HEADER TRANSFERASE/DNA 27-JUL-14 4QZ8 TITLE MOUSE TDT IN COMPLEX WITH A DSB SUBSTRATE, C-G BASE PAIR COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA NUCLEOTIDYLEXOTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEE REMARK 999; COMPND 5 SYNONYM: TERMINAL ADDITION ENZYME, TERMINAL COMPND 6 DEOXYNUCLEOTIDYLTRANSFERASE, TDT, TERMINAL TRANSFERASE; COMPND 7 EC: 2.7.7.31; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: 5'-D(*AP*AP*AP*AP*AP*C)-3'; COMPND 11 CHAIN: D, U; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: 5'-D(*TP*TP*TP*TP*TP*GP*G)-3'; COMPND 15 CHAIN: T; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: DNTT, TDT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 MOL_ID: 3; SOURCE 11 SYNTHETIC: YES KEYWDS TERMINAL DEOXYNUCLEOTIDYLTRANSFERASE, NUCLEUS, TRANSFERASE-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.GOUGE,M.DELARUE REVDAT 3 20-SEP-23 4QZ8 1 REMARK SEQADV LINK REVDAT 2 26-JUL-17 4QZ8 1 SOURCE REMARK REVDAT 1 10-JUN-15 4QZ8 0 JRNL AUTH J.GOUGE,S.ROSARIO,F.ROMAIN,F.POITEVIN,P.BEGUIN,M.DELARUE JRNL TITL STRUCTURAL BASIS FOR A NOVEL MECHANISM OF DNA BRIDGING AND JRNL TITL 2 ALIGNMENT IN EUKARYOTIC DSB DNA REPAIR. JRNL REF EMBO J. V. 34 1126 2015 JRNL REFN ISSN 0261-4189 JRNL PMID 25762590 JRNL DOI 10.15252/EMBJ.201489643 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.1 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.41 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 14080 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 705 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 7 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.92 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.33 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2885 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2491 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2743 REMARK 3 BIN R VALUE (WORKING SET) : 0.2442 REMARK 3 BIN FREE R VALUE : 0.3472 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.92 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 142 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2642 REMARK 3 NUCLEIC ACID ATOMS : 367 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 89 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 91.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 88.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.96140 REMARK 3 B22 (A**2) : 2.04570 REMARK 3 B33 (A**2) : 3.91560 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 20.81610 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.490 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.801 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.298 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.798 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.301 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.925 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3159 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4362 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1322 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 61 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 425 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3159 