PDB Short entry for 5WO0 HEADER DNA LIGASE/DNA, TRANSFERASE 01-AUG-17 5WO0 TITLE DNA POLYMERASE BETA SUBSTRATE COMPLEX WITH INCOMING 5-FODUTP CAVEAT 5WO0 LIGANDS CL A 402-404 HAVE ZERO OCCUPANCY COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*CP*CP*GP*AP*CP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)- COMPND 3 3'); COMPND 4 CHAIN: T; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'); COMPND 8 CHAIN: P; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: DNA (5'-D(P*GP*TP*CP*GP*G)-3'); COMPND 12 CHAIN: D; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: DNA POLYMERASE BETA; COMPND 16 CHAIN: A; COMPND 17 EC: 2.7.7.7,4.2.99.-; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 8 ORGANISM_TAXID: 32630; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630; SOURCE 13 MOL_ID: 4; SOURCE 14 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 15 ORGANISM_COMMON: HUMAN; SOURCE 16 ORGANISM_TAXID: 9606; SOURCE 17 GENE: POLB; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 19 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA LIGASE/DNA, TRANSFERASE, DNA LIGASE-DNA, TRANSFERASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.A.SCHAICH,M.R.SMITH,A.S.CLOUD,S.M.HOLLORAN,B.D.FREUDENTHAL REVDAT 4 04-OCT-23 5WO0 1 REMARK REVDAT 3 23-MAR-22 5WO0 1 REMARK LINK REVDAT 2 29-NOV-17 5WO0 1 JRNL REVDAT 1 13-SEP-17 5WO0 0 JRNL AUTH M.A.SCHAICH,M.R.SMITH,A.S.CLOUD,S.M.HOLLORAN,B.D.FREUDENTHAL JRNL TITL STRUCTURES OF A DNA POLYMERASE INSERTING THERAPEUTIC JRNL TITL 2 NUCLEOTIDE ANALOGUES. JRNL REF CHEM. RES. TOXICOL. V. 30 1993 2017 JRNL REFN ISSN 1520-5010 JRNL PMID 28862449 JRNL DOI 10.1021/ACS.CHEMRESTOX.7B00173 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.79 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 55295 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.620 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 31.7966 - 4.7903 1.00 3893 152 0.1472 0.1584 REMARK 3 2 4.7903 - 3.8042 1.00 3916 147 0.1387 0.1411 REMARK 3 3 3.8042 - 3.3239 1.00 3896 148 0.1619 0.1823 REMARK 3 4 3.3239 - 3.0203 1.00 3895 144 0.1889 0.2220 REMARK 3 5 3.0203 - 2.8039 1.00 3887 147 0.2143 0.2676 REMARK 3 6 2.8039 - 2.6387 1.00 3873 146 0.2156 0.2958 REMARK 3 7 2.6387 - 2.5066 1.00 3904 144 0.2132 0.2575 REMARK 3 8 2.5066 - 2.3975 1.00 3879 146 0.2047 0.2141 REMARK 3 9 2.3975 - 2.3053 0.99 3831 141 0.2060 0.2559 REMARK 3 10 2.3053 - 2.2257 0.98 3879 147 0.2058 0.2570 REMARK 3 11 2.2257 - 2.1561 0.98 3817 140 0.2162 0.2702 REMARK 3 12 2.1561 - 2.0945 0.98 3776 142 0.2174 0.2621 REMARK 3 13 2.0945 - 2.0394 0.97 3800 139 0.2165 0.2630 REMARK 3 14 2.0394 - 1.9896 0.97 3781 144 0.2142 0.2120 REMARK 3 15 1.9896 - 1.9444 0.96 3727 143 0.2143 0.2542 REMARK 3 16 1.9444 - 1.9030 0.96 3753 143 0.2378 0.2448 REMARK 3 17 1.9030 - 1.8650 0.96 3751 141 0.2705 0.2980 REMARK 3 18 1.8650 - 1.8298 0.95 3736 139 0.2768 0.2487 REMARK 3 19 1.8298 - 1.7971 0.95 3690 142 0.2908 0.3942 REMARK 3 20 1.7971 - 1.7667 0.95 3710 131 0.3012 0.4546 REMARK 3 21 1.7667 - 1.7382 0.95 3689 140 0.3223 0.3667 REMARK 3 22 1.7382 - 1.7114 0.94 3691 143 0.2850 0.3682 REMARK 3 23 1.7114 - 1.6863 0.93 3594 130 0.2860 0.2581 REMARK 3 24 1.6863 - 1.6625 0.93 3639 138 0.2812 0.3166 