HEADER TRANSFERASE 10-MAR-21 7M0A TITLE INCOMPLETE IN CRYSTALLO INCORPORATION BY DNA POLYMERASE LAMBDA BOUND TITLE 2 TO BLUNT-ENDED DSB SUBSTRATE AND INCOMING DTTP 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 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*CP*GP*GP*CP*A)-3'); COMPND 10 CHAIN: T; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*CP*AP*GP*TP*GP*CP*T)-3'); COMPND 14 CHAIN: P; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: DNA (5'-D(P*GP*CP*CP*G)-3'); COMPND 18 CHAIN: D; COMPND 19 ENGINEERED: YES; COMPND 20 MOL_ID: 5; COMPND 21 MOLECULE: DNA (5'-D(*GP*CP*AP*CP*TP*G)-3'); COMPND 22 CHAIN: U; COMPND 23 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: PGEXM; 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; SOURCE 19 MOL_ID: 4; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 22 ORGANISM_TAXID: 32630; SOURCE 23 MOL_ID: 5; SOURCE 24 SYNTHETIC: YES; SOURCE 25 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 26 ORGANISM_TAXID: 32630 KEYWDS NONHOMOLOGOUS END-JOINING, BASE EXCISION REPAIR, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.M.KAMINSKI,K.BEBENEK,L.C.PEDERSEN,T.A.KUNKEL REVDAT 3 25-OCT-23 7M0A 1 REMARK REVDAT 2 15-FEB-23 7M0A 1 JRNL REVDAT 1 16-MAR-22 7M0A 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 ANALYSIS OF DIVERSE DOUBLE-STRAND BREAK SYNAPSIS WITH POL JRNL TITL 2 LAMBDA REVEALS BASIS FOR UNIQUE SUBSTRATE SPECIFICITY IN JRNL TITL 3 NONHOMOLOGOUS END-JOINING. JRNL REF NAT COMMUN V. 13 3806 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 35778389 JRNL DOI 10.1038/S41467-022-31278-4 REMARK 2 REMARK 2 RESOLUTION. 1.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19_4092 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) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.71 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 41719 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 2077 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 43.7100 - 4.5100 0.97 2798 146 0.1751 0.1726 REMARK 3 2 4.5100 - 3.5800 1.00 2743 144 0.1384 0.1539 REMARK 3 3 3.5800 - 3.1300 1.00 2669 148 0.1572 0.1853 REMARK 3 4 3.1300 - 2.8400 0.99 2673 137 0.1776 0.2116 REMARK 3 5 2.8400 - 2.6400 0.99 2640 127 0.1797 0.2115 REMARK 3 6 2.6400 - 2.4800 1.00 2646 146 0.1697 0.1922 REMARK 3 7 2.4800 - 2.3600 1.00 2669 136 0.1638 0.1904 REMARK 3 8 2.3600 - 2.2600 0.99 2625 140 0.1654 0.2048 REMARK 3 9 2.2600 - 2.1700 0.99 2639 138 0.1558 0.1873 REMARK 3 10 2.1700 - 2.1000 0.99 2620 127 0.1800 0.2254 REMARK 3 11 2.1000 - 2.0300 0.99 2614 151 0.1762 0.2201 REMARK 3 12 2.0300 - 1.9700 0.97 2562 129 0.1853 0.2388 REMARK 3 13 1.9700 - 1.9200 0.99 2573 146 0.1916 0.2342 REMARK 3 14 1.9200 - 1.8700 0.99 2612 133 0.2171 0.2464 REMARK 3 15 1.8700 - 1.8300 0.97 2559 129 0.2657 0.3250 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) : 0.204 