PDB Short entry for 3GQ3 HEADER LYASE/DNA 23-MAR-09 3GQ3 TITLE MUTM ENCOUNTERING AN INTRAHELICAL 8-OXOGUANINE (OXOG) LESION IN EC5- TITLE 2 LOOP DELETION COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 EC: 4.2.99.18; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*AP*GP*GP*TP*AP*GP*AP*CP*CP*CP*GP*GP*AP*CP*GP*C)- COMPND 9 3'); COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*TP*GP*CP*GP*TP*CP*CP*GP*(8OG) COMPND 14 P*GP*TP*CP*TP*AP*CP*C)-3'); COMPND 15 CHAIN: C; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 3 ORGANISM_COMMON: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 4 ORGANISM_TAXID: 1422; SOURCE 5 GENE: MUTM; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET24B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES KEYWDS DNA GLYCOSYLASE, DNA REPAIR, DAMAGE SEARCH, BASE EXTRUSION, DISULFIDE KEYWDS 2 CROSSLINKING, DNA DAMAGE, DNA-BINDING, GLYCOSIDASE, HYDROLASE, KEYWDS 3 LYASE, METAL-BINDING, MULTIFUNCTIONAL ENZYME, ZINC-FINGER, LYASE-DNA KEYWDS 4 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.BANERJEE,Y.QI,G.L.VERDINE REVDAT 6 21-FEB-24 3GQ3 1 REMARK REVDAT 5 20-OCT-21 3GQ3 1 REMARK SEQADV LINK REVDAT 4 01-NOV-17 3GQ3 1 REMARK REVDAT 3 13-JUL-11 3GQ3 1 VERSN REVDAT 2 02-FEB-10 3GQ3 1 JRNL REVDAT 1 10-NOV-09 3GQ3 0 JRNL AUTH Y.QI,M.C.SPONG,K.NAM,A.BANERJEE,S.JIRALERSPONG,M.KARPLUS, JRNL AUTH 2 G.L.VERDINE JRNL TITL ENCOUNTER AND EXTRUSION OF AN INTRAHELICAL LESION BY A DNA JRNL TITL 2 REPAIR ENZYME. JRNL REF NATURE V. 462 762 2009 JRNL REFN ISSN 0028-0836 JRNL PMID 20010681 JRNL DOI 10.1038/NATURE08561 REMARK 2 REMARK 2 RESOLUTION. 1.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0066 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 37193 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 + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1861 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.83 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1806 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2110 REMARK 3 BIN FREE R VALUE SET COUNT : 86 REMARK 3 BIN FREE R VALUE : 0.2690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1959 REMARK 3 NUCLEIC ACID ATOMS : 552 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 266 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.116 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.111 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.071 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2641 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3690 ; 1.494 ; 2.244 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 252 ; 5.717 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 90 ;26.909 ;21.222 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 345 ;14.219 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;17.246 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 46 REMARK 3 ORIGIN FOR THE GROUP (A): 18.7350 -15.5670 9.1280 REMARK 3 T TENSOR REMARK 3 T11: 0.0049 