REMARK 3 25 1.6625 - 1.6400 0.92 3539 126 0.2817 0.3462 REMARK 3 26 1.6400 - 1.6187 0.91 3574 140 0.3028 0.2965 REMARK 3 27 1.6187 - 1.5985 0.83 3253 125 0.3045 0.3413 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 25.250 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.68 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 3428 REMARK 3 ANGLE : 0.880 4761 REMARK 3 CHIRALITY : 0.049 520 REMARK 3 PLANARITY : 0.005 506 REMARK 3 DIHEDRAL : 17.772 1966 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5WO0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1000228542. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-MAY-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 R 200K-A REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55295 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 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 : 4.200 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.74000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: PHENIX REMARK 200 STARTING MODEL: 2FMS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM IMIDAZOLE, PH 7.5, 16% PEG3350 REMARK 280 AND 350 MM SODIUM ACETATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 39.81850 REMARK 290 SMTRY3 2 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: 20000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -110.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: T, P, D, 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 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 MET A 1 REMARK 465 SER A 2 REMARK 465 LYS A 3 REMARK 465 ARG A 4 REMARK 465 LYS A 5 REMARK 465 ALA A 6 REMARK 465 PRO A 7 REMARK 465 GLN A 8 REMARK 465 GLU A 9 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 GLN A 90 CG CD OE1 NE2 REMARK 470 LYS A 127 CG CD CE NZ REMARK 470 GLU A 153 CG CD OE1 OE2 REMARK 470 LYS A 248 CG CD CE NZ REMARK 470 GLU A 288 CD OE1 OE2 REMARK 470 VAL A 303 CG1 CG2 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 O HOH A 557 O HOH A 738 2.13 REMARK 500 OP2 DG P 7 O HOH P 501 2.16 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 178 -140.10 -113.38 REMARK 500 ASN A 294 -166.04 -123.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 CL A 402 REMARK 615 CL A 403 REMARK 615 CL A 404 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 P 401 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG P 9 OP1 REMARK 620 2 HOH P 503 O 88.8 REMARK 620 3 THR A 101 O 166.6 81.6 REMARK 620 4 VAL A 103 O 95.3 175.2 94.8 REMARK 620 5 ILE A 106 O 94.9 88.5 94.1 88.6 REMARK 620 6 HOH A 725 O 91.2 94.4 80.4 88.0 173.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA P 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC P 10 O3' REMARK 620 2 ASP A 190 OD1 157.6 REMARK 620 3 ASP A 190 OD2 148.5 52.0 REMARK 620 4 ASP A 192 OD1 82.6 84.9 125.0 REMARK 620 5 ASP A 256 OD2 74.5 125.2 87.3 94.5 REMARK 620 6 B7A A 405 O14 91.0 68.4 107.5 79.4 164.9 REMARK 620 7 HOH A 564 O 83.0 100.7 76.0 153.8 102.6 79.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA D 101 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC D 3 OP1 REMARK 620 2 HOH D 209 O 79.8 REMARK 620 3 LYS A 60 O 168.4 89.8 REMARK 620 4 LEU A 62 O 93.7 173.1 96.8 REMARK 620 5 VAL A 65 O 84.8 89.2 89.8 92.6 REMARK 620 6 HOH A 735 O 86.3 84.8 98.1 92.5 170.