HEADER REPLICATION 21-MAR-21 7M4K TITLE DNA POLYMERASE LAMBDA, TTPAS: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 7M4K 1 REMARK REVDAT 1 06-JUL-22 7M4K 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. 1.72 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) : 1.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.12 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 52437 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2569 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 31.1170 - 4.5014 0.97 2931 152 0.1994 0.2067 REMARK 3 2 4.5014 - 3.5746 1.00 2885 153 0.1594 0.2218 REMARK 3 3 3.5746 - 3.1232 1.00 2832 137 0.1894 0.2053 REMARK 3 4 3.1232 - 2.8378 1.00 2838 150 0.2086 0.2529 REMARK 3 5 2.8378 - 2.6346 1.00 2807 145 0.2125 0.2394 REMARK 3 6 2.6346 - 2.4793 1.00 2818 149 0.2026 0.2121 REMARK 3 7 2.4793 - 2.3552 1.00 2817 140 0.2006 0.2341 REMARK 3 8 2.3552 - 2.2527 1.00 2777 147 0.1974 0.2445 REMARK 3 9 2.2527 - 2.1660 1.00 2785 148 0.2010 0.2266 REMARK 3 10 2.1660 - 2.0913 1.00 2807 131 0.2038 0.2451 REMARK 3 11 2.0913 - 2.0259 1.00 2792 147 0.2014 0.2288 REMARK 3 12 2.0259 - 1.9680 1.00 2769 147 0.2104 0.2499 REMARK 3 13 1.9680 - 1.9162 1.00 2761 145 0.2140 0.2485 REMARK 3 14 1.9162 - 1.8694 1.00 2759 142 0.2266 0.2594 REMARK 3 15 1.8694 - 1.8269 1.00 2767 142 0.2422 0.2624 REMARK 3 16 1.8269 - 1.7881 0.98 2733 142 0.2536 0.2929 REMARK 3 17 1.7881 - 1.7523 0.93 2562 132 0.2708 0.2985 REMARK 3 18 1.7523 - 1.7192 0.87 2428 120 0.3011 0.3667 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) : 25.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.21 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 251:322 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.428 -29.696 25.011 REMARK 3 T TENSOR REMARK 3 T11: 0.5408 T22: 0.7412 REMARK 3 T33: 0.5788 T12: 0.1662 REMARK 3 T13: -0.1203 T23: 0.1579 REMARK 3 L TENSOR REMARK 3 L11: 0.5215 L22: 1.0500 REMARK 3 L33: 0.5358 L12: -0.3258 REMARK 3 L13: -0.4001 L23: -0.1161 REMARK 3 S TENSOR REMARK 3 S11: -0.2237 S12: -0.7970 S13: 0.0247 REMARK 3 S21: 0.5055 S22: -0.0000 S23: -0.6535 REMARK 3 S31: 0.3688 S32: 0.7374 S33: -0.0219 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 323:505 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.420 -5.898 6.444 REMARK 3 T TENSOR REMARK 3 T11: 0.2557 T22: 0.2116 REMARK 3 T33: 0.3111 T12: 0.0229 REMARK 3 T13: -0.0038 T23: -0.0274 REMARK 3 L TENSOR REMARK 3 L11: 2.5250 L22: 1.5965 REMARK 3 L33: 1.3733 L12: 0.4581 REMARK 3 L13: -1.0105 L23: 0.1250 REMARK 3 S TENSOR REMARK 3 S11: 0.1398 S12: -0.0484 S13: 0.3673 REMARK 3 S21: 0.0510 S22: 0.0642 S23: -0.0002 REMARK 3 S31: -0.1564 S32: 0.0288 S33: 0.0746 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 506:575 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.193 -5.093 29.650 REMARK 3 T TENSOR REMARK 3 T11: 0.5533 T22: 0.5700 REMARK 3 T33: 0.4145 T12: -0.0301 REMARK 3 T13: 0.0419 T23: -0.1389 REMARK 3 L TENSOR REMARK 3 L11: 0.5356 L22: 1.5421 REMARK 3 L33: 1.5711 L12: 0.5090 REMARK 3 L13: -0.5679 L23: -0.4639 REMARK 3 S TENSOR REMARK 3 S11: 0.0505 S12: -0.7515 S13: 0.2220 REMARK 3 S21: 0.3953 S22: 0.1373 