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.162 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.35 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.50 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 : 0.006 3249 REMARK 3 ANGLE : 0.772 4520 REMARK 3 CHIRALITY : 0.047 498 REMARK 3 PLANARITY : 0.006 506 REMARK 3 DIHEDRAL : 12.267 990 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 236:329 REMARK 3 ORIGIN FOR THE GROUP (A): -7.6769 25.4098 -26.3636 REMARK 3 T TENSOR REMARK 3 T11: 0.2275 T22: 0.2408 REMARK 3 T33: 0.2074 T12: -0.0397 REMARK 3 T13: 0.0721 T23: -0.0060 REMARK 3 L TENSOR REMARK 3 L11: 0.3197 L22: 1.1255 REMARK 3 L33: 0.9535 L12: 0.0828 REMARK 3 L13: -0.1489 L23: -0.2046 REMARK 3 S TENSOR REMARK 3 S11: 0.0699 S12: 0.0703 S13: 0.0515 REMARK 3 S21: -0.2807 S22: 0.0857 S23: -0.2734 REMARK 3 S31: -0.2006 S32: 0.1371 S33: 0.1501 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESID 330:386 REMARK 3 ORIGIN FOR THE GROUP (A): -14.0300 20.2888 0.6611 REMARK 3 T TENSOR REMARK 3 T11: 0.1199 T22: 0.1331 REMARK 3 T33: 0.1104 T12: 0.0148 REMARK 3 T13: 0.0015 T23: -0.0113 REMARK 3 L TENSOR REMARK 3 L11: 0.7318 L22: 0.6601 REMARK 3 L33: 0.5374 L12: 0.1631 REMARK 3 L13: 0.0455 L23: -0.1049 REMARK 3 S TENSOR REMARK 3 S11: -0.0624 S12: -0.1354 S13: 0.0474 REMARK 3 S21: 0.0459 S22: 0.1118 S23: 0.0000 REMARK 3 S31: -0.0042 S32: -0.1196 S33: 0.0163 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESID 387:495 REMARK 3 ORIGIN FOR THE GROUP (A): -12.3733 -5.1571 -7.4855 REMARK 3 T TENSOR REMARK 3 T11: 0.1408 T22: 0.1186 REMARK 3 T33: 0.1925 T12: -0.0153 REMARK 3 T13: -0.0140 T23: 0.0030 REMARK 3 L TENSOR REMARK 3 L11: 0.4770 L22: 0.8672 REMARK 3 L33: 1.8155 L12: -0.2385 REMARK 3 L13: 0.2203 L23: -0.1301 REMARK 3 S TENSOR REMARK 3 S11: 0.0428 S12: -0.0375 S13: -0.1612 REMARK 3 S21: 0.0453 S22: 0.0296 S23: 0.0869 REMARK 3 S31: 0.1580 S32: 0.0437 S33: 0.0166 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESID 496:575 REMARK 3 ORIGIN FOR THE GROUP (A): -19.3879 1.5303 -28.0149 REMARK 3 T TENSOR REMARK 3 T11: 0.2019 T22: 0.1707 REMARK 3 T33: 0.1539 T12: 0.0132 REMARK 3 T13: -0.0335 T23: -0.0208 REMARK 3 L TENSOR REMARK 3 L11: 0.5505 L22: 0.2101 REMARK 3 L33: 0.9739 L12: 0.0342 REMARK 3 L13: 0.1823 L23: 0.1287 REMARK 3 S TENSOR REMARK 3 S11: 0.0673 S12: 0.1080 S13: -0.0068 REMARK 3 S21: -0.1751 S22: -0.0183 S23: 0.0301 REMARK 3 S31: -0.0250 S32: 0.0359 S33: 0.0021 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN U OR CHAIN P REMARK 3 ORIGIN FOR THE GROUP (A): -24.6568 9.8261 -9.8091 REMARK 3 T TENSOR REMARK 3 T11: 0.1232 T22: 0.1685 REMARK 3 T33: 0.1776 T12: -0.0073 REMARK 3 T13: 0.0152 T23: -0.0232 REMARK 3 L TENSOR REMARK 3 L11: 0.1654 L22: 0.1700 REMARK 3 L33: 0.0553 L12: -0.3248 REMARK 3 L13: 0.0494 L23: 0.0484 REMARK 3 S TENSOR REMARK 3 S11: -0.0587 S12: 0.1507 S13: -0.1265 REMARK 3 S21: 