HEADER REPLICATION 21-MAR-21 7M4D TITLE DNA POLYMERASE LAMBDA, DCTP:AT CA2+ GROUND STATE TERNARY COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE LAMBDA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POL LAMBDA,DNA POLYMERASE BETA-2,POL BETA2,DNA POLYMERASE COMPND 5 KAPPA; COMPND 6 EC: 2.7.7.7,4.2.99.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: DNA (5'-D(*CP*GP*GP*CP*AP*GP*TP*AP*CP*TP*G)-3'); COMPND 11 CHAIN: T; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'-D(*CP*AP*GP*TP*AP*C)-3'); COMPND 15 CHAIN: P; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 4; COMPND 18 MOLECULE: DNA (5'-D(P*GP*CP*CP*G)-3'); COMPND 19 CHAIN: D; COMPND 20 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: POLL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 MOL_ID: 3; SOURCE 17 SYNTHETIC: YES; SOURCE 18 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 19 ORGANISM_COMMON: HUMAN; SOURCE 20 ORGANISM_TAXID: 9606; SOURCE 21 MOL_ID: 4; SOURCE 22 SYNTHETIC: YES; SOURCE 23 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 24 ORGANISM_COMMON: HUMAN; SOURCE 25 ORGANISM_TAXID: 9606 KEYWDS TIME-LAPSE CRYSTALLOGRAPHY, DOUBLE STRAND BREAK REPAIR, DNA SYNTHESIS KEYWDS 2 FIDELITY, REPLICATION EXPDTA X-RAY DIFFRACTION AUTHOR J.A.JAMSEN,S.H.WILSON REVDAT 2 18-OCT-23 7M4D 1 REMARK REVDAT 1 06-JUL-22 7M4D 0 JRNL AUTH J.A.JAMSEN,D.D.SHOCK,S.H.WILSON JRNL TITL WATCHING RIGHT AND WRONG NUCLEOTIDE INSERTION CAPTURES JRNL TITL 2 HIDDEN POLYMERASE FIDELITY CHECKPOINTS. JRNL REF NAT COMMUN V. 13 3193 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 35680862 JRNL DOI 10.1038/S41467-022-30141-W REMARK 2 REMARK 2 RESOLUTION. 1.82 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX V1.15.2-3472 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.82 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 43319 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2122 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 39.2120 - 4.4797 0.98 2927 144 0.2158 0.2620 REMARK 3 2 4.4797 - 3.5564 1.00 2802 150 0.1817 0.2349 REMARK 3 3 3.5564 - 3.1071 1.00 2807 137 0.1929 0.2270 REMARK 3 4 3.1071 - 2.8231 1.00 2742 151 0.2246 0.2535 REMARK 3 5 2.8231 - 2.6208 1.00 2779 137 0.2218 0.2654 REMARK 3 6 2.6208 - 2.4663 1.00 2730 148 0.2162 0.2633 REMARK 3 7 2.4663 - 2.3428 1.00 2747 132 0.2119 0.2599 REMARK 3 8 2.3428 - 2.2408 1.00 2716 149 0.2231 0.2440 REMARK 3 9 2.2408 - 2.1546 1.00 2719 144 0.2238 0.2668 REMARK 3 10 2.1546 - 2.0802 1.00 2721 134 0.2239 0.2537 REMARK 3 11 2.0802 - 2.0152 1.00 2745 136 0.2262 0.2791 REMARK 3 12 2.0152 - 1.9576 1.00 2705 140 0.2461 0.3041 REMARK 3 13 1.9576 - 1.9061 1.00 2706 145 0.2471 0.3123 REMARK 3 14 1.9061 - 1.8596 1.00 2671 142 0.2683 0.2969 REMARK 3 15 1.8596 - 1.8173 0.98 2680 133 0.2769 0.3209 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.610 