S23: -0.0143 REMARK 3 S31: -0.1237 S32: 0.6711 S33: 0.0034 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN T AND RESID 1:4 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.990 -26.089 26.639 REMARK 3 T TENSOR REMARK 3 T11: 0.4677 T22: 0.6317 REMARK 3 T33: 0.4177 T12: -0.0032 REMARK 3 T13: 0.0651 T23: 0.2216 REMARK 3 L TENSOR REMARK 3 L11: 0.3255 L22: 0.9701 REMARK 3 L33: 0.0117 L12: -0.4059 REMARK 3 L13: -0.0375 L23: 0.0135 REMARK 3 S TENSOR REMARK 3 S11: 0.3154 S12: -0.0085 S13: 0.1357 REMARK 3 S21: -0.0834 S22: 0.0715 S23: 0.8101 REMARK 3 S31: 0.1143 S32: -0.4130 S33: -0.0193 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN T AND RESID 5:11 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.243 -9.270 12.338 REMARK 3 T TENSOR REMARK 3 T11: 0.4641 T22: 0.3566 REMARK 3 T33: 0.4244 T12: -0.0313 REMARK 3 T13: -0.0114 T23: -0.0154 REMARK 3 L TENSOR REMARK 3 L11: 0.1991 L22: 0.4421 REMARK 3 L33: 0.1132 L12: 0.1558 REMARK 3 L13: -0.0127 L23: 0.1062 REMARK 3 S TENSOR REMARK 3 S11: 0.2719 S12: -0.0626 S13: -0.0084 REMARK 3 S21: 0.1473 S22: 0.0868 S23: 0.3587 REMARK 3 S31: -0.5575 S32: -0.0852 S33: 0.0008 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN P AND RESID 1:6 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.904 -15.056 8.560 REMARK 3 T TENSOR REMARK 3 T11: 0.2750 T22: 0.2475 REMARK 3 T33: 0.2774 T12: -0.0127 REMARK 3 T13: -0.0092 T23: -0.0451 REMARK 3 L TENSOR REMARK 3 L11: 0.1655 L22: 0.1773 REMARK 3 L33: 0.1598 L12: -0.0465 REMARK 3 L13: -0.1383 L23: 0.1169 REMARK 3 S TENSOR REMARK 3 S11: 0.1022 S12: -0.6216 S13: -0.0905 REMARK 3 S21: 0.1090 S22: -0.1651 S23: -0.0648 REMARK 3 S31: -0.2993 S32: -0.1773 S33: -0.0005 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN D AND RESID 1:4 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.525 -28.560 29.444 REMARK 3 T TENSOR REMARK 3 T11: 0.7273 T22: 0.5009 REMARK 3 T33: 0.4398 T12: 0.0074 REMARK 3 T13: 0.0929 T23: 0.0755 REMARK 3 L TENSOR REMARK 3 L11: 0.2267 L22: 1.2159 REMARK 3 L33: 2.2352 L12: -0.2340 REMARK 3 L13: -0.4185 L23: 1.6350 REMARK 3 S TENSOR REMARK 3 S11: 0.4548 S12: -0.5654 S13: -0.0265 REMARK 3 S21: 0.4258 S22: 0.2820 S23: -0.0226 REMARK 3 S31: 0.3264 S32: 0.1655 S33: 0.1304 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 7M4K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1001310105. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-NOV-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 : 52546 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.719 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 (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.43700 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 28.00050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.09550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.25350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.09550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.00050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.25350 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: 16810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 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 