1041 GLY GLY ILE ILE VAL VAL PRO ASP TYR MET GLU ILE TYR SEQRES 51 A 1041 ASP PHE THR PRO ILE GLN TYR PRO ALA ASP ASP THR SER SEQRES 52 A 1041 SER GLU TRP ARG THR THR HIS PHE ASP PHE HIS SER ILE SEQRES 53 A 1041 HIS ASP ASN LEU LEU LYS LEU ASP ILE LEU GLY HIS ASP SEQRES 54 A 1041 ASP PRO THR VAL ILE ARG MET LEU GLN ASP LEU SER GLY SEQRES 55 A 1041 ILE ASP PRO LYS THR ILE PRO THR ASP ASP PRO ASP VAL SEQRES 56 A 1041 MET GLY ILE PHE SER SER THR GLU PRO LEU GLY VAL THR SEQRES 57 A 1041 PRO GLU GLN ILE MET CYS ASN VAL GLY THR ILE GLY ILE SEQRES 58 A 1041 PRO GLU PHE GLY THR ARG PHE VAL ARG GLN MET LEU GLU SEQRES 59 A 1041 GLU THR ARG PRO LYS THR PHE SER GLU LEU VAL GLN ILE SEQRES 60 A 1041 SER GLY LEU SER HIS GLY THR ASP VAL TRP LEU GLY ASN SEQRES 61 A 1041 ALA GLN GLU LEU ILE GLN ASN GLY THR CYS THR LEU SER SEQRES 62 A 1041 GLU VAL ILE GLY CYS ARG ASP ASP ILE MET VAL TYR LEU SEQRES 63 A 1041 ILE TYR ARG GLY LEU GLU PRO SER LEU ALA PHE LYS ILE SEQRES 64 A 1041 MET GLU SER VAL ARG LYS GLY LYS GLY LEU THR PRO GLU SEQRES 65 A 1041 PHE GLU ALA GLU MET ARG LYS HIS ASP VAL PRO GLU TRP SEQRES 66 A 1041 TYR ILE ASP SER CYS LYS LYS ILE LYS TYR MET PHE PRO SEQRES 67 A 1041 LYS ALA HIS ALA ALA ALA TYR VAL LEU MET ALA VAL ARG SEQRES 68 A 1041 ILE ALA TYR PHE LYS VAL HIS HIS PRO LEU LEU TYR TYR SEQRES 69 A 1041 ALA SER TYR PHE THR VAL ARG ALA GLU ASP PHE ASP LEU SEQRES 70 A 1041 ASP ALA MET ILE LYS GLY SER ALA ALA ILE ARG LYS ARG SEQRES 71 A 1041 ILE GLU GLU ILE ASN ALA LYS GLY ILE GLN ALA THR ALA SEQRES 72 A 1041 LYS GLU LYS SER LEU LEU THR VAL LEU GLU VAL ALA LEU SEQRES 73 A 1041 GLU MET CYS GLU ARG GLY PHE SER PHE LYS ASN ILE ASP SEQRES 74 A 1041 LEU TYR ARG SER GLN ALA THR GLU PHE VAL ILE ASP GLY SEQRES 75 A 1041 ASN SER LEU ILE PRO PRO PHE ASN ALA ILE PRO GLY LEU SEQRES 76 A 1041 GLY THR ASN VAL ALA GLN ALA ILE VAL ARG ALA ARG GLU SEQRES 77 A 1041 GLU GLY GLU PHE LEU SER LYS GLU ASP LEU GLN GLN ARG SEQRES 78 A 1041 GLY LYS LEU SER LYS THR LEU LEU GLU TYR LEU GLU SER SEQRES 79 A 1041 ARG GLY CYS LEU ASP SER LEU PRO ASP HIS ASN GLN LEU SEQRES 80 A 1041 SER LEU PHE SER GLY GLY HIS HIS HIS HIS HIS HIS HIS SEQRES 81 A 1041 HIS SEQRES 1 P 17 DC DA DG DT DG DA DG DA DC DG DG DG DC SEQRES 2 P 17 DA DA DC DC SEQRES 1 T 22 DA DT DA DA DC DG DG DT DT DG DC DC DC SEQRES 2 T 22 DG DT DC DT DC DA DC DT DG HET MN A 1 1 HET MN A 2 1 HET MN A 3 1 HET ZN A 4 1 HET SO4 A 5 5 HET DGT A1456 31 HETNAM MN MANGANESE (II) ION HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETNAM DGT 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE FORMUL 4 MN 3(MN 2+) FORMUL 7 ZN