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.27 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 252:325 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.623 -27.880 25.754 REMARK 3 T TENSOR REMARK 3 T11: 0.5647 T22: 0.8273 REMARK 3 T33: 0.4502 T12: 0.2217 REMARK 3 T13: -0.1462 T23: -0.0575 REMARK 3 L TENSOR REMARK 3 L11: 0.7104 L22: 0.5715 REMARK 3 L33: 0.7890 L12: 0.1107 REMARK 3 L13: -0.6858 L23: -0.4027 REMARK 3 S TENSOR REMARK 3 S11: 0.0091 S12: -0.7516 S13: 0.5076 REMARK 3 S21: 0.3123 S22: 0.2210 S23: -0.2862 REMARK 3 S31: 0.6571 S32: 0.6864 S33: 0.0151 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 326:471 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.323 -5.864 4.560 REMARK 3 T TENSOR REMARK 3 T11: 0.2406 T22: 0.2784 REMARK 3 T33: 0.3309 T12: 0.0312 REMARK 3 T13: -0.0028 T23: 0.0007 REMARK 3 L TENSOR REMARK 3 L11: 1.0666 L22: 2.1453 REMARK 3 L33: 1.5455 L12: 0.5059 REMARK 3 L13: -0.1978 L23: 0.5546 REMARK 3 S TENSOR REMARK 3 S11: 0.0354 S12: 0.0777 S13: 0.1144 REMARK 3 S21: -0.0293 S22: 0.0991 S23: 0.0469 REMARK 3 S31: -0.1447 S32: -0.0191 S33: 0.0001 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 472:575 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.015 -0.990 22.018 REMARK 3 T TENSOR REMARK 3 T11: 0.4045 T22: 0.3790 REMARK 3 T33: 0.3756 T12: 0.0007 REMARK 3 T13: 0.0294 T23: -0.0491 REMARK 3 L TENSOR REMARK 3 L11: 1.3493 L22: 1.1751 REMARK 3 L33: 2.1093 L12: -0.3344 REMARK 3 L13: -0.9093 L23: 0.5030 REMARK 3 S TENSOR REMARK 3 S11: -0.0198 S12: -0.3868 S13: 0.0543 REMARK 3 S21: 0.3844 S22: 0.0533 S23: 0.0798 REMARK 3 S31: 0.0563 S32: 0.0053 S33: -0.0001 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN T AND RESID 1:5 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.492 -19.567 26.465 REMARK 3 T TENSOR REMARK 3 T11: 0.5329 T22: 0.4808 REMARK 3 T33: 0.3837 T12: -0.1092 REMARK 3 T13: 0.0089 T23: 0.0645 REMARK 3 L TENSOR REMARK 3 L11: 0.1584 L22: 0.1918 REMARK 3 L33: 0.1423 L12: 0.0476 REMARK 3 L13: 0.0548 L23: 0.0989 REMARK 3 S TENSOR REMARK 3 S11: -0.5701 S12: -0.2325 S13: 0.3372 REMARK 3 S21: -0.8380 S22: 0.5963 S23: 0.4627 REMARK 3 S31: 0.6203 S32: -0.1735 S33: -0.0009 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN T AND RESID 6:11 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.237 -6.313 9.411 REMARK 3 T TENSOR REMARK 3 T11: 0.4415 T22: 0.5001 REMARK 3 T33: 0.4672 T12: 0.0658 REMARK 3 T13: 0.0964 T23: 0.0286 REMARK 3 L TENSOR REMARK 3 L11: 0.2924 L22: 0.4201 REMARK 3 L33: 1.0709 L12: 0.1675 REMARK 3 L13: 0.2211 L23: -0.4273 REMARK 3 S TENSOR REMARK 3 S11: 0.0506 S12: -0.2182 S13: 0.0909 REMARK 3 S21: 0.4059 S22: 0.5314 S23: 0.4503 REMARK 3 S31: -1.0298 S32: -0.9840 S33: 0.0243 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN P AND RESID 1:6 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.750 -13.512 8.618 