HEADER REPLICATION 21-MAR-21 7M4I TITLE DNA POLYMERASE LAMBDA, DCTP:AT MN2+ PRODUCT STATE TERNARY COMPLEX, 420 TITLE 2 MIN 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*CP*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 7M4I 1 REMARK REVDAT 1 06-JUL-22 7M4I 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. 2.01 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) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 33546 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.870 REMARK 3 FREE R VALUE TEST SET COUNT : 1635 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 37.7230 - 4.5870 0.97 2802 139 0.2172 0.2175 REMARK 3 2 4.5870 - 3.6418 1.00 2723 148 0.1813 0.2087 REMARK 3 3 3.6418 - 3.1817 1.00 2728 133 0.2048 0.2282 REMARK 3 4 3.1817 - 2.8909 1.00 2694 148 0.2449 0.2789 REMARK 3 5 2.8909 - 2.6838 1.00 2697 134 0.2393 0.3116 REMARK 3 6 2.6838 - 2.5256 1.00 2663 137 0.2425 0.3228 REMARK 3 7 2.5256 - 2.3991 1.00 2671 135 0.2505 0.2820 REMARK 3 8 2.3991 - 2.2947 1.00 2676 143 0.2575 0.3114 REMARK 3 9 2.2947 - 2.2064 1.00 2658 143 0.2739 0.3152 REMARK 3 10 2.2064 - 2.1302 1.00 2637 122 0.2973 0.2852 REMARK 3 11 2.1302 - 2.0636 0.98 2591 143 0.3104 0.3431 REMARK 3 12 2.0636 - 2.0050 0.89 2371 110 0.3239 0.3491 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) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.610 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.43 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 : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 252 THROUGH 575) REMARK 3 ORIGIN FOR THE GROUP (A): -13.6885 -10.4655 15.3681 REMARK 3 T TENSOR REMARK 3 T11: 0.4069 T22: 0.4644 REMARK 3 T33: 0.4479 T12: 0.0228 REMARK 3 T13: -0.0430 T23: -0.0560 REMARK 3 L TENSOR REMARK 3 L11: 1.4258 L22: 1.6816 REMARK 3 L33: 1.0542 L12: 0.0450 REMARK 3 L13: -0.6113 L23: 0.2397 REMARK 3 S TENSOR REMARK 3 S11: 0.0601 S12: -0.1789 S13: 0.0713 REMARK 3 S21: 0.2446 S22: 0.0433 S23: -0.0567 REMARK 3 S31: -0.0046 S32: 0.0728 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'T' AND RESID 1 THROUGH 5) REMARK 3 ORIGIN FOR THE GROUP (A): -27.0566 -22.6917 26.5008 REMARK 3 T TENSOR REMARK 3 T11: 0.6829 T22: 0.6720 REMARK 3 T33: 0.4642 T12: -0.0413 REMARK 3 T13: 0.0015 T23: 0.1267 REMARK 3 L TENSOR REMARK 3 L11: 0.1221 L22: 0.0936 REMARK 3 L33: 0.0801 L12: -0.0860 REMARK 3 L13: -0.0496 L23: 0.0751 REMARK 3 S TENSOR REMARK 3 S11: -0.1190 S12: -0.5636 S13: -0.1643 REMARK 3 S21: -0.3717 S22: -0.0045 S23: 0.4007 REMARK 3 S31: 0.0326 S32: 0.0374 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'T' AND RESID 6 THROUGH 11) REMARK 3 ORIGIN FOR THE GROUP (A): -27.6958 -7.9788 12.0425 REMARK 3 T TENSOR REMARK 3 T11: 0.6179 T22: 0.6996 REMARK 3 T33: 0.5247 T12: 0.1282 REMARK 3 T13: 0.0800 T23: -0.0218 REMARK 3 L TENSOR REMARK 3 L11: 0.2188 L22: 0.8068 REMARK 3 L33: 2.0421 L12: 0.0779 REMARK 3 L13: 0.2843 L23: -1.0390 REMARK 3 S TENSOR REMARK 3 S11: 0.3840 S12: -0.7123 S13: -0.0780 REMARK 3 S21: 0.9015 S22: 0.9805 S23: 0.6564 REMARK 3 S31: -1.1509 S32: -0.5269 S33: 0.1172 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'P' AND