HEADER TRANSFERASE/DNA 17-JUN-09 3HW8 TITLE TERNARY COMPLEX OF DNA POLYMERASE LAMBDA OF A TWO NUCLEOTIDE GAPPED TITLE 2 DNA SUBSTRATE WITH A C IN THE SCRUNCH SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE LAMBDA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 242-575, 39 KDA CATALYTIC DOMAIN; COMPND 5 SYNONYM: POL LAMBDA, DNA POLYMERASE KAPPA, DNA POLYMERASE BETA-2, POL COMPND 6 BETA2; COMPND 7 EC: 2.7.7.7, 4.2.99.-; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: 5'-D(*CP*GP*GP*CP*CP*AP*AP*TP*AP*CP*TP*G)-3'; COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: TEMPLATE STRAND; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: 5'-D(*CP*AP*GP*TP*AP*T)-3'; COMPND 17 CHAIN: C; COMPND 18 ENGINEERED: YES; COMPND 19 OTHER_DETAILS: PRIMER STRAND; COMPND 20 MOL_ID: 4; COMPND 21 MOLECULE: 5'-D(P*GP*CP*CP*G)-3'; COMPND 22 CHAIN: D; COMPND 23 ENGINEERED: YES; COMPND 24 OTHER_DETAILS: DOWNSTREAM PRIMER STRAND 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: BL21(DE3)RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22-B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 MOL_ID: 4; SOURCE 16 SYNTHETIC: YES KEYWDS SCRUNCH SITE, X-FAMILY, POLYMERASE, DNA DAMAGE, DNA REPAIR, DNA KEYWDS 2 REPLICATION, DNA SYNTHESIS, DNA-BINDING, DNA-DIRECTED DNA KEYWDS 3 POLYMERASE, LYASE, MANGANESE, METAL-BINDING, NUCLEOTIDYLTRANSFERASE, KEYWDS 4 NUCLEUS, PHOSPHOPROTEIN, POLYMORPHISM, TRANSFERASE, TRANSFERASE-DNA KEYWDS 5 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.GARCIA-DIAZ,K.BEBENEK,A.A.LARREA,J.M.HAVENER,L.PERERA,J.M.KRAHN, AUTHOR 2 L.C.PEDERSEN,D.A.RAMSDEN,T.A.KUNKEL REVDAT 3 06-SEP-23 3HW8 1 REMARK REVDAT 2 13-OCT-21 3HW8 1 REMARK SEQADV LINK REVDAT 1 25-AUG-09 3HW8 0 JRNL AUTH M.GARCIA-DIAZ,K.BEBENEK,A.A.LARREA,J.M.HAVENER,L.PERERA, JRNL AUTH 2 J.M.KRAHN,L.C.PEDERSEN,D.A.RAMSDEN,T.A.KUNKEL JRNL TITL SCRUNCHING DURNING DNA REPAIR SYNTHESIS JRNL REF TO BE PUBLISHED JRNL REFN 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) : 24.32 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 602839.150 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 35934 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) : 0.212 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1794 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 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) (%) : 82.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5057 REMARK 3 BIN R VALUE (WORKING SET) : 0.2970 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 270 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2517 REMARK 3 NUCLEIC ACID ATOMS : 444 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 331 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -9.68000 REMARK 3 B22 (A**2) : 13.42000 REMARK 3 B33 (A**2) : -3.74000 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) : 0.26 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) : 0.29 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.29 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.000 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.890 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) : 1.320 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.110 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.590 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.200 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 49.88 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 : ALL.PAR REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : ALL.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3HW8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1000053657. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-DEC-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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) : 1.5418 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : VARIMAX HF REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 92 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38282 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 (%) : 97.2 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.5000 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 (%) : 89.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.52200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.900 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: PDB ENTRY 1XSN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M SODIUM FORMATE, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 28.12450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.55400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.19300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.55400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.12450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.19300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -79.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 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 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 LEU A 254 CG CD1 CD2 REMARK 470 ILE A 256 CG1 CG2 CD1 REMARK 470 LYS A 259 CG CD CE NZ REMARK 470 GLN A 297 CG CD OE1 NE2 REMARK 470 LYS A 307 CG CD CE NZ 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 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 THR A 540 OG1 CG2 REMARK 470 HIS A 541 CG ND1 CD2 CE1 NE2 REMARK 470 VAL A 545 CG1 CG2 REMARK 470 DT C 6 O3' 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 -0.086 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 LEU A 286 -17.95 -49.78 REMARK 500 SER A 288 8.06 -64.18 REMARK 500 LEU A 325 -7.77 -57.81 REMARK 500 ASN A 407 94.52 -176.77 REMARK 500 CYS A 415 -136.64 -101.10 REMARK 500 ARG A 438 -28.64 -156.41 REMARK 500 SER A 439 0.99 -68.66 REMARK 500 SER A 463 92.71 -166.77 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 578 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 14 O REMARK 620 2 SER A 339 O 89.0 REMARK 620 3 ILE A 341 O 90.7 100.1 REMARK 620 4 ALA A 344 O 173.2 84.4 89.0 REMARK 620 5 DA C 5 OP1 93.7 158.2 101.5 93.0 REMARK 620 6 HOH C 40 O 87.9 75.9 175.8 91.9 82.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 579 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 48 O REMARK 620 2 HOH A 136 O 89.3 REMARK 620 3 SER A 463 O 89.7 81.7 REMARK 620 4 HOH B 62 O 166.3 104.0 95.5 REMARK 620 5 HOH B 78 O 84.5 171.9 93.1 82.6 REMARK 620 6 HOH B 168 O 98.3 99.1 172.0 76.5 87.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 580 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 90 O REMARK 620 2 CYS A 300 O 74.5 REMARK 620 3 ILE A 302 O 159.7 111.0 REMARK 620 4 ILE A 305 O 74.2 87.8 86.3 REMARK 620 5 HOH A 648 O 99.4 87.1 100.4 172.7 REMARK 620 N 1 2 3 4 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 ASP A 429 OD2 94.8 REMARK 620 3 D3T A 581 O1B 169.1 93.1 REMARK 620 4 D3T A 581 O1A 97.9 96.3 88.8 REMARK 620 5 D3T A 581 O3G 84.0 177.9 87.9 85.6 REMARK 620 6 HOH A 582 O 84.5 88.8 88.1 174.2 89.4 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 ASP A 427 OD1 REMARK 620 2 ASP A 429 OD1 100.7 REMARK 620 3 ASP A 490 OD2 118.6 85.5 REMARK 620 4 D3T A 581 O1A 93.5 88.8 147.9 REMARK 620 5 HOH C 17 O 85.8 165.3 103.1 77.6 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 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 577 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 578 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 579 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 580 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D3T A 581 