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 1 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 417 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3369 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.97 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.68 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 2.96 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: {A|148 - 227} REMARK 3 ORIGIN FOR THE GROUP (A): -4.6279 7.9681 19.2064 REMARK 3 T TENSOR REMARK 3 T11: -0.0912 T22: 0.0340 REMARK 3 T33: -0.0824 T12: 0.1668 REMARK 3 T13: -0.0039 T23: -0.0948 REMARK 3 L TENSOR REMARK 3 L11: 3.4325 L22: 5.9739 REMARK 3 L33: 2.3812 L12: -2.9495 REMARK 3 L13: 0.1841 L23: 0.0759 REMARK 3 S TENSOR REMARK 3 S11: 0.1073 S12: -0.3013 S13: 0.3885 REMARK 3 S21: -0.2298 S22: -0.0032 S23: 0.5174 REMARK 3 S31: 0.1221 S32: -0.5918 S33: -0.1041 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: {A|228 - 354} REMARK 3 ORIGIN FOR THE GROUP (A): -2.0534 -1.2154 41.5905 REMARK 3 T TENSOR REMARK 3 T11: 0.0020 T22: -0.0776 REMARK 3 T33: -0.3246 T12: 0.0021 REMARK 3 T13: -0.1114 T23: -0.1532 REMARK 3 L TENSOR REMARK 3 L11: 6.2635 L22: 1.4583 REMARK 3 L33: 2.9653 L12: 0.8825 REMARK 3 L13: -0.9627 L23: 0.0177 REMARK 3 S TENSOR REMARK 3 S11: 0.3328 S12: -0.5498 S13: -0.4473 REMARK 3 S21: 0.5579 S22: -0.2590 S23: -0.0597 REMARK 3 S31: 0.1587 S32: 0.0018 S33: -0.0738 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: {A|355 - 429} REMARK 3 ORIGIN FOR THE GROUP (A): 10.6218 -4.0480 49.5748 REMARK 3 T TENSOR REMARK 3 T11: -0.2006 T22: 0.3040 REMARK 3 T33: -0.3445 T12: -0.0884 REMARK 3 T13: -0.1375 T23: 0.1080 REMARK 3 L TENSOR REMARK 3 L11: 6.7546 L22: 3.8499 REMARK 3 L33: 5.5358 L12: 1.8121 REMARK 3 L13: 2.9186 L23: -2.6848 REMARK 3 S TENSOR REMARK 3 S11: 0.2282 S12: -0.6106 S13: -0.3705 REMARK 3 S21: 0.3352 S22: -0.3313 S23: -0.1634 REMARK 3 S31: 0.1336 S32: 0.4357 S33: 0.1031 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: {A|430 - 510} REMARK 3 ORIGIN FOR THE GROUP (A): 16.5352 0.0107 26.0307 REMARK 3 T TENSOR REMARK 3 T11: -0.0838 T22: -0.0279 REMARK 3 T33: -0.0141 T12: 0.1682 REMARK 3 T13: -0.1088 T23: -0.1050 REMARK 3 L TENSOR REMARK 3 L11: 3.1017 L22: 2.3984 REMARK 3 L33: 3.5371 L12: -0.9678 REMARK 3 L13: -0.0822 L23: -0.3765 REMARK 3 S TENSOR REMARK 3 S11: 0.3129 S12: -0.5124 S13: 0.3781 REMARK 3 S21: -0.0924 S22: -0.1814 S23: -0.5625 REMARK 3 S31: 0.0475 S32: 0.4510 S33: -0.1315 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: {T|1 - 7} REMARK 3 ORIGIN FOR THE GROUP (A): 2.7465 -9.4400 14.7172 REMARK 3 T TENSOR REMARK 3 T11: 0.2095 T22: -0.1072 REMARK 3 T33: -0.1236 T12: 0.1585 REMARK 3 T13: -0.1105 T23: -0.0358 REMARK 3 L TENSOR REMARK 3 L11: 0.9513 L22: 5.9048 REMARK 3 L33: 7.6332 L12: -2.5754 REMARK 3 L13: 1.0776 L23: -2.5927 REMARK 3 S TENSOR REMARK 3 S11: -0.1554 S12: 0.0749 S13: -0.3236 REMARK 3 S21: -0.4457 S22: 0.4198 S23: -0.4320 REMARK 3 S31: 0.5639 S32: -0.2815 S33: -0.2644 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: {U|1 - 6} REMARK 3 ORIGIN FOR THE GROUP (A): 0.7927 -15.7157 36.9977 REMARK 3 T TENSOR REMARK 3 T11: 0.0399 T22: -0.2897 REMARK 3 T33: 