ZN 2+ FORMUL 8 SO4 O4 S 2- FORMUL 9 DGT C10 H16 N5 O13 P3 FORMUL 10 HOH *155(H2 O) HELIX 1 1 ARG A 235 ILE A 239 5 5 HELIX 2 2 ASP A 286 SER A 294 1 9 HELIX 3 3 SER A 359 GLY A 371 1 13 HELIX 4 4 SER A 385 GLY A 397 1 13 HELIX 5 5 ASN A 627 ILE A 643 1 17 HELIX 6 6 ARG A 654 HIS A 660 1 7 HELIX 7 7 GLU A 688 PHE A 693 1 6 HELIX 8 8 PRO A 701 LYS A 706 5 6 HELIX 9 9 ASP A 716 LEU A 734 1 19 HELIX 10 10 ASN A 748 GLU A 750 5 3 HELIX 11 11 ASP A 751 SER A 761 1 11 HELIX 12 12 GLN A 762 ASN A 766 5 5 HELIX 13 13 THR A 780 PHE A 788 1 9 HELIX 14 14 SER A 789 LEU A 791 5 3 HELIX 15 15 GLY A 792 VAL A 801 1 10 HELIX 16 16 VAL A 801 LEU A 810 1 10 HELIX 17 17 GLY A 828 GLY A 846 1 19 HELIX 18 18 PRO A 850 HIS A 867 1 18 HELIX 19 19 PHE A 869 ASP A 886 1 18 HELIX 20 20 GLY A 894 SER A 898 5 5 HELIX 21 21 SER A 899 THR A 905 1 7 HELIX 22 22 SER A 935 LEU A 939 5 5 HELIX 23 23 PHE A 960 GLY A 965 1 6 HELIX 24 24 TYR A 982 GLY A 995 1 14 HELIX 25 25 ALA A 1009 HIS A 1024 1 16 HELIX 26 26 ARG A 1029 THR A 1041 1 13 HELIX 27 27 GLU A 1062 PHE A 1066 5 5 HELIX 28 28 TYR A 1071 ASP A 1075 5 5 HELIX 29 29 ASP A 1086 HIS A 1091 1 6 HELIX 30 30 ASP A 1103 GLY A 1116 1 14 HELIX 31 31 ASP A 1118 ILE A 1122 5 5 HELIX 32 32 ASP A 1126 GLY A 1131 1 6 HELIX 33 33 ILE A 1132 SER A 1134 5 3 HELIX 34 34 THR A 1136 GLY A 1140 5 5 HELIX 35 35 THR A 1142 MET A 1147 1 6 HELIX 36 36 THR A 1160 ARG A 1171 1 12 HELIX 37 37 THR A 1174 SER A 1185 1 12 HELIX 38 38 ASN A 1194 ASN A 1201 1 8 HELIX 39 39 THR A 1205 VAL A 1209 5 5 HELIX 40 40 CYS A 1212 ARG A 1223 1 12 HELIX 41 41 GLU A 1226 LYS A 1239 1 14 HELIX 42 42 THR A 1244 HIS A 1254 1 11 HELIX 43 43 PRO A 1257 ILE A 1267 1 11 HELIX 44 44 PRO A 1272 HIS A 1293 1 22 HELIX 45 45 HIS A 1293 ARG A 1305 1 13 HELIX 46 46 ASP A 1310 GLY A 1317 1 8 HELIX 47 47 GLY A 1317 ALA A 1330 1 14 HELIX 48 48 LYS A 1331 ALA A 1335 5 5 HELIX 49 49 THR A 1336 ARG A 1355 1 20 HELIX 50 50 PRO A 1382 ILE A 1386 5 5 HELIX 51 51 GLY A 1390 GLY A 1404 1 15 HELIX 52 52 SER A 1408 GLY A 1416 1 9 HELIX 53 53 SER A 1419 ARG A 1429 1 11 SHEET 1 A 6 GLU A 243 GLU A 259 0 SHEET 2 A 6 THR A 265 THR A 272 -1 O LEU A 266 N SER A 258 SHEET 3 A 6 SER A 277 PHE A 283 -1 O VAL A 280 N MET A 269 SHEET 4 A 6 ASP A 316 ILE A 327 1 O ILE A 319 N LYS A 281 SHEET 5 A 6 TRP A 301 ASP A 311 -1 N SER A 307 O ILE A 320 SHEET 6 A 6 GLU A 243 GLU A 259 -1 N GLU A 243 O VAL A 308 SHEET 1 B 3 ILE A 375 VAL A 377 0 SHEET 2 B 3 VAL A 400 VAL A 409 1 O ILE A 401 N ILE A 375 SHEET 3 B 3 ILE A 652 PRO A 653 1 O ILE A 652 N ASN A 407 SHEET 1 C 4 ILE A 375 VAL A 377 0 SHEET 2 C 4 VAL A 400 VAL A 409 1 O ILE A 401 N ILE A 375 SHEET 3 C 4 PHE A 619 ALA A 625 -1 O LEU A 623 N LEU A 404 SHEET 4 C 4 LEU A 664 GLY A 667 -1 O GLY A 667 N THR A 622 SHEET 1 D 2 LEU A 697 VAL A 699 0 SHEET 2 D 2 VAL A 738 ALA A 740 1 O VAL A 739 N LEU A 697 SHEET 1 E 5 GLY A 891 SER A 892 0 SHEET 2 E 5 ILE A 974 SER A 979 -1 O ASN A 977 N GLY A 891 SHEET 3 E 5 LYS A1096 HIS A1102 1 O LEU A1100 N LEU A 976 SHEET 4 E 5 LYS A1044 VAL A1056 -1 N ILE A1054 O LEU A1097 SHEET 5 E 5 VAL A 999 THR A1007 -1 N GLY A1006 O ARG A1045 SHEET 1 F 3 SER A 925 PHE A 927 0 SHEET 2 F 3 HIS A 916 VAL A 918 -1 N TYR A 917 O GLU A 926 SHEET 3 F 3 LYS A 952 ASP A 954 -1 O LYS A 952 N VAL A 918 SHEET 1 G 2 ILE A1069 GLN A1070 0 SHEET 2 G 2 THR A1082 THR A1083 -1 O THR A1082 N GLN A1070 SHEET 1 H 3 SER A1358 PHE A1359 0 SHEET 2 H 3 SER A1378 ILE A1380 1 O LEU A1379 N SER A1358 SHEET 3 H 3 VAL A1373 ASP A1375 -1 N ASP A1375 O SER A1378 LINK MN MN A 1 OD2 ASP A 973 1555 1555 2.05 LINK MN MN A 1 OD2 ASP A 975 1555 1555 2.11 LINK MN MN A 1 O1B DGT A1456 1555 1555 2.06 LINK MN MN A 1 O2A DGT A1456 1555 1555 2.04 LINK MN MN A 1 O2G DGT A1456 1555 1555 2.23 LINK MN MN A 1 O HOH A1457 1555 1555 2.17 LINK MN MN A 2 ND1 HIS A 620 1555 1555 2.17 LINK MN MN A 2 SG CYS A 670 1555 1555 2.41 LINK MN MN A 3 NE2 HIS A 346 1555 1555 2.34 LINK MN MN A 3 NE2 HIS A 348 1555 1555 2.53 LINK MN MN A 3 OE2 GLU A 405 1555 1555 2.09 LINK MN MN A 3 OD1 ASN A 743 1555 1555 2.29 LINK ZN ZN A 4 SG CYS A 919 1555 1555 2.59 LINK ZN ZN A 4 SG CYS A 922 1555 1555 2.19 LINK ZN ZN A 4 SG CYS A 944 1555 1555 2.25 LINK ZN ZN A 4 SG CYS A 947 1555 1555 2.70 CISPEP 1 ASP A 847 PRO A 848 0 3.49 SITE 1 AC1 4 ASP A 973 ASP A 975 DGT A1456 HOH A1457 SITE 1 AC2 5 MN A 3 SO4 A 5 GLU A 405 HIS A 620 SITE 2 AC2 5 CYS A 670 SITE 1 AC3 7 MN A 2 SO4 A 5 HIS A 346 HIS A 348 SITE 2 AC3 7 GLU A 405 CYS A 670 ASN A 743 SITE 1 AC4 5 CYS A 919 CYS A 922 CYS A 944 CYS A 947 SITE 2 AC4 5 THR A 949 SITE 1 AC5 9 MN A 2 MN A 3 HIS A 348 ASP A 355 SITE 2 AC5 9 GLU A 405 HIS A 620 LYS A 672 ASN A 743 SITE 3 AC5 9 HIS A 745 SITE 1 AC6 25 MN A 1 HOH A 7 HOH A 105 HOH A 124 SITE 2 AC6 25 HOH A 135 HOH A 144 HOH A 155 ARG A 893 SITE 3 AC6 25 GLY A 894 SER A 895 LYS A 970 PRO A 972 SITE 4 AC6 25 ASP A 973 ASP A 975 HIS A1186 ARG A1213 SITE 5 AC6 25 ARG A1238 TYR A1269 PHE A1271 PRO A1272 SITE 6 AC6 25 HIS A1275 HOH A1457 DC P 17 DC T 5 SITE 7 AC6 25 DG T 6 CRYST1 115.889 141.185 184.740 90.00 90.00 90.00 C 2 2 21 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 0.008629 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005413 0.00000