T22: 0.0123 REMARK 3 T33: -0.1112 T12: 0.0013 REMARK 3 T13: -0.0091 T23: -0.0144 REMARK 3 L TENSOR REMARK 3 L11: 0.8052 L22: 0.7610 REMARK 3 L33: 0.9499 L12: -0.0407 REMARK 3 L13: 0.0498 L23: 0.2616 REMARK 3 S TENSOR REMARK 3 S11: -0.0460 S12: -0.1281 S13: 0.0227 REMARK 3 S21: -0.0359 S22: 0.0045 S23: -0.0327 REMARK 3 S31: 0.0093 S32: 0.0009 S33: 0.0415 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 47 A 74 REMARK 3 ORIGIN FOR THE GROUP (A): 15.6110 -10.9050 4.2310 REMARK 3 T TENSOR REMARK 3 T11: 0.0513 T22: -0.0034 REMARK 3 T33: -0.0971 T12: 0.0086 REMARK 3 T13: -0.0208 T23: -0.0213 REMARK 3 L TENSOR REMARK 3 L11: 1.1797 L22: 1.1846 REMARK 3 L33: 0.4405 L12: -0.7854 REMARK 3 L13: -0.5735 L23: 0.4957 REMARK 3 S TENSOR REMARK 3 S11: 0.0475 S12: 0.0089 S13: 0.1365 REMARK 3 S21: -0.0429 S22: -0.0606 S23: -0.1281 REMARK 3 S31: -0.0418 S32: -0.0802 S33: 0.0130 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 75 A 88 REMARK 3 ORIGIN FOR THE GROUP (A): 25.7380 -14.9060 15.1210 REMARK 3 T TENSOR REMARK 3 T11: 0.0223 T22: 0.0892 REMARK 3 T33: -0.1469 T12: -0.0018 REMARK 3 T13: 0.0038 T23: -0.0447 REMARK 3 L TENSOR REMARK 3 L11: 2.8510 L22: 1.4667 REMARK 3 L33: 1.6141 L12: -2.0318 REMARK 3 L13: -1.5679 L23: 1.2363 REMARK 3 S TENSOR REMARK 3 S11: -0.0075 S12: -0.2891 S13: 0.1198 REMARK 3 S21: 0.0325 S22: 0.0725 S23: -0.1636 REMARK 3 S31: -0.0372 S32: 0.1030 S33: -0.0651 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 89 A 125 REMARK 3 ORIGIN FOR THE GROUP (A): 20.1780 -17.8500 11.7290 REMARK 3 T TENSOR REMARK 3 T11: 0.0402 T22: 0.0516 REMARK 3 T33: -0.1285 T12: 0.0163 REMARK 3 T13: 0.0087 T23: -0.0091 REMARK 3 L TENSOR REMARK 3 L11: 0.4530 L22: 0.3213 REMARK 3 L33: 0.2609 L12: -0.2747 REMARK 3 L13: -0.2747 L23: 0.1581 REMARK 3 S TENSOR REMARK 3 S11: -0.0342 S12: -0.1035 S13: 0.0411 REMARK 3 S21: -0.0097 S22: 0.0373 S23: -0.0247 REMARK 3 S31: -0.0010 S32: 0.0292 S33: -0.0031 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 126 A 134 REMARK 3 ORIGIN FOR THE GROUP (A): 3.3180 -7.8670 8.1590 REMARK 3 T TENSOR REMARK 3 T11: -0.0422 T22: 0.0252 REMARK 3 T33: -0.0881 T12: 0.0450 REMARK 3 T13: -0.0406 T23: -0.1212 REMARK 3 L TENSOR REMARK 3 L11: 12.3239 L22: 15.1717 REMARK 3 L33: 12.4954 L12: -0.2605 REMARK 3 L13: 6.7239 L23: 11.4281 REMARK 3 S TENSOR REMARK 3 S11: 0.2726 S12: -0.3376 S13: 0.5044 REMARK 3 S21: -0.3692 S22: -0.7765 S23: 0.5140 REMARK 3 S31: 0.1451 S32: -0.8039 S33: 0.5039 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 135 A 165 REMARK 3 ORIGIN FOR THE GROUP (A): 2.4000 6.6610 19.1280 REMARK 3 T TENSOR REMARK 3 T11: 0.0028 T22: 0.0372 REMARK 3 T33: -0.0741 T12: 0.1335 REMARK 3 T13: -0.1464 T23: -0.2167 REMARK 3 L TENSOR REMARK 3 L11: 0.0606 L22: 2.9346 REMARK 3 L33: 2.0666 L12: -0.4216 REMARK 3 L13: -0.3538 L23: 2.4627 REMARK 3 S TENSOR REMARK 3 S11: -0.0032 S12: 0.0513 S13: -0.2717 REMARK 3 S21: -0.4010 S22: -0.7510 S23: 0.4187 REMARK 3 S31: -0.2342 S32: -0.3664 S33: 0.7541 