REMARK 3 T TENSOR REMARK 3 T11: 0.2975 T22: 0.3254 REMARK 3 T33: 0.2870 T12: 0.0068 REMARK 3 T13: -0.0123 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 0.1145 L22: 0.2350 REMARK 3 L33: 0.2471 L12: -0.1010 REMARK 3 L13: -0.1118 L23: 0.0749 REMARK 3 S TENSOR REMARK 3 S11: 0.1453 S12: -0.4037 S13: 0.3742 REMARK 3 S21: 0.3797 S22: -0.1088 S23: -0.2002 REMARK 3 S31: -0.2230 S32: -0.2648 S33: -0.0006 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN D AND RESID 1:4 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.300 -24.960 30.697 REMARK 3 T TENSOR REMARK 3 T11: 0.6783 T22: 0.5862 REMARK 3 T33: 0.4229 T12: 0.0574 REMARK 3 T13: 0.0929 T23: 0.0543 REMARK 3 L TENSOR REMARK 3 L11: 0.4484 L22: 0.2238 REMARK 3 L33: 0.1706 L12: 0.0830 REMARK 3 L13: -0.0701 L23: 0.1707 REMARK 3 S TENSOR REMARK 3 S11: 0.0299 S12: -0.5852 S13: 0.3239 REMARK 3 S21: 0.5178 S22: 0.0977 S23: 0.1629 REMARK 3 S31: 1.0558 S32: 0.3219 S33: -0.0032 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 7M4D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1001310098. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-DEC-16 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 : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43383 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.817 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.82 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.85900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: HKL-3000 REMARK 200 STARTING MODEL: 3UPQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 80-95MM BICINE PH 8.3, 0.3M NA-K REMARK 280 TARTRATE, 18-22.5% POLYPURE PEG, PH 7.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 27.87500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.65100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.95850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.65100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.87500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.95850 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: 5600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -51.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, P, D 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 ALA A 242 REMARK 465 GLN A 243 REMARK 465 PRO A 244 REMARK 465 SER A 245 REMARK 465 SER A 246 REMARK 465 GLN A 247 REMARK 465 LYS A 248 REMARK 465 ALA A 249 REMARK 465 THR A 250 REMARK 465 ASN A 251 REMARK 465 ARG A 538 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 ASN A 253 CG OD1 ND2 REMARK 470 LEU A 254 CG CD1 CD2 REMARK 470 GLU A 258 CG CD OE1 OE2 REMARK 470 LYS A 259 CG CD CE NZ REMARK 470 GLU A 261 CD OE1 OE2 REMARK 470 LYS A 265 CD CE NZ REMARK 470 LYS A 273 NZ REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 ASN A 284 OD1 ND2 REMARK 470 LYS A 287 CB CG CD CE NZ REMARK 470 SER A 288 OG