HEADER DNA BINDING PROTEIN/DNA 01-SEP-10 2XQC TITLE DEINOCOCCUS RADIODURANS ISDRA2 TRANSPOSASE COMPLEXED WITH LEFT END TITLE 2 RECOGNITION AND CLEAVAGE SITE AND ZN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSPOSASE; COMPND 3 CHAIN: A, D; COMPND 4 SYNONYM: DRA2 TRANSPOSASE; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DRA2 TRANSPOSASE LEFT END RECOGNITION SEQUENCE; COMPND 8 CHAIN: B, E; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: ISDRA2 TRANSPOSON INTERNAL SEQUENCE; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: 5'-D(TP*TP*GP*AP*TP*GP)-3'; COMPND 13 CHAIN: C, F; COMPND 14 SYNONYM: DRA2 TRANSPOSASE LEFT END CLEAVAGE SITE, F; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DEINOCOCCUS RADIODURANS; SOURCE 3 ORGANISM_TAXID: 1299; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: DEINOCOCCUS RADIODURANS; SOURCE 10 ORGANISM_TAXID: 1299; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: DEINOCOCCUS RADIODURANS; SOURCE 14 ORGANISM_TAXID: 1299 KEYWDS DNA BINDING PROTEIN-DNA COMPLEX, TRANSPOSITION, MOBILE ELEMENT EXPDTA X-RAY DIFFRACTION AUTHOR A.B.HICKMAN,J.A.JAMES,O.BARABAS,C.PASTERNAK,B.TON-HOANG,M.CHANDLER, AUTHOR 2 S.SOMMER,F.DYDA REVDAT 4 08-MAY-19 2XQC 1 REMARK REVDAT 3 28-JUN-17 2XQC 1 REMARK REVDAT 2 12-JAN-11 2XQC 1 JRNL REVDAT 1 13-OCT-10 2XQC 0 JRNL AUTH A.B.HICKMAN,J.A.JAMES,O.BARABAS,C.PASTERNAK,B.TON-HOANG, JRNL AUTH 2 M.CHANDLER,S.SOMMER,F.DYDA JRNL TITL DNA RECOGNITION AND THE PRECLEAVAGE STATE DURING JRNL TITL 2 SINGLE-STRANDED DNA TRANSPOSITION IN D. RADIODURANS. JRNL REF EMBO J. V. 29 3840 2010 JRNL REFN ISSN 0261-4189 JRNL PMID 20890269 JRNL DOI 10.1038/EMBOJ.2010.241 REMARK 2 REMARK 2 RESOLUTION. 1.90 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 10000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 44429 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) : 0.176 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.900 REMARK 3 FREE R VALUE TEST SET COUNT : 900 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2106 REMARK 3 NUCLEIC ACID ATOMS : 1338 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 474 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.18900 REMARK 3 B22 (A**2) : 4.10300 REMARK 3 B33 (A**2) : 0.08600 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 4.803 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 33.69 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 : PARHCSDX.PRO REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP_NOPUCKERS.PARAM REMARK 3 PARAMETER FILE 3 : METALS_XPLOR_H.PAR REMARK 3 PARAMETER FILE 4 : PARAM19.SOL REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPHCSDX.PRO REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : METALS_XPLOR_H.TOP REMARK 3 TOPOLOGY FILE 4 : TOPH19_MOD.SOL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2XQC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-SEP-10. REMARK 100 THE DEPOSITION ID IS D_1290045232. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUL-98 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 4.2 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MULTILAYER MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45279 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 7.240 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 75.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.24000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.490 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2XO6 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: COMPLEX BUFFER: 35MM TRIS-HCL PH8.0, REMARK 280 0.15M NACL, 10MM MGCL2, 0.5 MM TCEP. THE TERNARY COMPLEX WAS REMARK 280 FORMED BY MIXING PROTEIN AT 9MG/ML WITH THE LE BINDING SITE DNA REMARK 280 AND CLEAVAGE SITE DNA AT A RATIO OF 1:1.1:1.3 CRYSTALS WERE REMARK 280 OBTAINED AT 19C BY MIXING THE COMPLEX AT 1:1 WITH WELL SOLUTION REMARK 280 OF 10MM ZNCL2, 0.1M NA-ACETATE PH 4.2, 17& PEG 4000. REMARK 280 CRYSTALS WERE CRYOPROTECTED IN 20% GLYCEROL., VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 292K 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 24.88100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.03500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.35800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.03500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.88100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.35800 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -337.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 THR A 2 REMARK 465 TYR A 3 REMARK 465 VAL A 4 REMARK 465 ILE A 5 REMARK 465 LEU A 6 REMARK 465 PRO A 7 REMARK 465 LEU A 8 REMARK 465 ASP A 138 REMARK 465 LYS A 139 REMARK 465 GLU A 140 REMARK 465 MET D 1 REMARK 465 THR D 2 REMARK 465 TYR D 3 REMARK 465 VAL D 4 REMARK 465 ILE D 5 REMARK 465 LEU D 6 REMARK 465 PRO D 7 REMARK 465 LEU D 8 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 GLU D 140 CG CD OE1 OE2 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 ARG D 126 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG D 126 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DC B 15 0.06 SIDE CHAIN REMARK 500 DA B 28 0.06 SIDE CHAIN REMARK 500 DT B 30 0.08 SIDE CHAIN REMARK 500 DA E 28 0.05 SIDE CHAIN REMARK 500 DT E 30 0.07 SIDE CHAIN 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 ZN A1138 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 67 NE2 REMARK 620 2 HIS D 137 NE2 115.1 REMARK 620 3 HIS A 69 NE2 104.8 109.3 REMARK 620 4 DG C 6 OP1 113.2 99.9 114.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1139 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC B 31 OP2 REMARK 620 2 PRO A 114 O 87.3 REMARK 620 3 HOH A2133 O 163.6 82.4 REMARK 620 4 HOH A2134 O 97.9 83.8 93.6 REMARK 620 5 HOH A2135 O 83.6 105.0 86.8 171.1 REMARK 620 6 HOH A2136 O 105.5 160.8 87.9 80.3 90.