0.0529 S22: 0.0674 S23: 0.1156 REMARK 3 S31: 0.1413 S32: 0.0030 S33: 0.0001 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN T OR CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): -23.8919 22.9904 -27.9157 REMARK 3 T TENSOR REMARK 3 T11: 0.2776 T22: 0.2327 REMARK 3 T33: 0.1701 T12: 0.0321 REMARK 3 T13: -0.0390 T23: 0.0415 REMARK 3 L TENSOR REMARK 3 L11: 0.0658 L22: 0.2128 REMARK 3 L33: 0.3744 L12: -0.1611 REMARK 3 L13: -0.2240 L23: 0.1818 REMARK 3 S TENSOR REMARK 3 S11: 0.1425 S12: 0.3647 S13: -0.1007 REMARK 3 S21: -0.1380 S22: -0.0469 S23: 0.0366 REMARK 3 S31: -0.2118 S32: -0.0124 S33: 0.0081 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 7M0A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1000255335. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-SEP-20 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) : 1.00 REMARK 200 MONOCHROMATOR : DOUBLE CYRSTAL 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 : 41774 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.830 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 (%) : 99.0 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07200 REMARK 200 FOR THE DATA SET : 18.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.70300 REMARK 200 FOR SHELL : 1.620 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: 2PFO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 80MM NA CACODYLATE PH 6.5, 0.16M REMARK 280 CALCIUM ACETATE, 14.4% (W/V) PEG 8000, 20% (V/V) GLYCEROL, VAPOR REMARK 280 DIFFUSION, 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 27.88400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.36300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.78650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.36300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.88400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.78650 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -127.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, P, D, U REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 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 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 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 LEU A 236 CG CD1 CD2 REMARK 470 ASP A 237 CG OD1 OD2 REMARK 470 LYS A 238 CG CD CE NZ REMARK 470 GLN A 243 OE1 NE2 REMARK 470 LYS A 259 NZ REMARK 470 LYS A 273 CD CE NZ REMARK 470 GLN A 297 CG CD OE1 NE2 REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 ARG A 308 CD NE CZ NH1 NH2 REMARK 470 GLU A 311 OE1 OE2 REMARK 470 ILE A 314 CG1 CG2 CD1 REMARK 470 HIS A 321 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 323 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 385 CD OE1 OE2 REMARK 470 GLU A 390 CD OE1 OE2 REMARK 470 LYS A 401 CD CE NZ REMARK 470 LEU A 411 CD1 CD2 REMARK 470 ARG A 438 CD NE CZ NH1 NH2 REMARK 470 ARG A 441 CD NE CZ NH1 NH2 REMARK 470 ARG A 446 CZ NH1 NH2 REMARK 470 GLN A 453 CG CD OE1 NE2 REMARK 470 GLU A 466 OE1 OE2 REMARK 470 GLN A 469 OE1 NE2 REMARK 470 LYS A 523 NZ REMARK 470 VAL A 537 CG1 CG2 REMARK 470 LYS A 557 NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OP2 DG T 2 O HOH T 101 2.17 REMARK 500 OP2 DA T 5 O HOH T 102 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 -0.123 REMARK 500 DC D 3 O3' DC D 3 C3' -0.037 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 250 43.59 -108.77 REMARK 500 ASN A 251 108.94 -54.48 REMARK 500 CYS A 415 -138.34 -111.66 REMARK 500 ARG A 438 -32.85 -136.94 REMARK 500 SER A 463 97.92 -161.89 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 P 129 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH P 130 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 GOL A 712 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 707 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 300 O REMARK 620 2 ILE A 302 O 99.4 REMARK 620 3 ILE A 305 O 89.0 85.2 REMARK 620 4 HOH A1018 O 87.5 90.6 174.0 REMARK 620 5 DC D 3 OP1 171.0 89.5 91.6 92.7 REMARK 620 6 HOH D 114 O 91.5 167.2 101.7 83.3 79.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 706 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 339 O REMARK 620 2 ILE A 341 O 103.8 REMARK 620 3 ALA A 344 O 88.9 86.2 REMARK 620 4 HOH A1044 O 87.8 97.4 175.6 REMARK 620 5 DG P 5 OP1 159.3 96.8 93.2 88.8 REMARK 620 6 HOH P 103 O 71.6 170.5 85.4 90.8 88.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 703 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD2 REMARK 620 2 ASP A 429 OD1 113.7 REMARK 620 3 ASP A 490 OD2 93.1 109.2 REMARK 620 4 HOH A 822 O 65.6 167.0 83.7 REMARK 620 5 DC P 6 O3' 132.2 111.2 87.1 66.9 REMARK 620 6 DT P 7 OP1 99.6 94.7 145.6 73.0 60.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 704 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD1 REMARK 620 2 ASP A 427 OD2 45.2 REMARK 620 3 ASP A 429 OD1 82.0 112.3 REMARK 620 4 ASP A 490 OD2 135.0 92.4 108.5 REMARK 620 5 TTP A 701 O1A 65.2 96.7 93.1 151.3 REMARK 620 6 HOH A 822 O 89.0 65.8 167.5 84.0 75.2 REMARK 620 7 DC P 6 O3' 143.1 147.4 100.2 79.6 78.0 81.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 705 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD1 REMARK 620 2 ASP A 429 OD2 98.7 REMARK 620 3 TTP A 701 O1A 96.3 92.5 REMARK 620 4 TTP A 701 O2B 165.9 89.6 94.6 REMARK 620 5 TTP A 701 O1G 83.8 172.7 94.1 86.7 REMARK 620 6 PPV A 702 O11 86.0 173.1 91.9 84.8 3.0 REMARK 620 7 PPV A 702 O12 163.6 92.0 95.5 2.6 84.1 82.3 REMARK 620 8 HOH A 887 O 83.1 84.2 176.5 86.5 89.3 91.5 85.8 REMARK 620 9 DT P 7 OP1 93.0 89.0 5.3 98.6 97.8 95.7 99.6 171.5 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 708 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TTP A 701 O2G REMARK 620 2 PPV A 702 O21 2.0 REMARK 620 3 HOH A 849 O 66.2 67.1 