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 406 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 190 O REMARK 620 2 ASP A 190 OD1 68.9 REMARK 620 3 ASP A 192 OD2 92.9 94.8 REMARK 620 4 B7A A 405 O14 145.6 76.8 87.5 REMARK 620 5 B7A A 405 O19 134.0 156.7 89.2 80.4 REMARK 620 6 B7A A 405 O24 97.0 93.2 169.1 87.0 80.5 REMARK 620 7 HOH A 558 O 60.1 128.9 85.0 153.7 74.3 95.8 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA P 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA P 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA D 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B7A A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 406 DBREF 5WO0 T 1 16 PDB 5WO0 5WO0 1 16 DBREF 5WO0 P 1 10 PDB 5WO0 5WO0 1 10 DBREF 5WO0 D 1 5 PDB 5WO0 5WO0 1 5 DBREF 5WO0 A 1 335 UNP P06746 DPOLB_HUMAN 1 335 SEQRES 1 T 16 DC DC DG DA DC DA DG DC DG DC DA DT DC SEQRES 2 T 16 DA DG DC SEQRES 1 P 10 DG DC DT DG DA DT DG DC DG DC SEQRES 1 D 5 DG DT DC DG DG SEQRES 1 A 335 MET SER LYS ARG LYS ALA PRO GLN GLU THR LEU ASN GLY SEQRES 2 A 335 GLY ILE THR ASP MET LEU THR GLU LEU ALA ASN PHE GLU SEQRES 3 A 335 LYS ASN VAL SER GLN ALA ILE HIS LYS TYR ASN ALA TYR SEQRES 4 A 335 ARG LYS ALA ALA SER VAL ILE ALA LYS TYR PRO HIS LYS SEQRES 5 A 335 ILE LYS SER GLY ALA GLU ALA LYS LYS LEU PRO GLY VAL SEQRES 6 A 335 GLY THR LYS ILE ALA GLU LYS ILE ASP GLU PHE LEU ALA SEQRES 7 A 335 THR GLY LYS LEU ARG LYS LEU GLU LYS ILE ARG GLN ASP SEQRES 8 A 335 ASP THR SER SER SER ILE ASN PHE LEU THR ARG VAL SER SEQRES 9 A 335 GLY ILE GLY PRO SER ALA ALA ARG LYS PHE VAL ASP GLU SEQRES 10 A 335 GLY ILE LYS THR LEU GLU ASP LEU ARG LYS ASN GLU ASP SEQRES 11 A 335 LYS LEU ASN HIS HIS GLN ARG ILE GLY LEU LYS TYR PHE SEQRES 12 A 335 GLY ASP PHE GLU LYS ARG ILE PRO ARG GLU GLU MET LEU SEQRES 13 A 335 GLN MET GLN ASP ILE VAL LEU ASN GLU VAL LYS LYS VAL SEQRES 14 A 335 ASP SER GLU TYR ILE ALA THR VAL CYS GLY SER PHE ARG SEQRES 15 A 335 ARG GLY ALA GLU SER SER GLY ASP MET ASP VAL LEU LEU SEQRES 16 A 335 THR HIS PRO SER PHE THR SER GLU SER THR LYS GLN PRO SEQRES 17 A 335 LYS LEU LEU HIS GLN VAL VAL GLU GLN LEU GLN LYS VAL SEQRES 18 A 335 HIS PHE ILE THR ASP THR LEU SER LYS GLY GLU THR LYS SEQRES 19 A 335 PHE MET GLY VAL CYS GLN LEU PRO SER LYS ASN ASP GLU SEQRES 20 A 335 LYS GLU TYR PRO HIS ARG ARG ILE ASP ILE ARG LEU ILE SEQRES 21 A 335 PRO LYS ASP GLN TYR TYR CYS GLY VAL LEU TYR PHE THR SEQRES 22 A 335 GLY SER ASP ILE PHE ASN LYS ASN MET ARG ALA HIS ALA SEQRES 23 A 335 LEU GLU LYS GLY PHE THR ILE ASN GLU TYR THR ILE ARG SEQRES 24 A 335 PRO LEU GLY VAL THR GLY VAL ALA GLY GLU PRO LEU PRO SEQRES 25 A 335 VAL ASP SER GLU LYS ASP ILE PHE ASP TYR ILE GLN TRP SEQRES 26 A 335 LYS TYR ARG GLU PRO LYS ASP ARG SER GLU HET NA P 401 1 HET CA P 402 1 HET NA D 101 1 HET CL A 402 1 HET CL A 403 1 HET CL A 404 1 HET B7A A 405 30 HET CA A 406 1 HETNAM NA SODIUM ION HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM B7A 2'-DEOXY-5-FORMYLURIDINE 5'-(TETRAHYDROGEN HETNAM 2 B7A TRIPHOSPHATE) HETSYN B7A 5-FODUTP FORMUL 5 NA 2(NA 1+) FORMUL 6 CA 2(CA 2+) FORMUL 8 CL 3(CL 1-) FORMUL 11 B7A C10 H15 N2 O15 P3 FORMUL 