HEADER TRANSFERASE/DNA 29-AUG-23 8U0O TITLE SYNAPTIC COMPLEX OF HUMAN DNA POLYMERASE LAMBDA DL VARIANT ENGAGED ON TITLE 2 A DNA DOUBLE-STRAND BREAK CONTAINING AN UNPAIRED 3' PRIMER TERMINUS 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(*AP*CP*GP*CP*GP*GP*CP*A)-3'); COMPND 11 CHAIN: T; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'-D(P*GP*CP*CP*GP*CP*GP*TP*A)-3'); COMPND 15 CHAIN: P; COMPND 16 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28M; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630 KEYWDS NONHOMOLOGOUS END-JOINING, BASE EXCISION REPAIR, DNA POLYMERASE, KEYWDS 2 TRANSFERASE, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.M.KAMINSKI,L.C.PEDERSEN,K.BEBENEK,T.A.KUNKEL,K.K.CHIRUVELLA, AUTHOR 2 D.A.RAMSDEN REVDAT 1 13-MAR-24 8U0O 0 JRNL AUTH A.M.KAMINSKI,K.K.CHIRUVELLA,D.A.RAMSDEN,K.BEBENEK, JRNL AUTH 2 T.A.KUNKEL,L.C.PEDERSEN JRNL TITL DNA POLYMERASE LAMBDA LOOP1 VARIANT YIELDS UNEXPECTED JRNL TITL 2 GAIN-OF-FUNCTION CAPABILITIES IN NONHOMOLOGOUS END-JOINING. JRNL REF DNA REPAIR (AMST) V. 136 03645 2024 JRNL REFN ISSN 1568-7856 JRNL PMID 38428373 JRNL DOI 10.1016/J.DNAREP.2024.103645 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 27319 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1368 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 41.3400 - 4.4100 0.99 2842 152 0.1904 0.2208 REMARK 3 2 4.4100 - 3.5000 1.00 2665 144 0.1907 0.2313 REMARK 3 3 3.5000 - 3.0600 1.00 2652 137 0.2145 0.2973 REMARK 3 4 3.0600 - 2.7800 0.99 2624 140 0.2750 0.3046 REMARK 3 5 2.7800 - 2.5800 0.99 2588 134 0.2471 0.2900 REMARK 3 6 2.5800 - 2.4300 0.99 2588 138 0.2490 0.2955 REMARK 3 7 2.4300 - 2.3100 0.98 2545 133 0.2244 0.3066 REMARK 3 8 2.3100 - 2.2100 0.97 2526 129 0.2590 0.2979 REMARK 3 9 2.2100 - 2.1200 0.96 2476 133 0.2412 0.2997 REMARK 3 10 2.1200 - 2.0500 0.95 2445 128 0.2791 0.3489 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) : 0.245 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.562 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 45.28 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.81 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 : 0.012 2686 REMARK 3 ANGLE : 1.167 3715 REMARK 3 CHIRALITY : 0.059 420 REMARK 3 PLANARITY : 0.012 426 REMARK 3 DIHEDRAL : 13.443 806 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESID 250:329 REMARK 3 ORIGIN FOR THE GROUP (A): -8.8466 -8.6736 23.5369 REMARK 3 T TENSOR REMARK 3 T11: 1.0129 T22: 0.8273 REMARK 3 T33: 1.0113 T12: 0.1778 REMARK 3 T13: 0.1011 T23: 0.0772 REMARK 3 L TENSOR REMARK 3 L11: 0.8970 L22: 0.9789 REMARK 3 L33: 0.3433 L12: -0.3064 REMARK 3 L13: -0.2288 L23: 0.4160 REMARK 3 S TENSOR REMARK 3 S11: -0.3468 S12: 0.0531 S13: 0.4297 REMARK 3 S21: -0.3162 S22: 0.3729 S23: 0.7131 REMARK 3 S31: -0.5318 S32: -0.8608 S33: 0.0003 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESID 330:386 REMARK 3 ORIGIN FOR THE GROUP (A): 18.5662 -11.1207 23.7684 REMARK 3 T TENSOR REMARK 3 T11: 0.7507 T22: 0.4248 REMARK 3 T33: 0.6075 T12: -0.1552 REMARK 3 T13: -0.0073 T23: -0.1229 REMARK 3 L TENSOR REMARK 3 L11: 1.2871 L22: 1.7409 REMARK 3 L33: 0.6068 L12: -0.8650 REMARK 3 L13: -0.7411 L23: 0.4546 REMARK 3 S TENSOR REMARK 3 S11: 0.0680 S12: -0.5621 S13: 0.7010 REMARK 3 S21: 0.3869 S22: 0.1954 S23: -0.3544 REMARK 3 S31: -0.7673 S32: 0.5327 S33: 0.0004 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESID 387:495 REMARK 3 ORIGIN FOR THE GROUP (A): 16.1283 -30.5771 6.8603 REMARK 3 T TENSOR