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1140 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP D 138 OD2 REMARK 620 2 ASP A 45 OD2 118.0 REMARK 620 3 GLU D 134 OE2 110.9 99.8 REMARK 620 4 ASP A 49 OD1 126.2 103.1 93.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1038 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2059 O REMARK 620 2 HOH B2057 O 174.0 REMARK 620 3 HOH B2060 O 82.2 92.3 REMARK 620 4 HOH B2061 O 90.6 86.9 87.6 REMARK 620 5 HOH B2058 O 91.0 94.4 172.3 89.1 REMARK 620 6 HOH B2062 O 76.8 105.5 89.5 167.3 92.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C1007 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C2021 O REMARK 620 2 HOH C2020 O 94.6 REMARK 620 3 DG C 3 N7 177.4 87.9 REMARK 620 4 HOH C2019 O 88.6 164.9 89.1 REMARK 620 5 HOH C2023 O 93.2 78.7 87.8 86.4 REMARK 620 6 HOH C2022 O 79.8 66.6 100.8 128.5 143.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D1141 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 69 NE2 REMARK 620 2 DG F 6 OP1 110.4 REMARK 620 3 HIS A 137 NE2 104.3 103.4 REMARK 620 4 HIS D 67 NE2 107.3 119.3 111.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D1142 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH D2128 O REMARK 620 2 ASP D 45 OD2 90.7 REMARK 620 3 HOH D2125 O 89.2 96.1 REMARK 620 4 HOH D2126 O 86.8 95.2 168.0 REMARK 620 5 HOH D2127 O 84.4 175.1 83.9 84.5 REMARK 620 6 HOH D2129 O 168.6 96.2 81.2 101.4 88.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN E1038 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH E2096 O REMARK 620 2 DC E 31 OP2 97.5 REMARK 620 3 HOH E2098 O 83.3 106.3 REMARK 620 4 HOH E2097 O 97.0 162.5 85.2 REMARK 620 5 HOH E2095 O 171.1 83.2 88.0 84.1 REMARK 620 6 PRO D 114 O 83.6 90.1 160.2 81.8 105.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN E1039 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH E2100 O REMARK 620 2 HOH E2102 O 86.2 REMARK 620 3 HOH E2104 O 87.5 171.2 REMARK 620 4 HOH E2101 O 176.7 96.8 89.4 REMARK 620 5 HOH E2103 O 91.7 88.8 85.3 87.0 REMARK 620 6 HOH E2099 O 90.4 95.4 90.8 90.7 175.5 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1138 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1139 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1140 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1038 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 1007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 1141 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 1142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN E 1038 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN E 1039 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XM3 RELATED DB: PDB REMARK 900 DEINOCOCCUS RADIODURANS ISDRA2 TRANSPOSASE LEFT END DNA COMPLEX REMARK 900 RELATED ID: 2XMA RELATED DB: PDB REMARK 900 DEINOCOCCUS RADIODURANS ISDRA2 TRANSPOSASE RIGHT END DNA COMPLEX REMARK 900 RELATED ID: 2XO6 RELATED DB: PDB REMARK 900 DEINOCOCCUS RADIODURANS ISDRA2 TRANSPOSASE Y132F MUTANT COMPLEXED REMARK 900 WITH LEFT END RECOGNITION AND CLEAVAGE