1XSN - Header Asymmetric Unit

HEADER TRANSFERASE/DNA 19-OCT-04 1XSN

TITLE CRYSTAL STRUCTURE OF HUMAN DNA POLYMERASE LAMBDA IN COMPLEX TITLE 2 WITH A ONE NUCLEOTIDE DNA GAP AND DDTTP

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*GP*GP*CP*AP*AP*TP*AP*CP*TP*G)-3'; COMPND 3 CHAIN: T; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(*CP*AP*GP*TP*AP*(2DT))-3'; COMPND 7 CHAIN: P; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: 5'-D(P*GP*CP*CP*G)-3'; COMPND 11 CHAIN: D; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: DNA POLYMERASE LAMBDA; COMPND 15 CHAIN: A; COMPND 16 FRAGMENT: 39 KDA CATALYTIC C-TERMINAL DOMAIN; COMPND 17 SYNONYM: POL LAMBDA, DNA POLYMERASE BETA-2, POL BETA2; COMPND 18 EC: 2.7.7.7; COMPND 19 ENGINEERED: YES; COMPND 20 MUTATION: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: TEMPLATE DNA; SOURCE 4 MOL_ID: 2; SOURCE 5 SYNTHETIC: YES; SOURCE 6 OTHER_DETAILS: PRIMER DNA; SOURCE 7 MOL_ID: 3; SOURCE 8 SYNTHETIC: YES; SOURCE 9 OTHER_DETAILS: DOWNSTREAM PRIMER DNA; SOURCE 10 MOL_ID: 4; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: POLL; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)RIL; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PET22-B

KEYWDS DNA POLYMERASE LAMBDA, PROTEIN-DNA COMPLEX, HELIX-HAIRPIN- KEYWDS 2 HELIX, TRANSFERASE/DNA COMPLEX

EXPDTA X-RAY DIFFRACTION

AUTHOR M.GARCIA-DIAZ,K.BEBENEK,J.M.KRAHN,T.A.KUNKEL,L.C.PEDERSEN

REVDAT 2 24-FEB-09 1XSN 1 VERSN REVDAT 1 18-JAN-05 1XSN 0

JRNL AUTH M.GARCIA-DIAZ,K.BEBENEK,J.M.KRAHN,T.A.KUNKEL, JRNL AUTH 2 L.C.PEDERSEN JRNL TITL A CLOSED CONFORMATION FOR THE POL LAMBDA CATALYTIC JRNL TITL 2 CYCLE. JRNL REF NAT.STRUCT.MOL.BIOL. V. 12 97 2005 JRNL REFN ISSN 1545-9993 JRNL PMID 15608652 JRNL DOI 10.1038/NSMB876

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.GARCIA-DIAZ,K.BEBENEK,J.M.KRAHN,L.BLANCO, REMARK 1 AUTH 2 T.A.KUNKEL,L.C.PEDERSEN REMARK 1 TITL A STRUCTURAL SOLUTION FOR THE DNA REMARK 1 TITL 2 POLYMERASE-LAMBDA DEPENDENT REPAIR OF DNA GAPS REMARK 1 TITL 3 WITH MINIMAL HOMOLOGY REMARK 1 REF MOL.CELL V. 13 561 2004 REMARK 1 REFN ISSN 1097-2765 REMARK 1 REFERENCE 2 REMARK 1 AUTH M GARCIA-DIAZ,K.BEBENEK,R.SABARIEGOS,O.DOMINGUEZ, REMARK 1 AUTH 2 J.RODRIGUEZ,T.KIRCHHOFF,E.GARCIA-PALOMERO, REMARK 1 AUTH 3 A.J.PICHER,R.JUAREZ,J.F.RUIZ,T.A.KUNKEL,L.BLANCO REMARK 1 TITL DNA POLYMERASE LAMBDA, A NOVEL DNA REPAIR ENZYME REMARK 1 TITL 2 IN HUMAN CELLS REMARK 1 REF J.BIOL.CHEM. V. 277 13184 2002 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 3 REMARK 1 AUTH K.BEBENEK,K.GARCIA-DIAZ,L.BLANCO,T.A.KUNKEL REMARK 1 TITL THE FRAMESHIFT INFIDELITY OF HUMAN DNA POLYMERASE REMARK 1 TITL 2 LAMBDA. IMPLICATIONS FOR FUNCTION. REMARK 1 REF J.BIOL.CHEM. V. 278 34685 2003 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 4 REMARK 1 AUTH M.GARCIA-DIAZ,K.BEBENEK,T.A.KUNKEL,L.BLANCO REMARK 1 TITL IDENTIFICATION OF AN INTRINSIC REMARK 1 TITL 2 5'-DEOXYRIBOSE-5-PHOSPHATE LYASE ACTIVITY IN HUMAN REMARK 1 TITL 3 DNA POLYMERASE LAMBDA: A POSSIBLE ROLE IN BASE REMARK 1 TITL 4 EXCISION REPAIR REMARK 1 REF J.BIOL.CHEM. V. 276 34659 2001 REMARK 1 REFN ISSN 0021-9258

REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 710728.220 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 90.3 REMARK 3 NUMBER OF REFLECTIONS : 33027 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1632 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.07 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4709 REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE : 0.2910 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 253 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.018 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2506 REMARK 3 NUCLEIC ACID ATOMS : 425 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 327 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.40000 REMARK 3 B22 (A**2) : 4.98000 REMARK 3 B33 (A**2) : 0.43000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM SIGMAA (A) : 0.20 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.19 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.20 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.86 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.370 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.250 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.820 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.040 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.38 REMARK 3 BSOL : 70.92 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : TER5APS.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : TER5APS.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1XSN COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-NOV-04. REMARK 100 THE RCSB ID CODE IS RCSB030721.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 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) : 0.96318 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34547 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CITRATE, 2-PROPANOL, SODIUM REMARK 280 CHLORIDE, CACODYLATE, PH 5.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 28.02150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.91500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.27550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.91500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.02150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.27550 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 300 REMARK: THE PROTEIN IS A MONOMER THUS THE ASYMMETRIC UNIT REMARK 300 REPRESENTS THE BIOLOGICAL UNIT

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 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 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 THR A 250 REMARK 465 ASN A 251

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 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 CG CD CE NZ REMARK 470 LYS A 287 CG CD CE NZ REMARK 470 LYS A 291 CG CD CE NZ REMARK 470 THR A 294 OG1 CG2 REMARK 470 SER A 295 OG REMARK 470 GLN A 297 CG CD OE1 NE2 REMARK 470 GLU A 298 CG CD OE1 OE2 REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 ILE A 314 CG1 CG2 CD1 REMARK 470 ILE A 316 CG1 CG2 CD1 REMARK 470 GLU A 318 CG CD OE1 OE2 REMARK 470 ARG A 323 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 326 CG OD1 OD2 REMARK 470 ARG A 438 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 441 CG CD NE CZ NH1 NH2 REMARK 470 SER A 445 OG REMARK 470 VAL A 545 CG1 CG2

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 -0.088 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 ASN A 253 -174.01 -175.57 REMARK 500 LEU A 254 76.53 49.16 REMARK 500 HIS A 255 1.13 -52.52 REMARK 500 LEU A 286 -5.38 -57.78 REMARK 500 CYS A 300 -30.36 -38.92 REMARK 500 ASN A 407 92.01 -179.49 REMARK 500 CYS A 415 -137.98 -109.66 REMARK 500 ARG A 438 -37.76 -153.11 REMARK 500 SER A 463 86.86 -166.00 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 T 353 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH T 354 DISTANCE = 6.23 ANGSTROMS REMARK 525 HOH A 765 DISTANCE = 6.89 ANGSTROMS REMARK 525 HOH A 766 DISTANCE = 7.10 ANGSTROMS