RESID 1 THROUGH 7) REMARK 3 ORIGIN FOR THE GROUP (A): -23.9967 -14.0031 9.8900 REMARK 3 T TENSOR REMARK 3 T11: 0.4433 T22: 0.5139 REMARK 3 T33: 0.3890 T12: 0.0072 REMARK 3 T13: -0.0124 T23: -0.0642 REMARK 3 L TENSOR REMARK 3 L11: 0.1279 L22: 0.2132 REMARK 3 L33: 0.0998 L12: -0.0849 REMARK 3 L13: -0.0623 L23: 0.0151 REMARK 3 S TENSOR REMARK 3 S11: 0.1481 S12: -0.4654 S13: 0.0069 REMARK 3 S21: 0.3141 S22: -0.0358 S23: -0.3233 REMARK 3 S31: -0.4645 S32: -0.3681 S33: 0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN 'D' AND RESID 1 THROUGH 4) REMARK 3 ORIGIN FOR THE GROUP (A): -19.5066 -28.1805 30.0471 REMARK 3 T TENSOR REMARK 3 T11: 0.9186 T22: 0.8168 REMARK 3 T33: 0.5696 T12: -0.0101 REMARK 3 T13: 0.1209 T23: 0.0833 REMARK 3 L TENSOR REMARK 3 L11: 0.2298 L22: 0.5133 REMARK 3 L33: 0.9102 L12: 0.0400 REMARK 3 L13: 0.0763 L23: 0.6826 REMARK 3 S TENSOR REMARK 3 S11: 0.6529 S12: -0.1434 S13: -0.2335 REMARK 3 S21: 0.5989 S22: 0.3665 S23: -0.3477 REMARK 3 S31: 0.0495 S32: 0.0718 S33: 0.0474 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 7M4I 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_1001310103. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-DEC-17 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 : 33609 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 99.1 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.82300 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 (%): 56.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 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 71.08850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.15850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.08850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.87500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.15850 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: 5570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -77.0 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 THR A 540 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 HIS A 252 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 254 CG CD1 CD2 REMARK 470 ILE A 256 CG1 CG2 CD1 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 CG CD CE NZ REMARK 470 ARG A 275 NH1 NH2 REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 LYS A 287 CG CD CE NZ REMARK 470 SER A 288 OG REMARK 470 PHE A 289 CD1 CD2 CE1 CE2 CZ REMARK 470 HIS A 290 ND1 CD2 CE1 NE2 REMARK 470 LYS A 291 CG CD CE NZ REMARK 470 PRO A 292 CG CD REMARK 470 VAL A 293 CG1 CG2 REMARK 470 GLN A 297 CG CD OE1 NE2 REMARK 470 GLU A 298 OE1 OE2 REMARK 470 SER A 301 OG REMARK 470 ILE A 302 CD1 REMARK 470 ILE A 305 CD1 REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 ARG A 308 CD NE CZ NH1 NH2 REMARK 470 ILE A 313 CG1 CG2 CD1 REMARK 470 ILE A 314 CG1 CG2 CD1 REMARK 470 GLU A 315 CD OE1 OE2 REMARK 470 ILE A 316 CG1 CG2 CD1 REMARK 470 LEU A 317 CG CD1 CD2 REMARK 470 GLU A 318 OE1 OE2 REMARK 470 SER A 319 OG REMARK 470 HIS A 321 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 322 CG CD1 CD2 REMARK 470 ARG A 323 CB CG CD NE CZ NH1 NH2 