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 166 A 199 REMARK 3 ORIGIN FOR THE GROUP (A): 7.0540 8.5420 26.5070 REMARK 3 T TENSOR REMARK 3 T11: 0.0304 T22: 0.0160 REMARK 3 T33: -0.0961 T12: 0.0526 REMARK 3 T13: -0.0262 T23: -0.1086 REMARK 3 L TENSOR REMARK 3 L11: 0.4405 L22: 1.2659 REMARK 3 L33: 2.3657 L12: -0.0063 REMARK 3 L13: 0.1679 L23: 1.7046 REMARK 3 S TENSOR REMARK 3 S11: 0.0131 S12: -0.0245 S13: -0.0554 REMARK 3 S21: -0.1169 S22: -0.2133 S23: 0.0720 REMARK 3 S31: -0.1099 S32: -0.0589 S33: 0.2002 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 200 A 214 REMARK 3 ORIGIN FOR THE GROUP (A): 12.1240 12.9610 20.7520 REMARK 3 T TENSOR REMARK 3 T11: 0.1203 T22: -0.0422 REMARK 3 T33: -0.1632 T12: 0.0175 REMARK 3 T13: -0.0211 T23: -0.0289 REMARK 3 L TENSOR REMARK 3 L11: 9.5437 L22: 7.7788 REMARK 3 L33: 6.9540 L12: -6.5614 REMARK 3 L13: -1.8296 L23: 5.4575 REMARK 3 S TENSOR REMARK 3 S11: 0.0967 S12: 0.0194 S13: 0.2554 REMARK 3 S21: -0.7368 S22: -0.0716 S23: -0.0971 REMARK 3 S31: -0.7975 S32: 0.4654 S33: -0.0251 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 238 A 274 REMARK 3 ORIGIN FOR THE GROUP (A): 14.1560 7.6950 36.8830 REMARK 3 T TENSOR REMARK 3 T11: 0.0779 T22: -0.0067 REMARK 3 T33: -0.1409 T12: 0.0122 REMARK 3 T13: -0.0133 T23: -0.0729 REMARK 3 L TENSOR REMARK 3 L11: 0.5917 L22: 2.5387 REMARK 3 L33: 3.6766 L12: 0.8102 REMARK 3 L13: 1.3885 L23: 2.6745 REMARK 3 S TENSOR REMARK 3 S11: 0.2227 S12: 0.0599 S13: 0.1202 REMARK 3 S21: 0.3542 S22: -0.1311 S23: 0.0866 REMARK 3 S31: 0.3789 S32: 0.1166 S33: -0.0916 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 14 REMARK 3 RESIDUE RANGE : C 4 C 16 REMARK 3 ORIGIN FOR THE GROUP (A): 6.0070 -13.0360 29.4230 REMARK 3 T TENSOR REMARK 3 T11: 0.1038 T22: -0.0240 REMARK 3 T33: 0.0005 T12: 0.0687 REMARK 3 T13: 0.1120 T23: -0.0053 REMARK 3 L TENSOR REMARK 3 L11: 4.1297 L22: 3.3875 REMARK 3 L33: 1.3503 L12: -0.5405 REMARK 3 L13: -0.0140 L23: -0.8390 REMARK 3 S TENSOR REMARK 3 S11: -0.2649 S12: -0.3799 S13: -0.1830 REMARK 3 S21: 0.6091 S22: 0.3443 S23: 1.0176 REMARK 3 S31: -0.1925 S32: 0.0175 S33: -0.0793 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3GQ3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000052172. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38683 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.830 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.9380 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.34000 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: NULL REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8K, SODIUM CACODYLATE, GLYCEROL, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 22.54250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.91800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.20550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.91800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.54250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.20550 