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 MG A 576 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD2 REMARK 620 2 D3T A 579 O1B 171.6 REMARK 620 3 D3T A 579 O1A 97.2 89.0 REMARK 620 4 D3T A 579 O3G 91.2 83.2 89.0 REMARK 620 5 ASP A 429 OD2 89.6 95.8 92.8 177.9 REMARK 620 6 HOH A 586 O 90.2 83.6 172.6 89.7 88.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 577 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE A 341 O REMARK 620 2 DA P 5 OP1 98.3 REMARK 620 3 SER A 339 O 99.1 162.5 REMARK 620 4 HOH A 582 O 87.0 93.5 86.0 REMARK 620 5 HOH P2807 O 172.8 87.7 75.0 96.6 REMARK 620 6 ALA A 344 O 86.9 92.4 90.0 172.1 88.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 578 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 463 O REMARK 620 2 HOH T 190 O 100.3 REMARK 620 3 HOH A 617 O 92.0 94.2 REMARK 620 4 HOH A 722 O 165.4 94.4 86.2 REMARK 620 5 HOH A 721 O 85.3 100.2 165.6 92.9 REMARK 620 N 1 2 3 4

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 576 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 577 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 578 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D3T A 579 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO P 2801 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO P 2802 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO T 2803 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO P 2804

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XSL RELATED DB: PDB REMARK 900 RELATED ID: 1XSP RELATED DB: PDB

DBREF 1XSN A 242 575 UNP Q9UGP5 DPOL_HUMAN 242 575 DBREF 1XSN T 1 11 PDB 1XSN 1XSN 1 11 DBREF 1XSN P 1 6 PDB 1XSN 1XSN 1 6 DBREF 1XSN D 1 4 PDB 1XSN 1XSN 1 4

SEQADV 1XSN MET A 241 UNP Q9UGP5 INITIATING METHIONINE SEQADV 1XSN ALA A 543 UNP Q9UGP5 CYS 543 ENGINEERED

SEQRES 1 T 11 DC DG DG DC DA DA DT DA DC DT DG SEQRES 1 P 6 DC DA DG DT DA 2DT SEQRES 1 D 4 DG DC DC DG SEQRES 1 A 335 MET ALA GLN PRO SER SER GLN LYS ALA THR ASN HIS ASN SEQRES 2 A 335 LEU HIS ILE THR GLU LYS LEU GLU VAL LEU ALA LYS ALA SEQRES 3 A 335 TYR SER VAL GLN GLY ASP LYS TRP ARG ALA LEU GLY TYR SEQRES 4 A 335 ALA LYS ALA ILE ASN ALA LEU LYS SER PHE HIS LYS PRO SEQRES 5 A 335 VAL THR SER TYR GLN GLU ALA CYS SER ILE PRO GLY ILE SEQRES 6 A 335 GLY LYS ARG MET ALA GLU LYS ILE ILE GLU ILE LEU GLU SEQRES 7 A 335 SER GLY HIS LEU ARG LYS LEU ASP HIS ILE SER GLU SER SEQRES 8 A 335 VAL PRO VAL LEU GLU LEU PHE SER ASN ILE TRP GLY ALA SEQRES 9 A 335 GLY THR LYS THR ALA GLN MET TRP TYR GLN GLN GLY PHE SEQRES 10 A 335 ARG SER LEU GLU ASP ILE ARG SER GLN ALA SER LEU THR SEQRES 11 A 335 THR GLN GLN ALA ILE GLY LEU LYS HIS TYR SER ASP PHE SEQRES 12 A 335 LEU GLU ARG MET PRO ARG GLU GLU ALA THR GLU ILE GLU SEQRES 13 A 335 GLN THR VAL GLN LYS ALA ALA GLN ALA PHE ASN SER GLY SEQRES 14 A 335 LEU LEU CYS VAL ALA CYS GLY SER TYR ARG ARG GLY LYS SEQRES 15 A 335 ALA THR CYS GLY ASP VAL ASP VAL LEU ILE THR HIS PRO SEQRES 16 A 335 ASP GLY ARG SER HIS ARG GLY ILE PHE SER ARG LEU LEU SEQRES 17 A 335 ASP SER LEU ARG GLN GLU GLY PHE LEU THR ASP ASP LEU SEQRES 18 A 335 VAL SER GLN GLU GLU ASN GLY GLN GLN GLN LYS TYR LEU SEQRES 19 A 335 GLY VAL CYS ARG LEU PRO GLY PRO GLY ARG ARG HIS ARG SEQRES 20 A 335 ARG LEU ASP ILE ILE VAL VAL PRO TYR SER GLU PHE ALA SEQRES 21 A 335 CYS ALA LEU LEU TYR PHE THR GLY SER ALA HIS PHE ASN SEQRES 22 A 335 ARG SER MET ARG ALA LEU ALA LYS THR LYS GLY MET SER SEQRES 23 A 335 LEU SER GLU HIS ALA LEU SER THR ALA VAL VAL ARG ASN SEQRES 24 A 335 THR HIS GLY ALA LYS VAL GLY PRO GLY ARG VAL LEU PRO SEQRES 25 A 335 THR PRO THR GLU LYS ASP VAL PHE ARG LEU LEU GLY LEU SEQRES 26 A 335 PRO TYR ARG GLU PRO ALA GLU ARG ASP TRP