VAL A 537 REMARK 465 ARG A 538 REMARK 465 ASN A 539 REMARK 465 THR A 540 REMARK 465 HIS A 541 REMARK 465 GLY A 542 REMARK 465 ALA A 543 REMARK 465 LYS A 544 REMARK 465 VAL A 545 REMARK 465 GLY A 546 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 CD1 CD2 REMARK 470 ILE A 256 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 LYS A 273 CD CE NZ REMARK 470 SER A 288 OG REMARK 470 PHE A 289 CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 291 CG CD CE NZ 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 ILE A 302 CG1 CG2 CD1 REMARK 470 LYS A 307 CD CE NZ REMARK 470 ARG A 308 CZ NH1 NH2 REMARK 470 ALA A 310 CB REMARK 470 ILE A 313 CD1 REMARK 470 ILE A 314 CD1 REMARK 470 ILE A 316 CD1 REMARK 470 LEU A 317 CD1 CD2 REMARK 470 GLU A 318 CG CD OE1 OE2 REMARK 470 LEU A 322 CD1 CD2 REMARK 470 ARG A 323 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 324 CD CE NZ REMARK 470 GLU A 330 CG CD OE1 OE2 REMARK 470 GLU A 385 CD OE1 OE2 REMARK 470 LYS A 401 CG CD CE NZ REMARK 470 PHE A 406 CD1 CD2 CE1 CE2 CZ REMARK 470 SER A 408 OG REMARK 470 LEU A 411 CD1 CD2 REMARK 470 LYS A 422 CD CE NZ REMARK 470 ARG A 438 CG CD NE CZ NH1 NH2 REMARK 470 SER A 439 CB OG REMARK 470 ARG A 441 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 446 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 449 CG OD1 OD2 REMARK 470 ARG A 452 NH1 NH2 REMARK 470 GLN A 453 CG CD OE1 NE2 REMARK 470 LYS A 463 CE NZ REMARK 470 GLU A 470 CD OE1 OE2 REMARK 470 ALA A 535 CB REMARK 470 VAL A 536 CG1 CG2 REMARK 470 LYS A 557 CD CE NZ REMARK 470 LEU A 565 CD1 CD2 REMARK 470 ARG A 568 NH1 NH2 REMARK 470 GLU A 569 CD OE1 OE2 REMARK 470 GLU A 572 CB 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 DC T 4 O3' DC T 4 C3' -0.045 REMARK 500 DA P 2 O3' DA P 2 C3' -0.045 REMARK 500 DG D 1 P DG D 1 OP3 -0.119 REMARK 500 DC D 3 O3' DC D 3 C3' -0.045 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. = 4.2 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 CYS A 415 -138.26 -111.02 REMARK 500 ARG A 438 -44.45 -137.91 REMARK 500 ALA A 535 -159.07 -91.42 REMARK 500 ASP A 574 56.94 -94.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 SER A 288 -10.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 833 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH P 128 DISTANCE = 6.23 ANGSTROMS 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 610 REMARK 610 EDO A 611 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 604 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 300 O REMARK 620 2 ILE A 302 O 77.2 REMARK 620 3 ILE A 305 O 93.9 83.3 REMARK 620 4 DC D 3 OP1 162.9 87.1 90.9 REMARK 620 N 1 2 3 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 98.4 REMARK 620 3 ALA A 344 O 87.3 85.9 REMARK 620 4 HOH A 749 O 89.1 97.9 175.2 REMARK 620 5 DA P 5 OP1 164.1 97.5 92.2 90.3 REMARK 620 6 HOH P 106 O 74.5 170.7 87.8 88.1 89.5 REMARK 620 N 1 2 3 4 5 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 GLN A 366 OE1 REMARK 620 2 HOH A 713 O 85.1 REMARK 620 N 1 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 OD1 REMARK 620 2 ASP A 429 OD2 100.1 REMARK 620 3 YQS A 612 O1A 77.0 92.3 