HEADER TRANSFERASE/DNA 07-DEC-10 3PW5 TITLE TERNARY COMPLEX OF AFLATOXIN B1 ADDUCT MODIFIED DNA (AFB1-N7-GUA) WITH TITLE 2 DNA POLYMERASE IV AND INCOMING DTTP CAVEAT 3PW5 DG B 374 HAS WRONG CHIRALITY AT ATOM C4' CHIRALITY ERROR IN CAVEAT 2 3PW5 RESIDUE X AT ATOM C4' COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE IV; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-341; COMPND 5 SYNONYM: POL IV; COMPND 6 EC: 2.7.7.7; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*TP*TP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)- COMPND 10 3'); COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: MODIFIED DNA TEMPLATE; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'); COMPND 16 CHAIN: C; COMPND 17 ENGINEERED: YES; COMPND 18 OTHER_DETAILS: DNA PRIMER SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SULFOLOBUS SOLFATARICUS; SOURCE 3 ORGANISM_TAXID: 2287; SOURCE 4 GENE: DBH, DPO4, SSO2448; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS TERNARY COMPLEX OF DPO4-DNA-DTTP, DNA POLYMERASE, DNA ADDUCT, KEYWDS 2 TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.BANERJEE REVDAT 4 21-FEB-24 3PW5 1 REMARK LINK REVDAT 3 30-JAN-19 3PW5 1 CAVEAT COMPND SOURCE REMARK REVDAT 3 2 1 DBREF SEQADV SEQRES HET REVDAT 3 3 1 HETNAM FORMUL LINK SITE REVDAT 3 4 1 ATOM REVDAT 2 21-SEP-11 3PW5 1 JRNL C REVDAT 1 10-AUG-11 3PW5 0 JRNL AUTH S.BANERJEE,K.L.BROWN,M.EGLI,M.P.STONE JRNL TITL BYPASS OF AFLATOXIN B(1) ADDUCTS BY THE SULFOLOBUS JRNL TITL 2 SOLFATARICUS DNA POLYMERASE IV. JRNL REF J.AM.CHEM.SOC. V. 133 12556 2011 JRNL REFN ISSN 0002-7863 JRNL PMID 21790157 JRNL DOI 10.1021/JA2015668 REMARK 2 REMARK 2 RESOLUTION. 3.00 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 66170.030 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 10563 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 : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1076 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.19 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1391 REMARK 3 BIN R VALUE (WORKING SET) : 0.3490 REMARK 3 BIN FREE R VALUE : 0.3850 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 161 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2754 REMARK 3 NUCLEIC ACID ATOMS : 567 REMARK 3 HETEROGEN ATOMS : 56 REMARK 3 SOLVENT ATOMS : 57 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.96000 REMARK 3 B22 (A**2) : -1.15000 REMARK 3 B33 (A**2) : -6.82000 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) : 0.37 REMARK 3 ESD FROM SIGMAA (A) : 0.35 REMARK 3 LOW RESOLUTION CUTOFF (A) : 50.0 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.51 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.40 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.990 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) : 1.440 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.570 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.920 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.210 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.30 REMARK 3 BSOL : 15.36 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_CAT.PARAM REMARK 3 PARAMETER FILE 3 : DTTP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA_CAT.TOP REMARK 3 TOPOLOGY FILE 3 : DTTP.