REMARK 470 PHE A 289 CE1 CE2 CZ REMARK 470 LYS A 291 CG CD CE NZ REMARK 470 THR A 294 OG1 CG2 REMARK 470 TYR A 296 CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 297 CB CG CD OE1 NE2 REMARK 470 SER A 301 CB OG REMARK 470 ILE A 302 CD1 REMARK 470 ILE A 305 CG1 CG2 CD1 REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 ARG A 308 CD NE CZ NH1 NH2 REMARK 470 MET A 309 CE REMARK 470 GLU A 311 CG CD OE1 OE2 REMARK 470 LYS A 312 CG CD CE NZ REMARK 470 ILE A 313 CG1 CG2 CD1 REMARK 470 ILE A 314 CG1 CG2 CD1 REMARK 470 ILE A 316 CG1 CG2 CD1 REMARK 470 LEU A 317 CG CD1 CD2 REMARK 470 GLU A 318 CG CD OE1 OE2 REMARK 470 SER A 319 OG REMARK 470 LEU A 322 CD1 CD2 REMARK 470 ARG A 323 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 324 CG CD CE NZ REMARK 470 LEU A 325 CD1 CD2 REMARK 470 ASP A 326 CB CG OD1 OD2 REMARK 470 ILE A 328 CD1 REMARK 470 GLU A 330 CG CD OE1 OE2 REMARK 470 GLN A 397 OE1 NE2 REMARK 470 LYS A 401 CD CE NZ REMARK 470 LEU A 411 CD1 CD2 REMARK 470 LYS A 422 CE NZ REMARK 470 ARG A 438 CB CG CD NE CZ NH1 NH2 REMARK 470 SER A 439 OG REMARK 470 ARG A 441 CZ NH1 NH2 REMARK 470 ILE A 443 CD1 REMARK 470 ARG A 446 CZ NH1 NH2 REMARK 470 ASP A 449 CG OD1 OD2 REMARK 470 GLN A 453 OE1 NE2 REMARK 470 LYS A 463 CE NZ REMARK 470 GLU A 470 CG CD OE1 OE2 REMARK 470 LYS A 523 NZ REMARK 470 SER A 526 OG REMARK 470 VAL A 536 CG1 CG2 REMARK 470 ASN A 539 CG OD1 ND2 REMARK 470 THR A 540 OG1 CG2 REMARK 470 HIS A 541 CG ND1 CD2 CE1 NE2 REMARK 470 ALA A 543 CB REMARK 470 LYS A 544 CB CG CD CE NZ REMARK 470 VAL A 545 CG1 CG2 REMARK 470 LYS A 557 CG CD CE NZ REMARK 470 LEU A 565 CG CD1 CD2 REMARK 470 ARG A 568 CZ NH1 NH2 REMARK 470 GLU A 569 OE1 OE2 REMARK 470 GLU A 572 CD OE1 OE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 MET A 351 N CA C O CB CG SD REMARK 480 MET A 351 CE REMARK 480 DA T 8 P OP1 OP2 O5' C5' C4' O4' REMARK 480 DA T 8 C3' O3' C2' C1' N9 C8 N7 REMARK 480 DA T 8 C5 C6 N6 N1 C2 N3 C4 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 DT T 7 C5 DT T 7 C7 -0.041 REMARK 500 DG D 1 P DG D 1 OP3 -0.130 REMARK 500 DC D 2 O3' DC D 2 C3' -0.057 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 DG T 2 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DC D 2 O4' - C1' - C2' ANGL. DEV. = 3.3 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 SER A 295 -165.35 -166.42 REMARK 500 CYS A 415 -139.89 -114.93 REMARK 500 ARG A 438 -40.57 -130.79 REMARK 500 SER A 439 -8.55 -57.45 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 603 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 339 O REMARK 620 2 ILE A 341 O 97.2 REMARK 620 3 ALA A 344 O 90.7 85.0 REMARK 620 4 HOH A 782 O 88.4 98.2 176.7 REMARK 620 5 DA P 5 OP1 165.1 97.7 90.3 89.8 REMARK 620 6 HOH P 110 O 77.5 172.3 89.3 87.4 87.