0.2591 T12: 0.0220 REMARK 3 T13: -0.1786 T23: -0.1301 REMARK 3 L TENSOR REMARK 3 L11: 1.1065 L22: 0.4042 REMARK 3 L33: 0.8377 L12: -2.6605 REMARK 3 L13: 3.0655 L23: 0.1701 REMARK 3 S TENSOR REMARK 3 S11: -0.0896 S12: 0.0176 S13: -0.1367 REMARK 3 S21: -0.0833 S22: -0.1649 S23: -0.0569 REMARK 3 S31: 0.2267 S32: 0.0233 S33: 0.2546 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: {D|1 - 6} REMARK 3 ORIGIN FOR THE GROUP (A): -0.2995 -3.4407 8.4159 REMARK 3 T TENSOR REMARK 3 T11: 0.1116 T22: 0.0414 REMARK 3 T33: -0.1556 T12: 0.1532 REMARK 3 T13: -0.1199 T23: 0.0016 REMARK 3 L TENSOR REMARK 3 L11: 2.6377 L22: 5.2892 REMARK 3 L33: 7.9068 L12: 2.6694 REMARK 3 L13: 2.2736 L23: 1.9224 REMARK 3 S TENSOR REMARK 3 S11: -0.0096 S12: 0.0626 S13: 0.0265 REMARK 3 S21: 0.0542 S22: 0.1313 S23: -0.2460 REMARK 3 S31: 0.1188 S32: 0.0852 S33: -0.1217 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4QZ8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-AUG-14. REMARK 100 THE DEPOSITION ID IS D_1000086699. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.872600 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : PT-COATED MIRRORS IN A REMARK 200 KIRKPATRICK-BAEZ (KB) GEOMETRY REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14082 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 41.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.64000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 4I2A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12-17% PEG4000, 9-12% ISOPROPANOL, 100 REMARK 280 MM SODIUM ACETATE, 100 MM HEPES, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 29.66450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.12950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 29.66450 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 37.12950 REMARK 290 SMTRY3 4 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 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, T, U 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 111 REMARK 465 GLY A 112 REMARK 465 SER A 113 REMARK 465 SER A 114 REMARK 465 HIS A 115 REMARK 465 HIS A 116 REMARK 465 HIS A 117 REMARK 465 HIS A 118 REMARK 465 HIS A 119 REMARK 465 HIS A 120 REMARK 465 SER A 121 REMARK 465 SER A 122 REMARK 465 GLY A 123 REMARK 465 LEU A 124 REMARK 465 VAL A 125 REMARK 465 PRO A 126 REMARK 465 ARG A 127 REMARK 465 GLY A 128 REMARK 465 SER A 129 REMARK 465 HIS A 130 REMARK 465 MET A 131 REMARK 465 SER A 132 REMARK 465 PRO A 133 REMARK 465 SER A 134 REMARK 465 PRO A 135 REMARK 465 VAL A 136 REMARK 465 PRO A 137 REMARK 465 GLY A 138 REMARK 465 SER A 139 REMARK 465 GLN A 140 REMARK 465 ASN A 141 REMARK 465 VAL A 142 REMARK 465 PRO A 143 REMARK 465 ALA A 144 REMARK 465 PRO A 145 REMARK 465 ALA A 146 REMARK 465 VAL A 147 REMARK 465 GLU A 386 REMARK 465 LYS A 387 REMARK 465 PHE A 388 REMARK 465 LYS A 389 REMARK 465 GLN A 390 REMARK 465 PRO A 391 REMARK 465 SER A 392 REMARK 465 ARG A 393 REMARK 465 LYS A 394 REMARK 465 ASP A 396 REMARK 465 GLU A 418 REMARK 465 LYS A 419 REMARK 465 SER A 420 REMARK 465 GLY A 421 REMARK 465 GLN A 422 REMARK 465 GLN A 423 REMARK 465 GLU A 424 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 LYS A 148 CG