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : WATER.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESOLUTION-DEPENDENT WEIGHTING SCHEME REMARK 3 BULK SOLVENT MODEL USED REMARK 4 REMARK 4 3PW5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000062884. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-FEB-09 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10563 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 29.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 47.33350 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.20750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 47.33350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.20750 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2018 O HOH A 2032 1556 2.16 REMARK 500 O HOH A 2023 O HOH A 2034 1554 2.18 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 B 374 C5 DG B 374 C6 0.071 REMARK 500 DG B 374 C5 DG B 374 N7 0.059 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DG B 374 C2 - N3 - C4 ANGL. DEV. = 3.1 DEGREES REMARK 500 DG B 374 C5 - N7 - C8 ANGL. DEV. = -3.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 11 52.48 20.31 REMARK 500 ASN A 21 74.16 -162.09 REMARK 500 PRO A 22 -31.47 -37.62 REMARK 500 LYS A 25 150.60 -39.35 REMARK 500 PHE A 38 -174.20 -173.63 REMARK 500 PRO A 70 -8.83 -50.26 REMARK 500 SER A 97 106.23 165.13 REMARK 500 GLU A 101 -76.30 -94.77 REMARK 500 ILE A 102 78.44 91.04 REMARK 500 SER A 104 -162.61 -161.35 REMARK 500 ASP A 111 77.54 -103.50 REMARK 500 SER A 146 -166.68 -166.48 REMARK 500 PRO A 185 108.35 -46.87 REMARK 500 LYS A 197 48.03 -86.53 REMARK 500 LEU A 198 -1.62 -150.92 REMARK 500 ASP A 232 25.35 85.04 REMARK 500 ASN A 235 51.75 -153.04 REMARK 500 ARG A 248 126.09 -171.96 REMARK 500 ASP A 278 -74.43 59.16 REMARK 500 ARG A 301 124.99 -172.68 REMARK 500 SER A 339 -159.21 -132.71 REMARK 500 LYS A 340 74.36 35.52 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 A2010 DISTANCE = 9.03 ANGSTROMS REMARK 525 HOH A2020 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A2025 DISTANCE = 7.37 ANGSTROMS REMARK 525 HOH A2027 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A2028 DISTANCE = 6.75 ANGSTROMS REMARK 525 HOH A2030 DISTANCE = 9.07 ANGSTROMS REMARK 525 HOH A2035 DISTANCE = 6.81 ANGSTROMS REMARK 525 HOH A2038 DISTANCE = 8.49 ANGSTROMS REMARK 525 HOH A2050 DISTANCE = 8.14 ANGSTROMS REMARK 525 HOH A2051 DISTANCE = 7.45 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 CA A1001 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 8 OD1 REMARK 620 2 PHE A 9 O 88.3 REMARK 620 3 ASP A 106 OD2 70.3 112.5 REMARK 620 4 TTP A 400 O2B 126.8 73.7 162.7 REMARK 620 5 TTP A 400 O1A 134.2 133.0 74.9 89.1 REMARK 620 6 TTP A 400 O3A 134.3 121.5 118.3 49.7 47.