REMARK 3 T11: 0.4768 T22: 0.3508 REMARK 3 T33: 0.3893 T12: -0.0342 REMARK 3 T13: 0.0313 T23: -0.0313 REMARK 3 L TENSOR REMARK 3 L11: 3.5832 L22: 2.4025 REMARK 3 L33: 2.1068 L12: 1.6447 REMARK 3 L13: 0.4660 L23: -0.3621 REMARK 3 S TENSOR REMARK 3 S11: 0.0312 S12: 0.3130 S13: -0.2986 REMARK 3 S21: -0.2613 S22: 0.0098 S23: -0.4436 REMARK 3 S31: 0.3969 S32: 0.2993 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESID 496:575 REMARK 3 ORIGIN FOR THE GROUP (A): -3.5540 -34.4107 15.5274 REMARK 3 T TENSOR REMARK 3 T11: 0.5553 T22: 0.5096 REMARK 3 T33: 0.5088 T12: -0.1697 REMARK 3 T13: 0.0376 T23: 0.0071 REMARK 3 L TENSOR REMARK 3 L11: 2.0882 L22: 0.9317 REMARK 3 L33: 1.9504 L12: 0.3024 REMARK 3 L13: -0.0972 L23: 0.6889 REMARK 3 S TENSOR REMARK 3 S11: 0.0835 S12: -0.1626 S13: -0.0523 REMARK 3 S21: 0.2271 S22: 0.0317 S23: 0.5709 REMARK 3 S31: 0.3796 S32: -0.7286 S33: 0.0018 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN P REMARK 3 ORIGIN FOR THE GROUP (A): -14.2054 -23.2189 38.1377 REMARK 3 T TENSOR REMARK 3 T11: 0.6154 T22: 0.6087 REMARK 3 T33: 0.5926 T12: 0.0810 REMARK 3 T13: 0.1519 T23: 0.0643 REMARK 3 L TENSOR REMARK 3 L11: 0.3057 L22: 0.1996 REMARK 3 L33: 0.2250 L12: -0.1044 REMARK 3 L13: 0.0221 L23: 0.1319 REMARK 3 S TENSOR REMARK 3 S11: 0.3364 S12: 0.5784 S13: 0.7069 REMARK 3 S21: -0.1294 S22: 0.1789 S23: 0.0184 REMARK 3 S31: -0.4044 S32: -0.6270 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN T REMARK 3 ORIGIN FOR THE GROUP (A): -8.3377 -22.7330 38.0544 REMARK 3 T TENSOR REMARK 3 T11: 0.5338 T22: 0.5504 REMARK 3 T33: 0.5565 T12: 0.0436 REMARK 3 T13: 0.1122 T23: 0.0118 REMARK 3 L TENSOR REMARK 3 L11: 0.5406 L22: 0.3630 REMARK 3 L33: 0.3744 L12: 0.4629 REMARK 3 L13: 0.4123 L23: 0.3807 REMARK 3 S TENSOR REMARK 3 S11: 0.0138 S12: 0.3450 S13: 0.0170 REMARK 3 S21: 0.0825 S22: 0.0860 S23: 0.2533 REMARK 3 S31: -0.2132 S32: 0.3837 S33: 0.0000 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 8U0O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-AUG-23. REMARK 100 THE DEPOSITION ID IS D_1000276475. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-21 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.5 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 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(III) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27862 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07300 REMARK 200 FOR THE DATA SET : 30.9200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.09 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 7.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.87400 REMARK 200 FOR SHELL : 1.250 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M ADA PH 6.5, 1 M AMMONIUM REMARK 280 PHOSPHATE DIBASIC, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 140.83200 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 70.41600 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 70.41600 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 140.83200 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 APPLY THE FOLLOWING TO CHAINS: T, P REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 29.48550 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -51.07038 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 70.41600 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 GLY A 230 REMARK 465 SER A 231 REMARK 465 ALA A 232 REMARK 465 ALA A 233 REMARK 465 ALA A 234 REMARK 465 VAL A 235 REMARK 465 LEU A 236 