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: 4110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 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 VAL A 231 REMARK 465 MET A 232 REMARK 465 LYS A 233 REMARK 465 GLY A 234 REMARK 465 GLY A 235 REMARK 465 GLN A 236 REMARK 465 HIS A 237 REMARK 465 DG B 15 REMARK 465 DC B 16 REMARK 465 DT C 1 REMARK 465 DG C 2 REMARK 465 DC C 3 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 ARG A 38 NE CZ NH1 NH2 REMARK 470 LYS A 156 CG CD CE NZ REMARK 470 LYS A 198 CG CD CE NZ REMARK 470 HIS A 238 CG ND1 CD2 CE1 NE2 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 3 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DC B 9 O4' - C4' - C3' ANGL. DEV. = -3.1 DEGREES REMARK 500 DG B 12 C3' - C2' - C1' ANGL. DEV. = -4.8 DEGREES REMARK 500 DC B 14 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT C 11 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC C 15 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC C 16 O4' - C1' - N1 ANGL. DEV. = 2.9 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 LEU A 66 -161.68 -105.64 REMARK 500 ARG A 76 -132.21 44.10 REMARK 500 ASP A 110 111.11 -165.50 REMARK 500 VAL A 241 -37.41 -131.97 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 A 300 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 249 SG REMARK 620 2 CYS A 252 SG 109.7 REMARK 620 3 CYS A 269 SG 110.8 98.1 REMARK 620 4 CYS A 272 SG 110.4 110.0 117.1 REMARK 620 N 1 2 3 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 300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GPP RELATED DB: PDB REMARK 900 RELATED ID: 3GPU RELATED DB: PDB REMARK 900 RELATED ID: 3GPX RELATED DB: PDB REMARK 900 RELATED ID: 3GQY RELATED DB: PDB REMARK 900 RELATED ID: 3GQ4 RELATED DB: PDB REMARK 900 RELATED ID: 3GQ5 RELATED DB: PDB DBREF 3GQ3 A 2 274 UNP P84131 P84131_BACST 2 274 DBREF 3GQ3 B 1 16 PDB 3GQ3 3GQ3 1 16 DBREF 3GQ3 C 1 16 PDB 3GQ3 3GQ3 1 16 SEQADV 3GQ3 GLU A 3 UNP P84131 GLN 3 CONFLICT SEQADV 3GQ3 CYS A 166 UNP P84131 GLN 166 ENGINEERED MUTATION SEQADV 3GQ3 A UNP P84131 SER 220 DELETION SEQADV 3GQ3 A UNP P84131 THR 221 DELETION SEQADV 3GQ3 A UNP P84131 VAL 222 DELETION SEQADV 3GQ3 A UNP P84131 ARG 223 DELETION SEQADV 3GQ3 A UNP P84131 THR 224 DELETION SEQADV 3GQ3 A UNP P84131 TYR 225 DELETION SEQADV 3GQ3 A UNP P84131 VAL 226 DELETION SEQADV 3GQ3 A UNP P84131 ASN 227 DELETION SEQADV 3GQ3 A UNP P84131 THR 228 DELETION SEQADV 3GQ3 A UNP P84131 GLN 229 DELETION SEQADV 3GQ3 A UNP P84131 GLY 230 DELETION SEQADV 3GQ3 A UNP P84131 GLU 231 DELETION SEQADV 3GQ3 A UNP P84131 ALA 232 DELETION SEQADV 3GQ3 A UNP P84131 GLY 233 DELETION SEQADV 3GQ3 A UNP P84131 THR 234 DELETION SEQADV 3GQ3 A UNP P84131 PHE 235 DELETION SEQRES 1 A 257 PRO GLU LEU PRO GLU VAL GLU THR ILE ARG ARG THR LEU SEQRES 2 A 257 LEU PRO LEU ILE VAL GLY LYS THR ILE GLU ASP VAL ARG SEQRES 3 A 257 ILE PHE TRP PRO ASN ILE ILE ARG HIS PRO ARG ASP SER SEQRES 4 A 257 GLU ALA PHE ALA ALA ARG MET ILE GLY GLN THR