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1002 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 8 OD2 REMARK 620 2 ASP A 106 OD2 91.6 REMARK 620 3 GLU A 107 OE2 130.0 87.8 REMARK 620 4 TTP A 400 O1A 124.6 72.0 102.6 REMARK 620 5 TTP A 400 O2A 125.4 118.4 97.9 46.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1003 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 182 O REMARK 620 2 ILE A 187 O 83.5 REMARK 620 3 HOH A2001 O 61.4 141.4 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TTP A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3PVX RELATED DB: PDB REMARK 900 RELATED ID: 3PW0 RELATED DB: PDB REMARK 900 RELATED ID: 3PW2 RELATED DB: PDB REMARK 900 RELATED ID: 3PW4 RELATED DB: PDB REMARK 900 RELATED ID: 3PW7 RELATED DB: PDB DBREF 3PW5 A 2 342 UNP Q97W02 DPO4_SACS2 1 341 DBREF 3PW5 B 372 386 PDB 3PW5 3PW5 372 386 DBREF 3PW5 C 347 359 PDB 3PW5 3PW5 347 359 SEQADV 3PW5 HIS A -4 UNP Q97W02 EXPRESSION TAG SEQADV 3PW5 HIS A -3 UNP Q97W02 EXPRESSION TAG SEQADV 3PW5 HIS A -2 UNP Q97W02 EXPRESSION TAG SEQADV 3PW5 HIS A -1 UNP Q97W02 EXPRESSION TAG SEQADV 3PW5 HIS A 0 UNP Q97W02 EXPRESSION TAG SEQADV 3PW5 HIS A 1 UNP Q97W02 EXPRESSION TAG SEQRES 1 A 347 HIS HIS HIS HIS HIS HIS MET ILE VAL LEU PHE VAL ASP SEQRES 2 A 347 PHE ASP TYR PHE TYR ALA GLN VAL GLU GLU VAL LEU ASN SEQRES 3 A 347 PRO SER LEU LYS GLY LYS PRO VAL VAL VAL CYS VAL PHE SEQRES 4 A 347 SER GLY ARG PHE GLU ASP SER GLY ALA VAL ALA THR ALA SEQRES 5 A 347 ASN TYR GLU ALA ARG LYS PHE GLY VAL LYS ALA GLY ILE SEQRES 6 A 347 PRO ILE VAL GLU ALA LYS LYS ILE LEU PRO ASN ALA VAL SEQRES 7 A 347 TYR LEU PRO MET ARG LYS GLU VAL TYR GLN GLN VAL SER SEQRES 8 A 347 SER ARG ILE MET ASN LEU LEU ARG GLU TYR SER GLU LYS SEQRES 9 A 347 ILE GLU ILE ALA SER ILE ASP GLU ALA TYR LEU ASP ILE SEQRES 10 A 347 SER ASP LYS VAL ARG ASP TYR ARG GLU ALA TYR ASN LEU SEQRES 11 A 347 GLY LEU GLU ILE LYS ASN LYS ILE LEU GLU LYS GLU LYS SEQRES 12 A 347 ILE THR VAL THR VAL GLY ILE SER LYS ASN LYS VAL PHE SEQRES 13 A 347 ALA LYS ILE ALA ALA ASP MET ALA LYS PRO ASN GLY ILE SEQRES 14 A 347 LYS VAL ILE ASP ASP GLU GLU VAL LYS ARG LEU ILE ARG SEQRES 15 A 347 GLU LEU ASP ILE ALA ASP VAL PRO GLY ILE GLY ASN ILE SEQRES 16 A 347 THR ALA GLU LYS LEU LYS LYS LEU GLY ILE ASN LYS LEU SEQRES 17 A 347 VAL ASP THR LEU SER ILE GLU PHE ASP LYS LEU LYS GLY SEQRES 18 A 347 MET ILE GLY GLU ALA LYS ALA LYS TYR LEU ILE SER LEU SEQRES 19 A 347 ALA ARG ASP GLU TYR ASN GLU PRO ILE ARG THR ARG VAL SEQRES 20 A 347 ARG LYS SER ILE GLY ARG ILE VAL THR MET LYS ARG ASN SEQRES 21 A 347 SER ARG ASN LEU GLU GLU ILE LYS PRO TYR LEU PHE ARG SEQRES 22 A 347 ALA ILE GLU GLU SER TYR TYR LYS LEU ASP LYS ARG ILE SEQRES 23 A 347 PRO LYS ALA ILE HIS VAL VAL ALA VAL THR GLU ASP LEU SEQRES 24 A 347 ASP ILE VAL SER ARG GLY ARG THR PHE PRO HIS GLY ILE SEQRES 25 A 347 SER LYS GLU THR ALA TYR SER GLU SER VAL LYS LEU LEU SEQRES 26 A 