REMARK 470 LYS A 324 CG CD CE NZ REMARK 470 ASP A 326 CG OD1 OD2 REMARK 470 ILE A 328 CD1 REMARK 470 GLU A 330 CG CD OE1 OE2 REMARK 470 GLU A 390 CD OE1 OE2 REMARK 470 GLN A 397 OE1 NE2 REMARK 470 LYS A 401 CG CD CE NZ REMARK 470 PHE A 406 CE2 CZ REMARK 470 SER A 408 OG REMARK 470 LEU A 411 CD1 CD2 REMARK 470 LYS A 422 CE NZ REMARK 470 ARG A 438 CG CD NE CZ NH1 NH2 REMARK 470 SER A 439 OG REMARK 470 ARG A 441 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 443 CG1 CG2 CD1 REMARK 470 SER A 445 OG REMARK 470 ARG A 446 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 449 OD1 OD2 REMARK 470 GLN A 453 CG CD OE1 NE2 REMARK 470 GLU A 454 CG CD OE1 OE2 REMARK 470 LYS A 463 CE NZ REMARK 470 GLU A 470 CG CD OE1 OE2 REMARK 470 LYS A 472 CD CE NZ REMARK 470 ARG A 485 CD NE CZ NH1 NH2 REMARK 470 ILE A 492 CD1 REMARK 470 THR A 534 OG1 CG2 REMARK 470 VAL A 536 CG1 CG2 REMARK 470 VAL A 537 CG1 CG2 REMARK 470 ARG A 538 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 539 CG OD1 ND2 REMARK 470 HIS A 541 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 544 CG CD CE NZ REMARK 470 VAL A 545 CG1 CG2 REMARK 470 LEU A 551 CD1 CD2 REMARK 470 LYS A 557 CD CE NZ REMARK 470 ARG A 568 CZ NH1 NH2 REMARK 470 GLU A 572 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DG D 1 P DG D 1 OP3 -0.127 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. = 2.9 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 294 -7.03 -146.62 REMARK 500 CYS A 415 -129.35 -110.46 REMARK 500 ARG A 438 -24.54 -141.55 REMARK 500 LYS A 544 -76.03 -132.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 EDO A 609 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 606 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 300 O REMARK 620 2 ILE A 302 O 87.7 REMARK 620 3 ILE A 305 O 89.3 80.5 REMARK 620 4 DC D 3 OP1 174.0 95.9 96.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 604 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 339 O REMARK 620 2 ILE A 341 O 96.7 REMARK 620 3 ALA A 344 O 87.1 83.8 REMARK 620 4 HOH A 731 O 91.2 99.8 176.2 REMARK 620 5 DA P 5 OP1 164.8 97.7 99.3 81.5 REMARK 620 6 HOH P 105 O 74.9 170.9 92.1 84.1 91.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 603 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 382 OD2 REMARK 620 2 HIS A 486 ND1 99.4 REMARK 620 3 HOH A 721 O 108.9 91.8 REMARK 620 4 HOH A 736 O 84.4 93.2 164.8 REMARK 620 5 HOH P 113 O 148.7 94.4 98.6 66.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 601 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD1 REMARK 620 2 ASP A 429 OD2 95.0 REMARK 620 3 PPV A 607 O21 155.0 92.4 REMARK 620 4 PPV A 607 O32 83.7 107.8 71.3 REMARK 620 5 DC P 7 OP1 102.6 103.7 98.8 147.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 602 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 429 OD1 REMARK 620 2 ASP A 490 OD2 99.1 REMARK 620 3 DC P 7 OP1 89.9 146.8 REMARK 620 4 HOH P 110 O 154.2 105.3 74.