VAL ARG SEQRES 5 A 257 GLY LEU GLU ARG ARG GLY LYS PHE LEU LYS PHE LEU LEU SEQRES 6 A 257 ASP ARG ASP ALA LEU ILE SER HIS LEU ARG MET GLU GLY SEQRES 7 A 257 ARG TYR ALA VAL ALA SER ALA LEU GLU PRO LEU GLU PRO SEQRES 8 A 257 HIS THR HIS VAL VAL PHE CYS PHE THR ASP GLY SER GLU SEQRES 9 A 257 LEU ARG TYR ARG ASP VAL ARG LYS PHE GLY THR MET HIS SEQRES 10 A 257 VAL TYR ALA LYS GLU GLU ALA ASP ARG ARG PRO PRO LEU SEQRES 11 A 257 ALA GLU LEU GLY PRO GLU PRO LEU SER PRO ALA PHE SER SEQRES 12 A 257 PRO ALA VAL LEU ALA GLU ARG ALA VAL LYS THR LYS ARG SEQRES 13 A 257 SER VAL LYS ALA LEU LEU LEU ASP CYS THR VAL VAL ALA SEQRES 14 A 257 GLY PHE GLY ASN ILE TYR VAL ASP GLU SER LEU PHE ARG SEQRES 15 A 257 ALA GLY ILE LEU PRO GLY ARG PRO ALA ALA SER LEU SER SEQRES 16 A 257 SER LYS GLU ILE GLU ARG LEU HIS GLU GLU MET VAL ALA SEQRES 17 A 257 THR ILE GLY GLU ALA VAL MET LYS GLY GLY GLN HIS HIS SEQRES 18 A 257 LEU TYR VAL TYR GLY ARG GLN GLY ASN PRO CYS LYS ARG SEQRES 19 A 257 CYS GLY THR PRO ILE GLU LYS THR VAL VAL ALA GLY ARG SEQRES 20 A 257 GLY THR HIS TYR CYS PRO ARG CYS GLN ARG SEQRES 1 B 16 DA DG DG DT DA DG DA DC DC DC DG DG DA SEQRES 2 B 16 DC DG DC SEQRES 1 C 16 DT DG DC DG DT DC DC DG 8OG DG DT DC DT SEQRES 2 C 16 DA DC DC MODRES 3GQ3 8OG C 9 DG HET 8OG C 9 23 HET ZN A 300 1 HETNAM 8OG 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETNAM ZN ZINC ION HETSYN 8OG 8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE FORMUL 3 8OG C10 H14 N5 O8 P FORMUL 4 ZN ZN 2+ FORMUL 5 HOH *266(H2 O) HELIX 1 1 GLU A 3 VAL A 19 1 17 HELIX 2 2 TRP A 30 ASN A 32 5 3 HELIX 3 3 ASP A 39 ILE A 48 1 10 HELIX 4 4 GLU A 123 ARG A 128 5 6 HELIX 5 5 SER A 144 LYS A 154 1 11 HELIX 6 6 SER A 158 LEU A 164 1 7 HELIX 7 7 GLY A 173 GLY A 185 1 13 HELIX 8 8 PRO A 191 LEU A 195 5 5 HELIX 9 9 SER A 196 ALA A 214 1 19 SHEET 1 A 4 ILE A 23 ILE A 28 0 SHEET 2 A 4 THR A 94 PHE A 100 -1 O CYS A 99 N GLU A 24 SHEET 3 A 4 SER A 104 ARG A 109 -1 O LEU A 106 N PHE A 98 SHEET 4 A 4 ARG A 80 SER A 85 -1 N ALA A 82 O ARG A 107 SHEET 1 B 5 ILE A 34 HIS A 36 0 SHEET 2 B 5 THR A 116 ALA A 121 1 O MET A 117 N ARG A 35 SHEET 3 B 5 ASP A 69 HIS A 74 -1 N ILE A 72 O HIS A 118 SHEET 4 B 5 PHE A 61 LEU A 65 -1 N PHE A 64 O LEU A 71 SHEET 5 B 5 GLY A 54 ARG A 58 -1 N GLU A 56 O LYS A 63 SHEET 1 C 2 GLU A 257 VAL A 261 0 SHEET 2 C 2 ARG A 264 TYR A 268 -1 O TYR A 268 N GLU A 257 LINK O3' DG C 8 P 8OG C 9 1555 1555 1.62 LINK O3' 8OG C 9 P DG C 10 1555 1555 1.60 LINK SG CYS A 249 ZN ZN A 300 1555 1555 2.32 LINK SG CYS A 252 ZN ZN A 300 1555 1555 2.34 LINK SG CYS A 269 ZN ZN A 300 1555 1555 2.25 LINK SG CYS A 272 ZN ZN A 300 1555 1555 2.34 CISPEP 1 HIS A 36 PRO A 37 0 -10.91 CISPEP 2 PRO A 129 PRO A 130 0 2.78 SITE 1 AC1 4 CYS A 249 CYS A 252 CYS A 269 CYS A 272 CRYST1 45.085 92.411 105.836 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 0.022180 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010821 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009449 0.00000