REMARK 465 ASP A 237 REMARK 465 LYS A 238 REMARK 465 TRP A 239 REMARK 465 VAL A 240 REMARK 465 CYS A 241 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 ALA A 535 REMARK 465 VAL A 536 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 CYS A 543 REMARK 465 LYS A 544 REMARK 465 VAL A 545 REMARK 465 GLY A 546 REMARK 465 PRO A 547 REMARK 465 GLY A 548 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 THR A 250 OG1 CG2 REMARK 470 HIS A 252 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 254 CG CD1 CD2 REMARK 470 HIS A 255 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 256 CG1 CG2 CD1 REMARK 470 GLU A 258 CG CD OE1 OE2 REMARK 470 LYS A 259 CD CE NZ REMARK 470 GLU A 261 CD OE1 OE2 REMARK 470 LYS A 265 CD CE NZ REMARK 470 LYS A 273 CE NZ REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 LYS A 287 CG CD CE NZ 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 THR A 294 OG1 CG2 REMARK 470 GLN A 297 CG CD OE1 NE2 REMARK 470 GLU A 298 CG CD OE1 OE2 REMARK 470 ILE A 302 CG1 CG2 CD1 REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 ARG A 308 CD NE CZ NH1 NH2 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 CD OE1 OE2 REMARK 470 HIS A 321 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 322 CG CD1 CD2 REMARK 470 ARG A 323 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 HIS A 327 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 330 CG CD OE1 OE2 REMARK 470 GLN A 350 CD OE1 NE2 REMARK 470 GLN A 354 CD OE1 NE2 REMARK 470 GLU A 361 CG CD OE1 OE2 REMARK 470 ARG A 364 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 366 CG CD OE1 NE2 REMARK 470 LYS A 401 NZ REMARK 470 LYS A 422 CD CE NZ REMARK 470 ARG A 438 CD NE CZ NH1 NH2 REMARK 470 ARG A 441 CD NE CZ NH1 NH2 REMARK 470 SER A 445 OG REMARK 470 ARG A 446 CZ NH1 NH2 REMARK 470 GLN A 453 CG CD OE1 NE2 REMARK 470 GLU A 454 CD OE1 OE2 REMARK 470 LYS A 463 NZ REMARK 470 LYS A 523 CE NZ REMARK 470 ARG A 549 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 551 CD1 CD2 REMARK 470 LYS A 557 CE NZ REMARK 470 ARG A 568 NE CZ NH1 NH2 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 T 5 O3' DG T 5 C3' -0.049 REMARK 500 DG P 1 P DG P 1 OP3 -0.128 REMARK 500 DC P 3 O3' DC P 3 C3' -0.036 REMARK 500 DC P 5 C5' DC P 5 C4' 0.048 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 P 4 O4' - C4' - C3' ANGL. DEV. = -2.4 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 23.02 -140.06 REMARK 500 SER A 365 -68.68 -91.60 REMARK 500 CYS A 415 -135.93 -112.80 REMARK 500 ARG A 438 -49.84 -130.98 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 601 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 339 O REMARK 620 2 ILE A 341 O 93.0 REMARK 620 3 ALA A 344 O 93.0 80.1 REMARK 620 4 HOH A 755 O 84.4 97.6 176.4 REMARK 620 5 DT P 7 OP1 102.8 150.2 74.0 108.9 REMARK 620 6 HOH P 103 O 77.7 167.4 91.6 90.2 30.1 REMARK 620 N 1 2 3 4 5 DBREF 8U0O A 234 575 UNP Q9UGP5 DPOLL_HUMAN 234 575 DBREF 8U0O T 1 8 PDB 8U0O 8U0O 1 8 DBREF 8U0O P 1 8 PDB 8U0O 8U0O 1 8 SEQADV 8U0O GLY A 230 UNP Q9UGP5 EXPRESSION TAG SEQADV 8U0O SER A 231 UNP Q9UGP5 EXPRESSION TAG SEQADV 8U0O ALA A 232 UNP Q9UGP5 EXPRESSION TAG SEQADV 8U0O ALA A 233 UNP Q9UGP5 EXPRESSION TAG SEQADV 8U0O LYS A 463 UNP Q9UGP5 SER 463 ENGINEERED MUTATION SEQADV 8U0O GLY A 464 UNP Q9UGP5 GLN 464 ENGINEERED MUTATION SEQADV 8U0O A UNP Q9UGP5 GLU 466 DELETION SEQADV 8U0O A UNP Q9UGP5 ASN 467 DELETION SEQADV 8U0O A UNP Q9UGP5 GLY 468 DELETION SEQADV 8U0O A UNP Q9UGP5 GLN 469 