SITE DBREF 2XQC A 1 140 UNP O83028 O83028_DEIRA 1 140 DBREF 2XQC B 11 37 PDB 2XQC 2XQC 11 37 DBREF 2XQC C 1 6 PDB 2XQC 2XQC 1 6 DBREF 2XQC D 1 140 UNP O83028 O83028_DEIRA 1 140 DBREF 2XQC E 11 37 PDB 2XQC 2XQC 11 37 DBREF 2XQC F 1 6 PDB 2XQC 2XQC 1 6 SEQRES 1 A 140 MET THR TYR VAL ILE LEU PRO LEU GLU MET LYS LYS GLY SEQRES 2 A 140 ARG GLY TYR VAL TYR GLN LEU GLU TYR HIS LEU ILE TRP SEQRES 3 A 140 CYS VAL LYS TYR ARG HIS GLN VAL LEU VAL GLY GLU VAL SEQRES 4 A 140 ALA ASP GLY LEU LYS ASP ILE LEU ARG ASP ILE ALA ALA SEQRES 5 A 140 GLN ASN GLY LEU GLU VAL ILE THR MET GLU VAL MET PRO SEQRES 6 A 140 ASP HIS VAL HIS LEU LEU LEU SER ALA THR PRO GLN GLN SEQRES 7 A 140 ALA ILE PRO ASP PHE VAL LYS ALA LEU LYS GLY ALA SER SEQRES 8 A 140 ALA ARG ARG MET PHE VAL ALA TYR PRO GLN LEU LYS GLU SEQRES 9 A 140 LYS LEU TRP GLY GLY ASN LEU TRP ASN PRO SER TYR CYS SEQRES 10 A 140 ILE LEU THR VAL SER GLU ASN THR ARG ALA GLN ILE GLN SEQRES 11 A 140 LYS TYR ILE GLU SER GLN HIS ASP LYS GLU SEQRES 1 B 27 DC DG DC DA DC DA DC DT DC DG DT DG DA SEQRES 2 B 27 DC DT DT DC DA DG DT DC DA DT DG DA DG SEQRES 3 B 27 DT SEQRES 1 C 6 DT DT DG DA DT DG SEQRES 1 D 140 MET THR TYR VAL ILE LEU PRO LEU GLU MET LYS LYS GLY SEQRES 2 D 140 ARG GLY TYR VAL TYR GLN LEU GLU TYR HIS LEU ILE TRP SEQRES 3 D 140 CYS VAL LYS TYR ARG HIS GLN VAL LEU VAL GLY GLU VAL SEQRES 4 D 140 ALA ASP GLY LEU LYS ASP ILE LEU ARG ASP ILE ALA ALA SEQRES 5 D 140 GLN ASN GLY LEU GLU VAL ILE THR MET GLU VAL MET PRO SEQRES 6 D 140 ASP HIS VAL HIS LEU LEU LEU SER ALA THR PRO GLN GLN SEQRES 7 D 140 ALA ILE PRO ASP PHE VAL LYS ALA LEU LYS GLY ALA SER SEQRES 8 D 140 ALA ARG ARG MET PHE VAL ALA TYR PRO GLN LEU LYS GLU SEQRES 9 D 140 LYS LEU TRP GLY GLY ASN LEU TRP ASN PRO SER TYR CYS SEQRES 10 D 140 ILE LEU THR VAL SER GLU ASN THR ARG ALA GLN ILE GLN SEQRES 11 D 140 LYS TYR ILE GLU SER GLN HIS ASP LYS GLU SEQRES 1 E 27 DC DG DC DA DC DA DC DT DC DG DT DG DA SEQRES 2 E 27 DC DT DT DC DA DG DT DC DA DT DG DA DG SEQRES 3 E 27 DT SEQRES 1 F 6 DT DT DG DA DT DG HET ZN A1138 1 HET ZN A1139 1 HET ZN A1140 1 HET ZN B1038 1 HET ZN C1007 1 HET ZN D1141 1 HET ZN D1142 1 HET ZN E1038 1 HET ZN E1039 1 HETNAM ZN ZINC ION FORMUL 7 ZN 9(ZN 2+) FORMUL 16 HOH *474(H2 O) HELIX 1 1 LYS A 29 HIS A 32 5 4 HELIX 2 2 VAL A 36 ASN A 54 1 19 HELIX 3 3 ALA A 79 TYR A 99 1 21 HELIX 4 4 PRO A 100 LYS A 105 5 6 HELIX 5 5 THR A 125 HIS A 137 1 13 HELIX 6 6 LYS D 29 HIS D 32 5 4 HELIX 7 7 VAL D 36 ASN D 54 1 19 HELIX 8 8 ALA D 79 TYR D 99 1 21 HELIX 9 9 PRO D 100 LYS D 105 5 6 HELIX 10 10 THR D 125 LYS D 139 1 15 SHEET 1 AA 4 LYS A 11 GLY A 13 0 SHEET 2 AA 4 TYR A 16 CYS A 27 -1 O TYR A 16 N GLY A 13 SHEET 3 AA 4 TYR D 116 VAL D 121 1 O TYR D 116 N VAL A 17 SHEET 4 AA 4 TYR D 16 CYS D 27 -1 O GLU D 21 N VAL D 121 SHEET 1 AB 2 LYS A 11 GLY A 13 0 SHEET 2 AB 2 TYR A 16 CYS A 27 -1 O TYR A 16 N GLY A 13 LINK ZN ZN A1138 NE2 HIS A 67 1555 1555 2.00 LINK ZN ZN A1138 NE2 HIS D 137 1555 1555 2.04 LINK ZN ZN A1138 NE2 