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HWT RELATED DB: PDB REMARK 900 RELATED ID: 3HX0 RELATED DB: PDB DBREF 3HW8 A 242 575 UNP Q9UGP5 DPOLL_HUMAN 242 575 DBREF 3HW8 B 1 12 PDB 3HW8 3HW8 1 12 DBREF 3HW8 C 1 6 PDB 3HW8 3HW8 1 6 DBREF 3HW8 D 1 4 PDB 3HW8 3HW8 1 4 SEQADV 3HW8 MET A 241 UNP Q9UGP5 EXPRESSION TAG SEQADV 3HW8 ALA A 543 UNP Q9UGP5 CYS 543 ENGINEERED MUTATION 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 SEQRES 1 B 12 DC DG DG DC DC DA DA DT DA DC DT DG SEQRES 1 C 6 DC DA DG DT DA DT SEQRES 1 D 4 DG DC DC DG HET MG A 576 1 HET NA A 577 1 HET NA A 578 1 HET NA A 579 1 HET NA A 580 1 HET D3T A 581 28 HET EDO A 1 4 HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM D3T 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 MG MG 2+ FORMUL 6 NA 4(NA 1+) FORMUL 10 D3T C10 H17 N2 O13 P3 FORMUL 11 EDO C2 H6 O2 FORMUL 12 HOH *331(H2 O) HELIX 1 1 ASN A 253 GLN A 270 1 18 HELIX 2 2 ASP A 272 PHE A 289 1 18 HELIX 3 3 SER A 295 SER A 301 1 7 HELIX 4 4 GLY A 306 SER A 319 1 14 HELIX 5 5 LEU A 322 HIS A 327 5 6 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 HIS A 379 LEU A 384 1 6 HELIX 11 11 ARG A 389 PHE A 406 1 18 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 VAL A 428 THR A 433 -1 O LEU A 431 N VAL A 413 SHEET 3 B 5 ARG A 487 VAL A 493 1 O ASP A 490 N VAL A 430 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 VAL A 462 O LEU A 474 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 LINK O HOH A 14 NA NA A 578 1555 1555 2.44 LINK O HOH A 48 NA NA A 579 1555 1555 2.52 LINK O HOH A 90 NA NA A 580 1555 1555 2.55 LINK O HOH A 136 NA NA A 579 1555 1555 2.53 LINK O CYS A 300 NA NA A 580 1555 1555 2.43 LINK O ILE A 302 NA NA A 580 1555 1555 2.30 LINK O ILE A 305 NA NA A 580 1555 1555 2.55 LINK O SER A 339 NA NA A 578 1555 1555 2.45 LINK O ILE A 341 NA NA A 578 1555 1555 2.42 LINK O ALA A 344 NA NA A 578 1555 1555 2.45 LINK OD2 ASP A 427 MG MG A 576 1555 1555 2.04 LINK OD1 ASP A 427 NA NA A 577 1555 1555 2.20 LINK OD2 ASP A 429 MG MG A 576 1555 1555 2.10 LINK OD1 ASP A 429 NA NA A 577 1555 1555 2.15 LINK O SER A 463 NA NA A 579 1555 1555 2.43 LINK OD2 ASP A 490 NA NA A 577 1555 1555 2.72 LINK MG MG A 576 O1B D3T A 581 1555 1555 2.08 LINK MG MG A 576 O1A D3T A 581 1555 1555 2.12 LINK MG MG A 576 O3G D3T A 581 1555 1555 2.20 LINK MG MG A 576 O HOH A 582 1555 1555 2.07 LINK NA NA A 577 O1A D3T A 581 1555 1555 2.48 LINK NA NA A 577 O HOH C 17 1555 1555 2.53 LINK NA NA A 578 OP1 DA C 5 1555 1555 2.43 LINK NA NA A 578 O HOH C 40 1555 1555 2.45 LINK NA NA A 579 O HOH B 62 1555 1555 2.40 LINK NA NA A 579 O HOH B 78 1555 1555 2.73 LINK NA NA A 579 O HOH B 168 1555 1555 2.41 LINK NA NA A 580 O HOH A 648 1555 1555 2.33 CISPEP 1 GLY A 508 SER A 509 0 1.08 SITE 1 AC1 5 ASP A 427 ASP A 429 NA A 577 D3T A 581 SITE 2 AC1 5 HOH A 582 SITE 1 AC2 6 ASP A 427 ASP A 429 ASP A 490 MG A 576 SITE 2 AC2 6 D3T A 581 HOH C 17 SITE 1 AC3 6 HOH A 14 SER A 339 ILE A 341 ALA A 344 SITE 2 AC3 6 DA C 5 HOH C 40 SITE 1 AC4 6 HOH A 48 HOH A 136 SER A 463 HOH B 62 SITE 2 AC4 6 HOH B 78 HOH B 168 SITE 1 AC5 7 HOH A 90 CYS A 300 ILE A 302 PRO A 303 SITE 2 AC5 7 ILE A 305 HOH A 648 DC D 3 SITE 1 AC6 25 HOH A 13 HOH A 29 HOH A 51 HOH A 93 SITE 2 AC6 25 HOH A 127 HOH A 154 ARG A 386 GLY A 416 SITE 3 AC6 25 SER A 417 ARG A 420 GLY A 426 ASP A 427 SITE 4 AC6 25 ASP A 429 TYR A 505 PHE A 506 GLY A 508 SITE 5 AC6 25 ALA A 510 ASN A 513 MG A 576 NA A 577 SITE 6 AC6 25 HOH A 582 DA B 6 DT C 6 HOH C 17 SITE 7 AC6 25 HOH C 123 SITE 1 AC7 6 HOH A 130 THR A 348 MET A 351 ARG A 485 SITE 2 AC7 6 HOH A 629 DG C 3 CRYST1 56.249 68.386 137.108 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 0.017778 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014623 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007294 0.00000