CD CE NZ REMARK 470 LYS A 149 CG CD CE NZ REMARK 470 ARG A 182 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 185 CG CD OE1 OE2 REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 GLU A 230 CG CD OE1 OE2 REMARK 470 GLU A 233 CG CD OE1 OE2 REMARK 470 LYS A 238 CG CD CE NZ REMARK 470 GLU A 244 CG CD OE1 OE2 REMARK 470 ARG A 245 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 247 CG CD CE NZ REMARK 470 LEU A 260 CG CD1 CD2 REMARK 470 LYS A 261 CG CD CE NZ REMARK 470 GLU A 264 CG CD OE1 OE2 REMARK 470 LYS A 265 CG CD CE NZ REMARK 470 LYS A 276 CG CD CE NZ REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 ARG A 284 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 287 CG CD OE1 NE2 REMARK 470 LYS A 290 CG CD CE NZ REMARK 470 GLU A 297 CG CD OE1 OE2 REMARK 470 LEU A 314 CG CD1 CD2 REMARK 470 VAL A 319 CG1 CG2 REMARK 470 LEU A 323 CG CD1 CD2 REMARK 470 SER A 350 OG REMARK 470 GLU A 352 CG CD OE1 OE2 REMARK 470 GLU A 355 CG CD OE1 OE2 REMARK 470 ASP A 356 CG OD1 OD2 REMARK 470 GLU A 358 CG CD OE1 OE2 REMARK 470 GLN A 360 CG CD OE1 NE2 REMARK 470 LEU A 361 CG CD1 CD2 REMARK 470 LEU A 362 CG CD1 CD2 REMARK 470 LYS A 364 CG CD CE NZ REMARK 470 LYS A 370 CG CD CE NZ REMARK 470 ASP A 379 CG OD1 OD2 REMARK 470 ILE A 380 CG1 CG2 CD1 REMARK 470 GLN A 402 CG CD OE1 NE2 REMARK 470 LYS A 403 CG CD CE NZ REMARK 470 ASP A 411 CG OD1 OD2 REMARK 470 HIS A 412 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 469 CG CD CE NZ REMARK 470 DC D 6 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DC D 6 N1 C2 O2 N3 C4 N4 C5 REMARK 470 DC D 6 C6 REMARK 470 DC U 6 O3' 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 T 1 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT T 5 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DG T 7 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG T 7 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA U 3 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DC U 6 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 THR A 331 -152.94 -112.11 REMARK 500 ASN A 509 44.75 -86.15 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 NA A 602 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 253 O REMARK 620 2 VAL A 255 O 89.7 REMARK 620 3 VAL A 258 O 93.8 97.5 REMARK 620 4 DA U 5 OP1 159.6 103.1 100.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 343 OD1 REMARK 620 2 ASP A 345 OD2 90.2 REMARK 620 3 DCT A 603 O2A 90.3 76.2 REMARK 620 4 DCT A 603 O2B 169.8 99.6 94.9 REMARK 620 5 DCT A 603 O2G 94.9 173.4 99.4 75.6 REMARK 620 6 HOH A 733 O 95.4 111.8 170.2 78.4 72.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DCT A 603 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4I27 RELATED DB: PDB REMARK 900 RELATED ID: 1JMS RELATED DB: PDB REMARK 900 RELATED ID: 4QZ9 RELATED DB: PDB REMARK 900 RELATED ID: 4QZA RELATED DB: PDB REMARK 900 RELATED ID: 4QZB RELATED DB: PDB REMARK 900 RELATED ID: 4QZC RELATED DB: PDB REMARK 900 RELATED ID: 4QZD RELATED DB: PDB REMARK 900 RELATED ID: 4QZE RELATED DB: PDB REMARK 900 RELATED ID: 4QZF RELATED DB: PDB REMARK 900 RELATED ID: 4QZG RELATED DB: PDB REMARK 900 RELATED ID: 4QZH RELATED DB: PDB REMARK 900 RELATED ID: 4QZI RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 PROTEIN COMPRISES UNP RESIDUES 132-482 AND 503-530 WITH 483-502 REMARK 999 DELETED. DBREF 4QZ8 A 132 482 UNP P09838 TDT_MOUSE 132 482 DBREF 4QZ8 A 483 510 UNP P09838 TDT_MOUSE 503 530 DBREF 4QZ8 D 1 6 PDB 4QZ8 4QZ8 1 6 DBREF 4QZ8 U 1 6 PDB 4QZ8 4QZ8 1 6 DBREF 4QZ8 T 1 7 PDB 4QZ8 4QZ8 1 7 SEQADV 4QZ8 MET A 111 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 GLY A 112 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 SER A 113 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 SER A 114 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 HIS A 115 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 HIS A 116 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 HIS A 117 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 HIS A 118 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 HIS A 119 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 HIS A 120 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 SER A 121 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 SER A 122 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 GLY A 123 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 LEU A 124 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 VAL A 125 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 PRO A 126 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 ARG A 127 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 GLY A 128 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 SER A 129 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 HIS A 130 UNP P09838 EXPRESSION TAG SEQADV 4QZ8 MET A 131 UNP P09838 EXPRESSION TAG SEQRES 1 A 400 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 400 LEU VAL PRO ARG GLY SER HIS MET SER PRO SER PRO VAL SEQRES 3 A 400 PRO GLY SER GLN ASN VAL PRO ALA PRO ALA VAL LYS LYS SEQRES 4 A 400 ILE SER GLN TYR ALA CYS GLN ARG ARG THR THR LEU ASN SEQRES 5 A 400 ASN TYR ASN GLN LEU PHE THR ASP ALA LEU ASP ILE LEU SEQRES 6 A 400 ALA GLU ASN ASP GLU LEU ARG GLU ASN GLU GLY SER CYS SEQRES 7 A 400 LEU ALA PHE MET ARG ALA SER SER VAL LEU LYS SER LEU SEQRES 8 A 400 PRO PHE PRO ILE THR SER MET LYS ASP THR GLU GLY ILE SEQRES 9 A 400 PRO CYS LEU GLY ASP LYS VAL LYS SER ILE ILE GLU GLY SEQRES 10 A 400 ILE ILE GLU ASP GLY GLU SER SER GLU ALA LYS ALA VAL SEQRES 11 A 400 LEU ASN ASP GLU ARG TYR LYS SER PHE LYS LEU PHE THR SEQRES 12 A 400 SER VAL PHE GLY VAL GLY LEU LYS THR ALA GLU LYS TRP SEQRES 13 A 400 PHE ARG MET GLY PHE ARG THR LEU SER LYS ILE GLN SER SEQRES 14 A 400 ASP LYS SER LEU ARG PHE THR GLN MET GLN LYS ALA GLY SEQRES 15 A 400 PHE LEU TYR TYR GLU ASP LEU VAL SER CYS VAL ASN ARG SEQRES 16 A 400 PRO GLU ALA GLU ALA VAL SER MET LEU VAL LYS GLU ALA SEQRES 17 A 400 VAL VAL THR PHE LEU PRO ASP ALA LEU VAL THR MET THR SEQRES 18 A 400 GLY GLY PHE ARG ARG GLY LYS MET THR GLY HIS ASP VAL SEQRES 19 A 400 ASP PHE LEU ILE THR SER PRO GLU ALA THR GLU ASP GLU SEQRES 20 A 400 GLU GLN GLN LEU LEU HIS LYS VAL THR ASP PHE TRP LYS SEQRES 21 A 400 GLN GLN GLY LEU LEU LEU TYR CYS ASP ILE LEU GLU SER SEQRES 22 A 400 THR PHE GLU LYS PHE LYS GLN PRO SER ARG LYS VAL ASP SEQRES 23 A 400 ALA LEU ASP HIS PHE GLN LYS CYS PHE