13 HOH *354(H2 O) HELIX 1 AA1 ASN A 12 VAL A 29 1 18 HELIX 2 AA2 ALA A 32 TYR A 49 1 18 HELIX 3 AA3 SER A 55 LYS A 61 1 7 HELIX 4 AA4 GLY A 66 GLY A 80 1 15 HELIX 5 AA5 LEU A 82 ASP A 91 1 10 HELIX 6 AA6 ASP A 91 THR A 101 1 11 HELIX 7 AA7 GLY A 107 GLU A 117 1 11 HELIX 8 AA8 THR A 121 ASN A 128 1 8 HELIX 9 AA9 GLU A 129 LEU A 132 5 4 HELIX 10 AB1 ASN A 133 TYR A 142 1 10 HELIX 11 AB2 TYR A 142 LYS A 148 1 7 HELIX 12 AB3 ARG A 152 ASP A 170 1 19 HELIX 13 AB4 CYS A 178 ARG A 183 1 6 HELIX 14 AB5 LYS A 209 VAL A 221 1 13 HELIX 15 AB6 PRO A 261 ASP A 263 5 3 HELIX 16 AB7 GLN A 264 GLY A 274 1 11 HELIX 17 AB8 SER A 275 LYS A 289 1 15 HELIX 18 AB9 SER A 315 ILE A 323 1 9 HELIX 19 AC1 GLU A 329 ARG A 333 5 5 SHEET 1 AA1 2 ILE A 150 PRO A 151 0 SHEET 2 AA1 2 SER A 187 SER A 188 -1 O SER A 188 N ILE A 150 SHEET 1 AA2 5 ILE A 174 VAL A 177 0 SHEET 2 AA2 5 MET A 191 THR A 196 -1 O LEU A 194 N THR A 176 SHEET 3 AA2 5 ARG A 253 LEU A 259 1 O ARG A 258 N LEU A 195 SHEET 4 AA2 5 LYS A 234 CYS A 239 -1 N GLY A 237 O ILE A 255 SHEET 5 AA2 5 ILE A 224 LYS A 230 -1 N LEU A 228 O MET A 236 SHEET 1 AA3 2 PHE A 291 ILE A 293 0 SHEET 2 AA3 2 ILE A 298 PRO A 300 -1 O ARG A 299 N THR A 292 LINK OP1 DG P 9 NA NA P 401 1555 1555 2.39 LINK O3' DC P 10 CA CA P 402 1555 1555 2.44 LINK NA NA P 401 O HOH P 503 1555 1555 2.42 LINK NA NA P 401 O THR A 101 1555 1555 2.36 LINK NA NA P 401 O VAL A 103 1555 1555 2.46 LINK NA NA P 401 O ILE A 106 1555 1555 2.41 LINK NA NA P 401 O HOH A 725 1555 1555 2.49 LINK CA CA P 402 OD1 ASP A 190 1555 1555 2.56 LINK CA CA P 402 OD2 ASP A 190 1555 1555 2.36 LINK CA CA P 402 OD1 ASP A 192 1555 1555 2.31 LINK CA CA P 402 OD2 ASP A 256 1555 1555 2.35 LINK CA CA P 402 O14 B7A A 405 1555 1555 2.51 LINK CA CA P 402 O HOH A 564 1555 1555 2.47 LINK OP1 DC D 3 NA NA D 101 1555 1555 2.67 LINK NA NA D 101 O HOH D 209 1555 1555 2.52 LINK NA NA D 101 O LYS A 60 1555 1555 2.39 LINK NA NA D 101 O LEU A 62 1555 1555 2.37 LINK NA NA D 101 O VAL A 65 1555 1555 2.40 LINK NA NA D 101 O HOH A 735 1555 1555 2.36 LINK O ASP A 190 CA CA A 406 1555 1555 2.79 LINK OD1 ASP A 190 CA CA A 406 1555 1555 2.27 LINK OD2 ASP A 192 CA CA A 406 1555 1555 2.24 LINK O14 B7A A 405 CA CA A 406 1555 1555 2.33 LINK O19 B7A A 405 CA CA A 406 1555 1555 2.35 LINK O24 B7A A 405 CA CA A 406 1555 1555 2.33 LINK CA CA A 406 O HOH A 558 1555 1555 2.54 CISPEP 1 GLY A 274 SER A 275 0 2.49 SITE 1 AC1 6 THR A 101 VAL A 103 ILE A 106 HOH A 725 SITE 2 AC1 6 DG P 9 HOH P 503 SITE 1 AC2 6 ASP A 190 ASP A 192 ASP A 256 B7A A 405 SITE 2 AC2 6 HOH A 564 DC P 10 SITE 1 AC3 6 LYS A 60 LEU A 62 VAL A 65 HOH A 735 SITE 2 AC3 6 DC D 3 HOH D 209 SITE 1 AC4 22 GLY A 179 SER A 180 ARG A 183 SER A 188 SITE 2 AC4 22 GLY A 189 ASP A 190 ASP A 192 TYR A 271 SITE 3 AC4 22 PHE A 272 THR A 273 GLY A 274 ASP A 276 SITE 4 AC4 22 ASN A 279 CA A 406 HOH A 558 HOH A 564 SITE 5 AC4 22 HOH A 664 HOH A 705 HOH A 721 DC P 10 SITE 6 AC4 22 CA P 402 DA T 6 SITE 1 AC5 4 ASP A 190 ASP A 192 B7A A 405 HOH A 558 CRYST1 50.728 79.637 55.289 90.00 107.28 90.00 P 1 21 1 2 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 0.019713 0.000000 0.006131 0.00000 SCALE2 0.000000 0.012557 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018941 0.00000