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 605 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 750 O REMARK 620 2 HOH A 757 O 72.2 REMARK 620 N 1 DBREF 7M4I A 242 575 UNP Q9UGP5 DPOLL_HUMAN 242 575 DBREF 7M4I T 1 11 PDB 7M4I 7M4I 1 11 DBREF 7M4I P 1 7 PDB 7M4I 7M4I 1 7 DBREF 7M4I D 1 4 PDB 7M4I 7M4I 1 4 SEQADV 7M4I LYS A 463 UNP Q9UGP5 SER 463 CONFLICT SEQADV 7M4I GLY A 464 UNP Q9UGP5 GLN 464 CONFLICT SEQADV 7M4I A UNP Q9UGP5 GLU 466 DELETION SEQADV 7M4I A UNP Q9UGP5 ASN 467 DELETION SEQADV 7M4I A UNP Q9UGP5 GLY 468 DELETION SEQADV 7M4I A UNP Q9UGP5 GLN 469 DELETION SEQADV 7M4I A UNP Q9UGP5 GLN 470 DELETION SEQADV 7M4I THR A 471 UNP Q9UGP5 GLN 471 CONFLICT SEQADV 7M4I 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 7 DC DA DG DT DA DC DC SEQRES 1 D 4 DG DC DC DG HET MN A 601 1 HET MN A 602 1 HET MN A 603 1 HET NA A 604 1 HET NA A 605 1 HET NA A 606 1 HET PPV A 607 9 HET EDO A 608 4 HET EDO A 609 3 HET EDO A 610 4 HETNAM MN MANGANESE (II) ION HETNAM NA SODIUM ION HETNAM PPV PYROPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 MN 3(MN 2+) FORMUL 8 NA 3(NA 1+) FORMUL 11 PPV H4 O7 P2 FORMUL 12 EDO 3(C2 H6 O2) FORMUL 15 HOH *82(H2 O) HELIX 1 AA1 ASN A 253 GLY A 271 1 19 HELIX 2 AA2 ASP A 272 PHE A 289 1 18 HELIX 3 AA3 SER A 295 ILE A 302 1 8 HELIX 4 AA4 GLY A 306 GLY A 320 1 15 HELIX 5 AA5 ARG A 323 ILE A 328 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 SER A 381 GLU A 385 5 5 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 LEU A 431 N VAL A 413 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 CYS A 477 O ARG A 487 SHEET 5 AA2 5 LEU A 457 LYS A 463 -1 N THR A 458 O VAL A 476 SHEET 1 AA3 3 MET A 525 LEU A 527 0 SHEET 2 AA3 3 LEU A 532 THR A 534 -1 O SER A 533 N SER A 526 SHEET 3 AA3 3 ARG A 549 LEU A 551 -1 O LEU A 551 N LEU A 532 SHEET 1 AA4 2 VAL A 537 ARG A 538 0 SHEET 2 AA4 2 ALA A 543 GLY A 546 -1 O LYS A 544 N VAL A 537 LINK O CYS A 300 NA NA A 606 1555 1555 3.17 LINK O ILE A 302 NA NA A 606 1555 1555 2.42 LINK O ILE A 305 NA NA A 606 1555 1555 2.86 LINK O SER A 339 NA NA A 604 1555 1555 2.41 LINK O ILE A 341 NA NA A 604 1555 1555 2.53 LINK O ALA A 344 NA NA A 604 1555 1555 2.34 LINK OD2 ASP A 382 MN MN A 603 1555 1555 2.20 LINK OD1BASP A 427 MN MN A 601 1555 1555 2.08 LINK OD2 ASP A 429 MN MN A 601 1555 1555 1.94 LINK OD1 ASP A 429 MN MN A 602 1555 1555 1.95 LINK ND1 HIS A 486 MN MN A 603 1555 1555 2.31 LINK OD2 ASP A 490 MN MN A 602 1555 1555 2.34 LINK MN MN A 601 O21 PPV A 607 1555 1555 2.19 LINK MN MN A 601 O32 PPV A 607 1555 1555 2.14 LINK MN MN A 601 OP1 DC P 7 1555 1555 2.03 LINK MN MN A 602 OP1 DC P 7 1555 1555 2.53 LINK MN MN A 602 O AHOH P 110 1555 1555 2.40 LINK MN MN A 603 O HOH A 721 1555 1555 2.54 LINK MN MN A 603 O HOH A 736 1555 1555 2.42 LINK MN MN A 603 O HOH P 113 1555 4545 2.75 LINK NA NA A 604 O HOH A 731 1555 1555 2.55 LINK NA NA A 604 OP1 DA P 5 1555 1555 2.32 LINK NA NA A 604 O HOH P 105 1555 1555 2.57 LINK NA NA A 605 O HOH A 750 1555 1555 2.94 LINK NA NA A 605 O HOH A 757 1555 1555 3.04 LINK NA NA A 606 OP1 DC D 3 1555 1555 2.71 CISPEP 1 GLY A 508 SER A 509 0 2.74 CRYST1 55.750 62.317 142.177 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 0.016047 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007033 0.00000