MODRES 1XSN 2DT P 6 DT 3'-DEOXYTHYMIDINE-5'-MONOPHOSPHATE

HET 2DT P 6 19 HET MG A 576 1 HET NA A 577 1 HET NA A 578 1 HET D3T A 579 28 HET EDO P2801 4 HET EDO P2802 4 HET EDO T2803 4 HET EDO P2804 4

HETNAM 2DT 3'-DEOXYTHYMIDINE-5'-MONOPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM D3T 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL

HETSYN 2DT 2',3'-DIDEOXYTHYMIDINE-5'-MONOPHOSPHATE HETSYN EDO ETHYLENE GLYCOL

FORMUL 2 2DT C10 H15 N2 O7 P FORMUL 5 MG MG 2+ FORMUL 6 NA 2(NA 1+) FORMUL 8 D3T C10 H17 N2 O13 P3 FORMUL 9 EDO 4(C2 H6 O2) FORMUL 13 HOH *327(H2 O)

HELIX 1 1 ILE A 256 GLN A 270 1 15 HELIX 2 2 ASP A 272 LYS A 287 1 16 HELIX 3 3 SER A 295 SER A 301 1 7 HELIX 4 4 GLY A 306 GLU A 315 1 10 HELIX 5 5 LEU A 322 ILE A 328 5 7 HELIX 6 6 SER A 331 ASN A 340 1 10 HELIX 7 7 GLY A 345 GLN A 355 1 11 HELIX 8 8 SER A 359 ALA A 367 1 9 HELIX 9 9 THR A 370 HIS A 379 1 10 HELIX 10 10 SER A 381 GLU A 385 5 5 HELIX 11 11 ARG A 389 ALA A 405 1 17 HELIX 12 12 CYS A 415 ARG A 420 1 6 HELIX 13 13 ILE A 443 GLU A 454 1 12 HELIX 14 14 PRO A 495 SER A 497 5 3 HELIX 15 15 GLU A 498 GLY A 508 1 11 HELIX 16 16 SER A 509 LYS A 523 1 15 HELIX 17 17 THR A 555 LEU A 563 1 9 HELIX 18 18 GLU A 569 ASP A 574 5 6