REMARK 620 4 YQS A 612 O1B 172.6 85.2 97.8 REMARK 620 5 YQS A 612 O1G 89.5 167.5 81.9 84.6 REMARK 620 6 HOH A 753 O 111.2 75.4 166.1 75.0 108.8 REMARK 620 N 1 2 3 4 5 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 49.5 REMARK 620 3 ASP A 429 OD1 85.4 130.0 REMARK 620 4 ASP A 490 OD2 143.9 108.1 96.8 REMARK 620 5 YQS A 612 O1A 62.3 87.3 88.7 153.4 REMARK 620 N 1 2 3 4 DBREF 7M4K A 242 575 UNP Q9UGP5 DPOLL_HUMAN 242 575 DBREF 7M4K T 1 11 PDB 7M4K 7M4K 1 11 DBREF 7M4K P 1 6 PDB 7M4K 7M4K 1 6 DBREF 7M4K D 1 4 PDB 7M4K 7M4K 1 4 SEQADV 7M4K LYS A 463 UNP Q9UGP5 SER 463 CONFLICT SEQADV 7M4K GLY A 464 UNP Q9UGP5 GLN 464 CONFLICT SEQADV 7M4K A UNP Q9UGP5 GLU 466 DELETION SEQADV 7M4K A UNP Q9UGP5 ASN 467 DELETION SEQADV 7M4K A UNP Q9UGP5 GLY 468 DELETION SEQADV 7M4K A UNP Q9UGP5 GLN 469 DELETION SEQADV 7M4K A UNP Q9UGP5 GLN 470 DELETION SEQADV 7M4K THR A 471 UNP Q9UGP5 GLN 471 CONFLICT SEQADV 7M4K 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 NA A 604 1 HET NA A 605 1 HET EDO A 606 4 HET EDO A 607 4 HET EDO A 608 4 HET EDO A 609 4 HET EDO A 610 3 HET EDO A 611 3 HET YQS A 612 29 HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM YQS [[(2~{R},3~{S},5~{R})-5-[5-METHYL-2,4- HETNAM 2 YQS BIS(OXIDANYLIDENE)PYRIMIDIN-1-YL]-3-OXIDANYL-OXOLAN-2- HETNAM 3 YQS YL]METHOXY-SULFANYL-PHOSPHORYL] PHOSPHONO HYDROGEN HETNAM 4 YQS PHOSPHATE HETSYN EDO ETHYLENE GLYCOL FORMUL 5 CA CA 2+ FORMUL 6 NA 4(NA 1+) FORMUL 10 EDO 6(C2 H6 O2) FORMUL 16 YQS C10 H17 N2 O13 P3 S FORMUL 17 HOH *199(H2 O) HELIX 1 AA1 ASN A 253 GLN A 270 1 18 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 ILE A 328 5 7 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 LEU A 384 1 6 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 ILE A 492 N ILE A 432 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 VAL A 550 LEU A 551 -1 O LEU A 551 N LEU A 532 LINK O CYS A 300 NA NA A 604 1555 1555 2.56 LINK O ILE A 302 NA NA A 604 1555 1555 2.73 LINK O ILE A 305 NA NA A 604 1555 1555 2.70 LINK O SER A 339 NA NA A 603 1555 1555 2.36 LINK O ILE A 341 NA NA A 603 1555 1555 2.42 LINK O ALA A 344 NA NA A 603 1555 1555 2.37 LINK OE1 GLN A 366 NA NA A 605 1555 1555 2.31 LINK OD1 ASP A 427 CA CA A 601 1555 1555 2.09 LINK OD1 ASP A 427 NA NA A 602 1555 1555 2.83 LINK OD2 ASP A 427 NA NA A 602 1555 1555 2.31 LINK OD2 ASP A 429 CA CA A 601 1555 1555 2.43 LINK OD1 ASP A 429 NA NA A 602 1555 1555 2.30 LINK OD2 ASP A 490 NA NA A 602 1555 1555 2.37 LINK CA CA A 601 O1A YQS A 612 1555 1555 2.28 LINK CA CA A 601 O1B YQS A 612 1555 1555 2.28 LINK CA CA A 601 O1G YQS A 612 1555 1555 2.30 LINK CA CA A 601 O HOH A 753 1555 1555 2.85 LINK NA NA A 602 O1A YQS A 612 1555 1555 2.38 LINK NA NA A 603 O HOH A 749 1555 1555 2.37 LINK NA NA A 603 OP1 DA P 5 1555 1555 2.38 LINK NA NA A 603 O HOH P 106 1555 1555 2.67 LINK NA NA A 604 OP1 DC D 3 1555 1555 3.04 LINK NA NA A 605 O HOH A 713 1555 1555 3.04 CISPEP 1 GLY A 508 SER A 509 0 4.42 CRYST1 56.001 62.507 140.191 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 0.017857 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015998 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007133 0.00000