REMARK 620 4 HOH A 865 O 78.3 80.1 80.9 REMARK 620 N 1 2 3 DBREF 7M0A A 234 575 UNP Q9UGP5 DPOLL_HUMAN 234 575 DBREF 7M0A T 1 5 PDB 7M0A 7M0A 1 5 DBREF 7M0A P 1 7 PDB 7M0A 7M0A 1 7 DBREF 7M0A D 1 4 PDB 7M0A 7M0A 1 4 DBREF 7M0A U 1 6 PDB 7M0A 7M0A 1 6 SEQADV 7M0A GLY A 230 UNP Q9UGP5 EXPRESSION TAG SEQADV 7M0A SER A 231 UNP Q9UGP5 EXPRESSION TAG SEQADV 7M0A ALA A 232 UNP Q9UGP5 EXPRESSION TAG SEQADV 7M0A ALA A 233 UNP Q9UGP5 EXPRESSION TAG SEQRES 1 A 346 GLY SER ALA ALA ALA VAL LEU ASP LYS TRP VAL CYS ALA SEQRES 2 A 346 GLN PRO SER SER GLN LYS ALA THR ASN HIS ASN LEU HIS SEQRES 3 A 346 ILE THR GLU LYS LEU GLU VAL LEU ALA LYS ALA TYR SER SEQRES 4 A 346 VAL GLN GLY ASP LYS TRP ARG ALA LEU GLY TYR ALA LYS SEQRES 5 A 346 ALA ILE ASN ALA LEU LYS SER PHE HIS LYS PRO VAL THR SEQRES 6 A 346 SER TYR GLN GLU ALA CYS SER ILE PRO GLY ILE GLY LYS SEQRES 7 A 346 ARG MET ALA GLU LYS ILE ILE GLU ILE LEU GLU SER GLY SEQRES 8 A 346 HIS LEU ARG LYS LEU ASP HIS ILE SER GLU SER VAL PRO SEQRES 9 A 346 VAL LEU GLU LEU PHE SER ASN ILE TRP GLY ALA GLY THR SEQRES 10 A 346 LYS THR ALA GLN MET TRP TYR GLN GLN GLY PHE ARG SER SEQRES 11 A 346 LEU GLU ASP ILE ARG SER GLN ALA SER LEU THR THR GLN SEQRES 12 A 346 GLN ALA ILE GLY LEU LYS HIS TYR SER ASP PHE LEU GLU SEQRES 13 A 346 ARG MET PRO ARG GLU GLU ALA THR GLU ILE GLU GLN THR SEQRES 14 A 346 VAL GLN LYS ALA ALA GLN ALA PHE ASN SER GLY LEU LEU SEQRES 15 A 346 CYS VAL ALA CYS GLY SER TYR ARG ARG GLY LYS ALA THR SEQRES 16 A 346 CYS GLY ASP VAL ASP VAL LEU ILE THR HIS PRO ASP GLY SEQRES 17 A 346 ARG SER HIS ARG GLY ILE PHE SER ARG LEU LEU ASP SER SEQRES 18 A 346 LEU ARG GLN GLU GLY PHE LEU THR ASP ASP LEU VAL SER SEQRES 19 A 346 GLN GLU GLU ASN GLY GLN GLN GLN LYS TYR LEU GLY VAL SEQRES 20 A 346 CYS ARG LEU PRO GLY PRO GLY ARG ARG HIS ARG ARG LEU SEQRES 21 A 346 ASP ILE ILE VAL VAL PRO TYR SER GLU PHE ALA CYS ALA SEQRES 22 A 346 LEU LEU TYR PHE THR GLY SER ALA HIS PHE ASN ARG SER SEQRES 23 A 346 MET ARG ALA LEU ALA LYS THR LYS GLY MET SER LEU SER SEQRES 24 A 346 GLU HIS ALA LEU SER THR ALA VAL VAL ARG ASN THR HIS SEQRES 25 A 346 GLY CYS LYS VAL GLY PRO GLY ARG VAL LEU PRO THR PRO SEQRES 26 A 346 THR GLU LYS ASP VAL PHE ARG LEU LEU GLY LEU PRO TYR SEQRES 27 A 346 ARG GLU PRO ALA GLU ARG ASP TRP SEQRES 1 T 5 DC DG DG DC DA SEQRES 1 P 7 DC DA DG DT DG DC DT SEQRES 1 D 4 DG DC DC DG SEQRES 1 U 6 DG DC DA DC DT DG HET TTP A 701 29 HET PPV A 702 9 HET MG A 703 1 HET CA A 704 1 HET MG A 705 1 HET NA A 706 1 HET NA A 707 1 HET NA A 708 1 HET CL A 709 1 HET CL A 710 1 HET CL A 711 1 HET GOL A 712 5 HETNAM TTP THYMIDINE-5'-TRIPHOSPHATE HETNAM PPV PYROPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 6 TTP C10 H17 N2 O14 P3 FORMUL 7 PPV H4 O7 P2 FORMUL 8 MG 2(MG 2+) FORMUL 9 CA CA 2+ FORMUL 11 NA 3(NA 1+) FORMUL 14 CL 3(CL 1-) FORMUL 17 GOL C3 H8 O3 FORMUL 18 HOH *400(H2 O) HELIX 1 AA1 TRP A 239 GLN A 