HIS A 69 1555 1555 2.00 LINK ZN ZN A1138 OP1 DG C 6 1555 1555 2.01 LINK ZN ZN A1139 OP2 DC B 31 1555 1555 2.12 LINK ZN ZN A1139 O PRO A 114 1555 1555 2.12 LINK ZN ZN A1139 O HOH A2133 1555 1555 2.09 LINK ZN ZN A1139 O HOH A2134 1555 1555 2.13 LINK ZN ZN A1139 O HOH A2135 1555 1555 2.08 LINK ZN ZN A1139 O HOH A2136 1555 1555 2.10 LINK ZN ZN A1140 OD2 ASP D 138 1555 4455 2.02 LINK ZN ZN A1140 OD2 ASP A 45 1555 1555 1.95 LINK ZN ZN A1140 OE2 GLU D 134 1555 4455 2.11 LINK ZN ZN A1140 OD1 ASP A 49 1555 1555 1.97 LINK ZN ZN B1038 O HOH B2059 1555 1555 2.07 LINK ZN ZN B1038 O HOH B2057 1555 1555 2.06 LINK ZN ZN B1038 O HOH B2060 1555 1555 2.07 LINK ZN ZN B1038 O HOH B2061 1555 1555 2.08 LINK ZN ZN B1038 O HOH B2058 1555 1555 2.07 LINK ZN ZN B1038 O HOH B2062 1555 1555 2.09 LINK ZN ZN C1007 O HOH C2021 1555 1555 2.10 LINK ZN ZN C1007 O HOH C2020 1555 1555 2.09 LINK ZN ZN C1007 N7 DG C 3 1555 1555 2.28 LINK ZN ZN C1007 O HOH C2019 1555 1555 2.08 LINK ZN ZN C1007 O HOH C2023 1555 1555 2.08 LINK ZN ZN C1007 O HOH C2022 1555 1555 2.09 LINK ZN ZN D1141 NE2 HIS D 69 1555 1555 2.04 LINK ZN ZN D1141 OP1 DG F 6 1555 1555 2.01 LINK ZN ZN D1141 NE2 HIS A 137 1555 1555 2.04 LINK ZN ZN D1141 NE2 HIS D 67 1555 1555 1.97 LINK ZN ZN D1142 O HOH D2128 1555 1555 2.08 LINK ZN ZN D1142 OD2 ASP D 45 1555 1555 2.25 LINK ZN ZN D1142 O HOH D2125 1555 1555 2.07 LINK ZN ZN D1142 O HOH D2126 1555 1555 2.08 LINK ZN ZN D1142 O HOH D2127 1555 1555 2.09 LINK ZN ZN D1142 O HOH D2129 1555 1555 2.08 LINK ZN ZN E1038 O HOH E2096 1555 1555 2.10 LINK ZN ZN E1038 OP2 DC E 31 1555 1555 2.14 LINK ZN ZN E1038 O HOH E2098 1555 1555 2.11 LINK ZN ZN E1038 O HOH E2097 1555 1555 2.11 LINK ZN ZN E1038 O HOH E2095 1555 1555 2.10 LINK ZN ZN E1038 O PRO D 114 1555 1555 2.12 LINK ZN ZN E1039 O HOH E2100 1555 1555 2.07 LINK ZN ZN E1039 O HOH E2102 1555 1555 2.08 LINK ZN ZN E1039 O HOH E2104 1555 1555 2.09 LINK ZN ZN E1039 O HOH E2101 1555 1555 2.07 LINK ZN ZN E1039 O HOH E2103 1555 1555 2.10 LINK ZN ZN E1039 O HOH E2099 1555 1555 2.09 SITE 1 AC1 5 HIS A 67 HIS A 69 DT C 5 DG C 6 SITE 2 AC1 5 HIS D 137 SITE 1 AC2 6 PRO A 114 HOH A2133 HOH A2134 HOH A2135 SITE 2 AC2 6 HOH A2136 DC B 31 SITE 1 AC3 4 ASP A 45 ASP A 49 GLU D 134 ASP D 138 SITE 1 AC4 6 HOH B2057 HOH B2058 HOH B2059 HOH B2060 SITE 2 AC4 6 HOH B2061 HOH B2062 SITE 1 AC5 6 DG C 3 HOH C2019 HOH C2020 HOH C2021 SITE 2 AC5 6 HOH C2022 HOH C2023 SITE 1 AC6 5 HIS A 137 HIS D 67 HIS D 69 DT F 5 SITE 2 AC6 5 DG F 6 SITE 1 AC7 6 ASP D 45 HOH D2125 HOH D2126 HOH D2127 SITE 2 AC7 6 HOH D2128 HOH D2129 SITE 1 AC8 6 PRO D 114 DC E 31 HOH E2095 HOH E2096 SITE 2 AC8 6 HOH E2097 HOH E2098 SITE 1 AC9 6 HOH E2099 HOH E2100 HOH E2101 HOH E2102 SITE 2 AC9 6 HOH E2103 HOH E2104 CRYST1 49.762 92.716 126.070 90.00 90.00 90.00 P 21 21 21 8 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 0.020096 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010786 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007932 0.00000