DELETION SEQADV 8U0O A UNP Q9UGP5 GLN 470 DELETION SEQADV 8U0O THR A 471 UNP Q9UGP5 GLN 471 ENGINEERED MUTATION SEQRES 1 A 341 GLY SER ALA ALA ALA VAL LEU ASP LYS TRP VAL CYS ALA SEQRES 2 A 341 GLN PRO SER SER GLN LYS ALA THR ASN HIS ASN LEU HIS SEQRES 3 A 341 ILE THR GLU LYS LEU GLU VAL LEU ALA LYS ALA TYR SER SEQRES 4 A 341 VAL GLN GLY ASP LYS TRP ARG ALA LEU GLY TYR ALA LYS SEQRES 5 A 341 ALA ILE ASN ALA LEU LYS SER PHE HIS LYS PRO VAL THR SEQRES 6 A 341 SER TYR GLN GLU ALA CYS SER ILE PRO GLY ILE GLY LYS SEQRES 7 A 341 ARG MET ALA GLU LYS ILE ILE GLU ILE LEU GLU SER GLY SEQRES 8 A 341 HIS LEU ARG LYS LEU ASP HIS ILE SER GLU SER VAL PRO SEQRES 9 A 341 VAL LEU GLU LEU PHE SER ASN ILE TRP GLY ALA GLY THR SEQRES 10 A 341 LYS THR ALA GLN MET TRP TYR GLN GLN GLY PHE ARG SER SEQRES 11 A 341 LEU GLU ASP ILE ARG SER GLN ALA SER LEU THR THR GLN SEQRES 12 A 341 GLN ALA ILE GLY LEU LYS HIS TYR SER ASP PHE LEU GLU SEQRES 13 A 341 ARG MET PRO ARG GLU GLU ALA THR GLU ILE GLU GLN THR SEQRES 14 A 341 VAL GLN LYS ALA ALA GLN ALA PHE ASN SER GLY LEU LEU SEQRES 15 A 341 CYS VAL ALA CYS GLY SER TYR ARG ARG GLY LYS ALA THR SEQRES 16 A 341 CYS GLY ASP VAL ASP VAL LEU ILE THR HIS PRO ASP GLY SEQRES 17 A 341 ARG SER HIS ARG GLY ILE PHE SER ARG LEU LEU ASP SER SEQRES 18 A 341 LEU ARG GLN GLU GLY PHE LEU THR ASP ASP LEU VAL LYS SEQRES 19 A 341 GLY GLU THR LYS TYR LEU GLY VAL CYS ARG LEU PRO GLY SEQRES 20 A 341 PRO GLY ARG ARG HIS ARG ARG LEU ASP ILE ILE VAL VAL SEQRES 21 A 341 PRO TYR SER GLU PHE ALA CYS ALA LEU LEU TYR PHE THR SEQRES 22 A 341 GLY SER ALA HIS PHE ASN ARG SER MET ARG ALA LEU ALA SEQRES 23 A 341 LYS THR LYS GLY MET SER LEU SER GLU HIS ALA LEU SER SEQRES 24 A 341 THR ALA VAL VAL ARG ASN THR HIS GLY CYS LYS VAL GLY SEQRES 25 A 341 PRO GLY ARG VAL LEU PRO THR PRO THR GLU LYS ASP VAL SEQRES 26 A 341 PHE ARG LEU LEU GLY LEU PRO TYR ARG GLU PRO ALA GLU SEQRES 27 A 341 ARG ASP TRP SEQRES 1 T 8 DA DC DG DC DG DG DC DA SEQRES 1 P 8 DG DC DC DG DC DG DT DA HET NA A 601 1 HET PO4 A 602 5 HET CL A 603 1 HET EDO A 604 4 HET EDO A 605 4 HETNAM NA SODIUM ION HETNAM PO4 PHOSPHATE ION HETNAM CL CHLORIDE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 4 NA NA 1+ FORMUL 5 PO4 O4 P 3- FORMUL 6 CL CL 1- FORMUL 7 EDO 2(C2 H6 O2) FORMUL 9 HOH *84(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 ILE A 302 1 8 HELIX 4 AA4 GLY A 306 GLY A 320 1 15 HELIX 5 AA5 LEU A 322 ASP A 326 5 5 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 GLN A 366 1 8 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 GLY A 442 GLU A 454 1 13 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 THR A 522 1 14 HELIX 17 AB8 THR A 555 LEU A 563 1 9 HELIX 18 AB9 GLU A 569 ARG A 573 5 5 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 TYR A 473 O ILE A 491 SHEET 5 AA2 5 LEU A 457 LYS A 463 -1 N VAL A 462 O LEU A 474 SHEET 1 AA3 2 SER A 526 LEU A 527 0 SHEET 2 AA3 2 LEU A 532 SER A 533 -1 O SER A 533 N SER A 526 LINK O SER A 339 NA NA A 601 1555 1555 2.23 LINK O ILE A 341 NA NA A 601 1555 1555 2.52 LINK O ALA A 344 NA NA A 601 1555 1555 2.49 LINK NA NA A 601 O HOH A 755 1555 1555 2.39 LINK NA NA A 601 OP1 DT P 7 5445 1555 2.48 LINK NA NA A 601 O HOH P 103 1555 5545 2.53 CISPEP 1 GLY A 508 SER A 509 0 7.21 CRYST1 58.971 58.971 211.248 90.00 90.00 120.00 P 32 2 1 6 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 0.016957 0.009790 0.000000 0.00000 SCALE2 0.000000 0.019581 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004734 0.00000