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 601 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 O REMARK 620 2 ASP A 427 OD1 66.5 REMARK 620 3 ASP A 429 OD2 99.1 104.5 REMARK 620 4 DCP A 604 O1A 147.0 80.8 92.7 REMARK 620 5 DCP A 604 O1B 127.8 146.2 102.8 78.3 REMARK 620 6 DCP A 604 O1B 125.0 139.9 110.1 78.1 7.3 REMARK 620 7 DCP A 604 O1G 88.5 79.3 172.4 81.4 71.5 64.2 REMARK 620 8 HOH A 701 O 75.1 85.8 165.2 99.5 71.9 64.9 18.5 REMARK 620 9 HOH A 717 O 49.0 115.2 91.7 161.7 83.4 83.7 92.5 74.2 REMARK 620 N 1 2 3 4 5 6 7 8 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 ASP A 427 OD1 REMARK 620 2 ASP A 427 OD2 46.4 REMARK 620 3 ASP A 429 OD1 99.0 135.7 REMARK 620 4 DCP A 604 O1A 62.8 86.7 101.4 REMARK 620 N 1 2 3 DBREF 7M4D A 242 575 UNP Q9UGP5 DPOLL_HUMAN 242 575 DBREF 7M4D T 1 11 PDB 7M4D 7M4D 1 11 DBREF 7M4D P 1 6 PDB 7M4D 7M4D 1 6 DBREF 7M4D D 1 4 PDB 7M4D 7M4D 1 4 SEQADV 7M4D LYS A 463 UNP Q9UGP5 SER 463 CONFLICT SEQADV 7M4D GLY A 464 UNP Q9UGP5 GLN 464 CONFLICT SEQADV 7M4D A UNP Q9UGP5 GLU 466 DELETION SEQADV 7M4D A UNP Q9UGP5 ASN 467 DELETION SEQADV 7M4D A UNP Q9UGP5 GLY 468 DELETION SEQADV 7M4D A UNP Q9UGP5 GLN 469 DELETION SEQADV 7M4D A UNP Q9UGP5 GLN 470 DELETION SEQADV 7M4D THR A 471 UNP Q9UGP5 GLN 471 CONFLICT SEQADV 7M4D ALA A 543 UNP Q9UGP5 CYS 543 ENGINEERED MUTATION SEQRES 1 A 329 ALA GLN PRO SER SER GLN LYS ALA THR ASN HIS ASN LEU SEQRES 2 A 329 HIS ILE THR GLU LYS LEU GLU VAL LEU ALA LYS ALA TYR SEQRES 3 A 329 SER VAL GLN GLY ASP LYS TRP ARG ALA LEU GLY TYR ALA SEQRES 4 A 329 LYS ALA ILE ASN ALA LEU LYS SER PHE HIS LYS PRO VAL SEQRES 5 A 329 THR SER TYR GLN GLU ALA CYS SER ILE PRO GLY ILE GLY SEQRES 6 A 329 LYS ARG MET ALA GLU LYS ILE ILE GLU ILE LEU GLU SER SEQRES 7 A 329 GLY HIS LEU ARG LYS LEU ASP HIS ILE SER GLU SER VAL SEQRES 8 A 329 PRO VAL LEU GLU LEU PHE SER ASN ILE TRP GLY ALA GLY SEQRES 9 A 329 THR LYS THR ALA GLN MET TRP TYR GLN GLN GLY PHE ARG SEQRES 10 A 329 SER LEU GLU ASP ILE ARG SER GLN ALA SER LEU THR THR SEQRES 11 A 329 GLN GLN ALA ILE GLY LEU LYS HIS TYR SER ASP PHE LEU SEQRES 12 A 329 GLU ARG MET PRO ARG GLU GLU ALA THR GLU ILE GLU GLN SEQRES 13 A 329 THR VAL GLN LYS ALA ALA GLN ALA PHE ASN SER GLY LEU SEQRES 14 A 329 LEU CYS VAL ALA CYS GLY SER TYR ARG ARG GLY LYS ALA SEQRES 15 A 329 THR CYS GLY ASP VAL ASP VAL LEU ILE THR HIS PRO ASP SEQRES 16 A 329 GLY ARG SER HIS ARG GLY ILE PHE SER ARG LEU LEU ASP SEQRES 17 A 329 SER LEU ARG GLN GLU GLY PHE LEU THR ASP ASP LEU VAL SEQRES 18 A 329 LYS GLY GLU THR LYS TYR LEU GLY VAL CYS ARG LEU PRO SEQRES 19 A 329 GLY PRO GLY ARG ARG HIS ARG ARG LEU ASP ILE ILE VAL SEQRES 20 A 329 VAL PRO TYR SER GLU PHE ALA CYS ALA LEU LEU TYR PHE SEQRES 21 A 329 THR GLY SER ALA HIS PHE ASN ARG SER MET ARG ALA LEU SEQRES 22 A 329 ALA LYS THR LYS GLY MET SER LEU SER GLU HIS ALA LEU SEQRES 23 A 329 SER THR ALA VAL VAL ARG ASN THR HIS GLY ALA LYS VAL SEQRES 24 A 329 GLY PRO GLY ARG VAL LEU PRO THR PRO THR