347 GLN LYS ILE LEU GLU GLU ASP GLU ARG LYS ILE ARG ARG SEQRES 27 A 347 ILE GLY VAL ARG PHE SER LYS PHE ILE SEQRES 1 B 15 DT DT DG DA DA DT DC DC DT DT DC DC DC SEQRES 2 B 15 DC DC SEQRES 1 C 13 DG DG DG DG DG DA DA DG DG DA DT DT DC HET TTP A 400 29 HET CA A1001 1 HET CA A1002 1 HET CA A1003 1 HET AFN B 387 24 HETNAM TTP THYMIDINE-5'-TRIPHOSPHATE HETNAM CA CALCIUM ION HETNAM AFN 8,9-DIHYDRO-9-HYDROXY-AFLATOXIN B1 FORMUL 4 TTP C10 H17 N2 O14 P3 FORMUL 5 CA 3(CA 2+) FORMUL 8 AFN C17 H14 O7 FORMUL 9 HOH *57(H2 O) HELIX 1 1 TYR A 11 LEU A 20 1 10 HELIX 2 2 ASN A 21 LYS A 25 5 5 HELIX 3 3 ASN A 48 PHE A 54 1 7 HELIX 4 4 PRO A 61 LYS A 67 1 7 HELIX 5 5 ARG A 78 LEU A 93 1 16 HELIX 6 6 ARG A 94 SER A 97 5 4 HELIX 7 7 ASP A 118 GLU A 137 1 20 HELIX 8 8 ASN A 148 ALA A 159 1 12 HELIX 9 9 ASP A 168 LEU A 179 1 12 HELIX 10 10 ASP A 180 VAL A 184 5 5 HELIX 11 11 GLY A 188 LYS A 197 1 10 HELIX 12 12 LYS A 202 SER A 208 5 7 HELIX 13 13 GLU A 210 LYS A 215 1 6 HELIX 14 14 GLY A 219 ARG A 231 1 13 HELIX 15 15 ASN A 258 ASP A 278 1 21 HELIX 16 16 SER A 308 ASP A 327 1 20 SHEET 1 A 4 GLU A 107 ASP A 111 0 SHEET 2 A 4 VAL A 4 PHE A 9 -1 N LEU A 5 O LEU A 110 SHEET 3 A 4 VAL A 141 SER A 146 -1 O SER A 146 N VAL A 4 SHEET 4 A 4 ILE A 164 VAL A 166 1 O LYS A 165 N ILE A 145 SHEET 1 B 3 GLY A 42 ALA A 47 0 SHEET 2 B 3 VAL A 29 PHE A 34 -1 N VAL A 31 O THR A 46 SHEET 3 B 3 VAL A 73 PRO A 76 1 O LEU A 75 N CYS A 32 SHEET 1 C 4 SER A 245 SER A 256 0 SHEET 2 C 4 ILE A 331 PHE A 341 -1 O PHE A 338 N ILE A 246 SHEET 3 C 4 PRO A 282 THR A 291 -1 N VAL A 290 O ARG A 332 SHEET 4 C 4 ILE A 296 THR A 302 -1 O VAL A 297 N ALA A 289 LINK N7 DG B 374 C8A AFN B 387 1555 1555 1.58 LINK OD1 ASP A 8 CA CA A1001 1555 1555 2.27 LINK OD2 ASP A 8 CA CA A1002 1555 1555 3.13 LINK O PHE A 9 CA CA A1001 1555 1555 2.41 LINK OD2 ASP A 106 CA CA A1001 1555 1555 2.77 LINK OD2 ASP A 106 CA CA A1002 1555 1555 2.75 LINK OE2 GLU A 107 CA CA A1002 1555 1555 2.79 LINK O ALA A 182 CA CA A1003 1555 1555 2.81 LINK O ILE A 187 CA CA A1003 1555 1555 2.80 LINK O2B TTP A 400 CA CA A1001 1555 1555 2.36 LINK O1A TTP A 400 CA CA A1001 1555 1555 2.85 LINK O3A TTP A 400 CA CA A1001 1555 1555 3.14 LINK O1A TTP A 400 CA CA A1002 1555 1555 3.06 LINK O2A TTP A 400 CA CA A1002 1555 1555 3.17 LINK CA CA A1003 O HOH A2001 1555 1555 2.70 CISPEP 1 LYS A 160 PRO A 161 0 -0.25 SITE 1 AC1 14 PHE A 9 ASP A 10 TYR A 11 PHE A 12 SITE 2 AC1 14 TYR A 13 ALA A 45 TYR A 49 ARG A 52 SITE 3 AC1 14 ASP A 106 CA A1001 CA A1002 HOH A2002 SITE 4 AC1 14 DT B 373 HOH B2012 SITE 1 AC2 5 ASP A 8 PHE A 9 ASP A 106 TTP A 400 SITE 2 AC2 5 CA A1002 SITE 1 AC3 5 ASP A 8 ASP A 106 GLU A 107 TTP A 400 SITE 2 AC3 5 CA A1001 SITE 1 AC4 3 ALA A 182 ILE A 187 HOH A2001 CRYST1 94.667 104.415 52.510 90.00 90.00 90.00 P 21 21 2 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 0.010563 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009577 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019044 0.00000