LEU ILE LEU LYS SEQRES 24 A 400 LEU ASP HIS GLY ARG VAL HIS SER GLU LYS SER GLY GLN SEQRES 25 A 400 GLN GLU GLY LYS GLY TRP LYS ALA ILE ARG VAL ASP LEU SEQRES 26 A 400 VAL MET CYS PRO TYR ASP ARG ARG ALA PHE ALA LEU LEU SEQRES 27 A 400 GLY TRP THR GLY SER ARG GLN PHE GLU ARG ASP LEU ARG SEQRES 28 A 400 ARG TYR ALA THR HIS GLU ARG LYS MET MET LEU ASP ASN SEQRES 29 A 400 HIS ALA LEU TYR ASP ARG THR LYS ARG VAL PHE LEU GLU SEQRES 30 A 400 ALA GLU SER GLU GLU GLU ILE PHE ALA HIS LEU GLY LEU SEQRES 31 A 400 ASP TYR ILE GLU PRO TRP GLU ARG ASN ALA SEQRES 1 D 6 DA DA DA DA DA DC SEQRES 1 T 7 DT DT DT DT DT DG DG SEQRES 1 U 6 DA DA DA DA DA DC HET MG A 601 1 HET NA A 602 1 HET DCT A 603 27 HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM DCT 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE FORMUL 5 MG MG 2+ FORMUL 6 NA NA 1+ FORMUL 7 DCT C9 H16 N3 O12 P3 FORMUL 8 HOH *89(H2 O) HELIX 1 1 TYR A 153 ARG A 157 5 5 HELIX 2 2 ASN A 165 ARG A 182 1 18 HELIX 3 3 ASN A 184 SER A 200 1 17 HELIX 4 4 SER A 207 GLU A 212 5 6 HELIX 5 5 GLY A 218 GLY A 232 1 15 HELIX 6 6 SER A 234 ASP A 243 1 10 HELIX 7 7 ASP A 243 SER A 254 1 12 HELIX 8 8 GLY A 259 MET A 269 1 11 HELIX 9 9 THR A 273 SER A 279 1 7 HELIX 10 10 THR A 286 TYR A 295 1 10 HELIX 11 11 TYR A 295 SER A 301 1 7 HELIX 12 12 ARG A 305 LEU A 323 1 19 HELIX 13 13 THR A 331 ARG A 336 1 6 HELIX 14 14 THR A 354 GLN A 372 1 19 HELIX 15 15 GLY A 413 VAL A 415 5 3 HELIX 16 16 PRO A 439 ASP A 441 5 3 HELIX 17 17 ARG A 442 GLY A 452 1 11 HELIX 18 18 SER A 453 LYS A 469 1 17 HELIX 19 19 SER A 490 GLY A 499 1 10 HELIX 20 20 GLU A 504 ARG A 508 5 5 SHEET 1 A 2 VAL A 303 ASN A 304 0 SHEET 2 A 2 THR A 340 GLY A 341 -1 O GLY A 341 N VAL A 303 SHEET 1 B 5 LEU A 327 MET A 330 0 SHEET 2 B 5 VAL A 344 THR A 349 -1 O THR A 349 N LEU A 327 SHEET 3 B 5 TRP A 428 MET A 437 1 O VAL A 436 N ILE A 348 SHEET 4 B 5 GLN A 402 ASP A 411 -1 N LEU A 406 O VAL A 433 SHEET 5 B 5 LEU A 375 LEU A 381 -1 N LEU A 381 O LYS A 403 SHEET 1 C 3 MET A 470 LEU A 472 0 SHEET 2 C 3 LEU A 477 ASP A 479 -1 O TYR A 478 N MET A 471 SHEET 3 C 3 VAL A 484 LEU A 486 -1 O LEU A 486 N LEU A 477 LINK O THR A 253 NA NA A 602 1555 1555 2.47 LINK O VAL A 255 NA NA A 602 1555 1555 2.39 LINK O VAL A 258 NA NA A 602 1555 1555 2.47 LINK OD1 ASP A 343 MG MG A 601 1555 1555 1.95 LINK OD2 ASP A 345 MG MG A 601 1555 1555 2.69 LINK MG MG A 601 O2A DCT A 603 1555 1555 2.23 LINK MG MG A 601 O2B DCT A 603 1555 1555 2.29 LINK MG MG A 601 O2G DCT A 603 1555 1555 2.60 LINK MG MG A 601 O HOH A 733 1555 1555 2.29 LINK NA NA A 602 OP1 DA U 5 1555 1555 2.53 CISPEP 1 GLY A 452 SER A 453 0 -3.30 SITE 1 AC1 4 ASP A 343 ASP A 345 DCT A 603 HOH A 733 SITE 1 AC2 4 THR A 253 VAL A 255 VAL A 258 DA U 5 SITE 1 AC3 17 GLY A 332 GLY A 333 ARG A 336 LYS A 338 SITE 2 AC3 17 GLY A 341 HIS A 342 ASP A 343 ASP A 345 SITE 3 AC3 17 GLY A 449 TRP A 450 GLY A 452 ARG A 454 SITE 4 AC3 17 GLU A 457 MG A 601 HOH A 733 DG T 6 SITE 5 AC3 17 DC U 6 CRYST1 59.329 74.259 118.969 90.00 97.98 90.00 C 1 2 1 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 0.016855 0.000000 0.002363 0.00000 SCALE2 0.000000 0.013466 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008488 0.00000