GLU LYS ASP SEQRES 25 A 329 VAL PHE ARG LEU LEU GLY LEU PRO TYR ARG GLU PRO ALA SEQRES 26 A 329 GLU ARG ASP TRP SEQRES 1 T 11 DC DG DG DC DA DG DT DA DC DT DG SEQRES 1 P 6 DC DA DG DT DA DC SEQRES 1 D 4 DG DC DC DG HET CA A 601 1 HET NA A 602 1 HET NA A 603 1 HET DCP A 604 36 HET EDO A 605 4 HET EDO A 606 4 HET EDO A 607 4 HET EDO A 608 4 HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM DCP 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 CA CA 2+ FORMUL 6 NA 2(NA 1+) FORMUL 8 DCP C9 H16 N3 O13 P3 FORMUL 9 EDO 4(C2 H6 O2) FORMUL 13 HOH *200(H2 O) HELIX 1 AA1 ILE A 256 GLN A 270 1 15 HELIX 2 AA2 ASP A 272 PHE A 289 1 18 HELIX 3 AA3 SER A 295 SER A 301 1 7 HELIX 4 AA4 GLY A 306 GLY A 320 1 15 HELIX 5 AA5 LEU A 322 HIS A 327 5 6 HELIX 6 AA6 SER A 331 ASN A 340 1 10 HELIX 7 AA7 GLY A 345 GLN A 355 1 11 HELIX 8 AA8 SER A 359 ALA A 367 1 9 HELIX 9 AA9 THR A 370 HIS A 379 1 10 HELIX 10 AB1 HIS A 379 GLU A 385 1 7 HELIX 11 AB2 ARG A 389 ASN A 407 1 19 HELIX 12 AB3 CYS A 415 ARG A 420 1 6 HELIX 13 AB4 ILE A 443 GLU A 454 1 12 HELIX 14 AB5 PRO A 495 SER A 497 5 3 HELIX 15 AB6 GLU A 498 GLY A 508 1 11 HELIX 16 AB7 SER A 509 LYS A 523 1 15 HELIX 17 AB8 THR A 555 LEU A 563 1 9 HELIX 18 AB9 GLU A 569 ASP A 574 5 6 SHEET 1 AA1 2 MET A 387 PRO A 388 0 SHEET 2 AA1 2 THR A 424 CYS A 425 -1 O CYS A 425 N MET A 387 SHEET 1 AA2 5 LEU A 411 ALA A 414 0 SHEET 2 AA2 5 VAL A 428 THR A 433 -1 O THR A 433 N LEU A 411 SHEET 3 AA2 5 ARG A 487 VAL A 493 1 O ASP A 490 N VAL A 430 SHEET 4 AA2 5 LYS A 472 CYS A 477 -1 N GLY A 475 O LEU A 489 SHEET 5 AA2 5 LEU A 457 LYS A 463 -1 N LEU A 461 O LEU A 474 SHEET 1 AA3 2 MET A 525 LEU A 527 0 SHEET 2 AA3 2 LEU A 532 THR A 534 -1 O SER A 533 N SER A 526 LINK O SER A 339 NA NA A 603 1555 1555 2.33 LINK O ILE A 341 NA NA A 603 1555 1555 2.37 LINK O ALA A 344 NA NA A 603 1555 1555 2.36 LINK O ASP A 427 CA CA A 601 1555 1555 3.15 LINK OD1 ASP A 427 CA CA A 601 1555 1555 2.10 LINK OD1 ASP A 427 NA NA A 602 1555 1555 2.85 LINK OD2 ASP A 427 NA NA A 602 1555 1555 2.66 LINK OD2 ASP A 429 CA CA A 601 1555 1555 2.38 LINK OD1 ASP A 429 NA NA A 602 1555 1555 2.24 LINK CA CA A 601 O1A DCP A 604 1555 1555 2.31 LINK CA CA A 601 O1BADCP A 604 1555 1555 2.40 LINK CA CA A 601 O1BBDCP A 604 1555 1555 2.45 LINK CA CA A 601 O1GADCP A 604 1555 1555 2.42 LINK CA CA A 601 O BHOH A 701 1555 1555 2.31 LINK CA CA A 601 O HOH A 717 1555 1555 3.05 LINK NA NA A 602 O1A DCP A 604 1555 1555 2.63 LINK NA NA A 603 O HOH A 782 1555 1555 2.29 LINK NA NA A 603 OP1 DA P 5 1555 1555 2.48 LINK NA NA A 603 O HOH P 110 1555 1555 2.53 CISPEP 1 GLY A 508 SER A 509 0 0.05 CRYST1 55.750 59.917 141.302 90.00 90.00 90.00 P 21 21 21 4 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 0.017937 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016690 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007077 0.00000