SHEET 1 A 2 MET A 387 PRO A 388 0 SHEET 2 A 2 THR A 424 CYS A 425 -1 O CYS A 425 N MET A 387 SHEET 1 B 5 LEU A 411 ALA A 414 0 SHEET 2 B 5 ASP A 427 THR A 433 -1 O LEU A 431 N VAL A 413 SHEET 3 B 5 ARG A 487 VAL A 493 1 O ILE A 492 N ILE A 432 SHEET 4 B 5 LYS A 472 CYS A 477 -1 N CYS A 477 O ARG A 487 SHEET 5 B 5 LEU A 457 VAL A 462 -1 N THR A 458 O VAL A 476 SHEET 1 C 3 MET A 525 LEU A 527 0 SHEET 2 C 3 LEU A 532 THR A 534 -1 O SER A 533 N SER A 526 SHEET 3 C 3 ARG A 549 VAL A 550 -1 O ARG A 549 N THR A 534 SHEET 1 D 2 VAL A 537 ARG A 538 0 SHEET 2 D 2 LYS A 544 GLY A 546 -1 O VAL A 545 N VAL A 537

LINK MG MG A 576 OD2 ASP A 427 1555 1555 2.00 LINK MG MG A 576 O1B D3T A 579 1555 1555 1.88 LINK MG MG A 576 O1A D3T A 579 1555 1555 1.99 LINK MG MG A 576 O3G D3T A 579 1555 1555 2.20 LINK MG MG A 576 OD2 ASP A 429 1555 1555 2.13 LINK MG MG A 576 O HOH A 586 1555 1555 2.15 LINK NA NA A 577 O ILE A 341 1555 1555 2.50 LINK NA NA A 577 OP1 DA P 5 1555 1555 2.58 LINK NA NA A 577 O SER A 339 1555 1555 2.41 LINK NA NA A 577 O HOH A 582 1555 1555 2.47 LINK NA NA A 577 O HOH P2807 1555 1555 2.44 LINK NA NA A 577 O ALA A 344 1555 1555 2.29 LINK NA NA A 578 O SER A 463 1555 1555 2.34 LINK NA NA A 578 O HOH T 190 1555 1555 2.40 LINK NA NA A 578 O HOH A 617 1555 1555 2.56 LINK O3' DA P 5 P 2DT P 6 1555 1555 1.61 LINK NA NA A 578 O HOH A 722 1555 1555 2.71 LINK NA NA A 578 O HOH A 721 1555 1555 2.83

CISPEP 1 GLY A 508 SER A 509 0 1.31

SITE 1 AC1 4 ASP A 427 ASP A 429 D3T A 579 HOH A 586 SITE 1 AC2 6 SER A 339 ILE A 341 ALA A 344 HOH A 582 SITE 2 AC2 6 DA P 5 HOH P2807 SITE 1 AC3 5 SER A 463 HOH A 617 HOH A 721 HOH A 722 SITE 2 AC3 5 HOH T 190 SITE 1 AC4 21 ARG A 386 GLY A 416 SER A 417 ARG A 420 SITE 2 AC4 21 GLY A 426 ASP A 427 ASP A 429 TYR A 505 SITE 3 AC4 21 PHE A 506 GLY A 508 ALA A 510 ASN A 513 SITE 4 AC4 21 MG A 576 HOH A 580 HOH A 586 HOH A 636 SITE 5 AC4 21 HOH A 638 HOH A 647 HOH A 708 2DT P 6 SITE 6 AC4 21 DA T 5 SITE 1 AC5 4 MET A 351 ARG A 485 DG P 3 HOH P2832 SITE 1 AC6 4 GLU A 361 DC P 1 DA P 2 HOH P2820 SITE 1 AC7 4 THR A 534 ALA A 535 ARG A 549 DC T 1 SITE 1 AC8 5 DT P 4 DA P 5 HOH P2816 HOH P2817 SITE 2 AC8 5 HOH P2819

CRYST1 56.043 62.551 139.830 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 0.017843 0.000000 0.000000 0.00000

SCALE2 0.000000 0.015987 0.000000 0.00000

SCALE3 0.000000 0.000000 0.007152 0.00000