243 5 5 HELIX 2 AA2 PRO A 244 ASN A 251 5 8 HELIX 3 AA3 ASN A 253 GLN A 270 1 18 HELIX 4 AA4 ASP A 272 PHE A 289 1 18 HELIX 5 AA5 SER A 295 ILE A 302 1 8 HELIX 6 AA6 GLY A 306 GLY A 320 1 15 HELIX 7 AA7 LEU A 322 HIS A 327 5 6 HELIX 8 AA8 SER A 331 ASN A 340 1 10 HELIX 9 AA9 GLY A 345 GLN A 355 1 11 HELIX 10 AB1 SER A 359 ALA A 367 1 9 HELIX 11 AB2 THR A 370 HIS A 379 1 10 HELIX 12 AB3 HIS A 379 GLU A 385 1 7 HELIX 13 AB4 ARG A 389 ALA A 405 1 17 HELIX 14 AB5 CYS A 415 ARG A 420 1 6 HELIX 15 AB6 GLY A 442 GLU A 454 1 13 HELIX 16 AB7 PRO A 495 SER A 497 5 3 HELIX 17 AB8 GLU A 498 GLY A 508 1 11 HELIX 18 AB9 SER A 509 LYS A 523 1 15 HELIX 19 AC1 THR A 555 LEU A 563 1 9 HELIX 20 AC2 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 ASP A 427 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 VAL A 462 -1 N VAL A 462 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 CYS A 300 NA NA A 707 1555 1555 2.41 LINK O ILE A 302 NA NA A 707 1555 1555 2.51 LINK O ILE A 305 NA NA A 707 1555 1555 2.39 LINK O SER A 339 NA NA A 706 1555 1555 2.28 LINK O ILE A 341 NA NA A 706 1555 1555 2.39 LINK O ALA A 344 NA NA A 706 1555 1555 2.31 LINK OD2 ASP A 427 MG A MG A 703 1555 1555 2.00 LINK OD1 ASP A 427 CA B CA A 704 1555 1555 3.09 LINK OD2 ASP A 427 CA B CA A 704 1555 1555 2.02 LINK OD1 ASP A 427 MG MG A 705 1555 1555 2.07 LINK OD1 ASP A 429 MG A MG A 703 1555 1555 1.99 LINK OD1 ASP A 429 CA B CA A 704 1555 1555 2.00 LINK OD2 ASP A 429 MG MG A 705 1555 1555 2.07 LINK OD2 ASP A 490 MG A MG A 703 1555 1555 2.12 LINK OD2 ASP A 490 CA B CA A 704 1555 1555 2.13 LINK O1ABTTP A 701 CA B CA A 704 1555 1555 2.40 LINK O1ABTTP A 701 MG MG A 705 1555 1555 1.97 LINK O2BBTTP A 701 MG MG A 705 1555 1555 1.97 LINK O1GBTTP A 701 MG MG A 705 1555 1555 2.12 LINK O2GBTTP A 701 NA NA A 708 1555 1555 2.57 LINK O11APPV A 702 MG MG A 705 1555 1555 2.17 LINK O12APPV A 702 MG MG A 705 1555 1555 2.04 LINK O21APPV A 702 NA NA A 708 1555 1555 2.63 LINK MG A MG A 703 O HOH A 822 1555 1555 2.58 LINK MG A MG A 703 O3'A DC P 6 1555 1555 2.66 LINK MG A MG A 703 OP1A DT P 7 1555 1555 2.19 LINK CA B CA A 704 O HOH A 822 1555 1555 2.56 LINK CA B CA A 704 O3'B DC P 6 1555 1555 2.59 LINK MG MG A 705 O HOH A 887 1555 1555 2.21 LINK MG MG A 705 OP1A DT P 7 1555 1555 2.20 LINK NA NA A 706 O HOH A1044 1555 1555 2.46 LINK NA NA A 706 OP1 DG P 5 1555 1555 2.34 LINK NA NA A 706 O HOH P 103 1555 1555 2.78 LINK NA NA A 707 O HOH A1018 1555 1555 2.45 LINK NA NA A 707 OP1 DC D 3 1555 1555 2.77 LINK NA NA A 707 O HOH D 114 1555 1555 2.62 LINK NA NA A 708 O HOH A 849 1555 1555 2.85 LINK NA NA A 708 O HOH A 865 1555 1555 2.62 CISPEP 1 GLY A 508 SER A 509 0 2.12 CRYST1 55.768 59.573 140.726 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 0.017931 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016786 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007106 0.00000