PDB Short entry for 3GPX HEADER LYASE/DNA 23-MAR-09 3GPX TITLE SEQUENCE-MATCHED MUTM INTERROGATION COMPLEX 4 (IC4) 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(*A*GP*GP*TP*AP*GP*AP*CP*TP*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*AP*GP*TP*CP*TP*AP*CP*C)- COMPND 14 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 M.C.SPONG,Y.QI,G.L.VERDINE REVDAT 6 21-FEB-24 3GPX 1 REMARK REVDAT 5 20-OCT-21 3GPX 1 REMARK SEQADV REVDAT 4 01-NOV-17 3GPX 1 REMARK REVDAT 3 13-JUL-11 3GPX 1 VERSN REVDAT 2 02-FEB-10 3GPX 1 JRNL REVDAT 1 10-NOV-09 3GPX 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. 1.78 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) : 1.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 41809 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2091 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) : 1.78 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2597 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.2160 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.2650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1958 REMARK 3 NUCLEIC ACID ATOMS : 489 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 256 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) : 30.61 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): 0.106 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.104 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.061 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 : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2571 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3583 ; 1.374 ; 2.220 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 254 ; 5.344 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 87 ;25.353 ;21.149 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 342 ;13.223 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;16.927 ;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 23 REMARK 3 ORIGIN FOR THE GROUP (A): 23.1956 -6.4760 8.5296 REMARK 3 T TENSOR REMARK 3 T11: -0.0354 T22: -0.0308 REMARK 3 T33: 0.0298 T12: -0.0365 REMARK 3 T13: -0.0112 T23: -0.0342 REMARK 3 L TENSOR REMARK 3 L11: 0.8026 L22: 3.2401 REMARK 3 L33: 2.9749 L12: -1.0979 REMARK 3 L13: -0.7707 L23: 2.3260 REMARK 3 S TENSOR REMARK 3 S11: -0.0293 S12: -0.0173 S13: 0.1873 REMARK 3 S21: -0.0273 S22: 0.0282 S23: -0.0910 REMARK 3 S31: -0.1464 S32: 0.1812 S33: 0.0011 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 24 A 47 REMARK 3 ORIGIN FOR THE GROUP (A): 13.7366 -24.2721 9.5174 REMARK 3 T TENSOR REMARK 3 T11: -0.0224 T22: 0.0089 REMARK 3 T33: -0.0026 T12: -0.0049 REMARK 3 T13: 0.0101 T23: -0.0047 REMARK 3 L TENSOR REMARK 3 L11: 0.9164 L22: 1.0037 REMARK 3 L33: 0.4278 L12: 0.4992 REMARK 3 L13: -0.0577 L23: 0.3317 REMARK 3 S TENSOR REMARK 3 S11: -0.0054 S12: -0.1194 S13: -0.1488 REMARK 3 S21: 0.0427 S22: -0.0935 S23: 0.0363 REMARK 3 S31: 0.1021 S32: -0.0318 S33: 0.0989 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 48 A 78 REMARK 3 ORIGIN FOR THE GROUP (A): 15.2370 -10.8266 6.7723 REMARK 3 T TENSOR REMARK 3 T11: -0.0055 T22: -0.0183 REMARK 3 T33: -0.0052 T12: 0.0168 REMARK 3 T13: -0.0035 T23: -0.0346 REMARK 3 L TENSOR REMARK 3 L11: 1.0080 L22: 0.9814 REMARK 3 L33: 0.8981 L12: -0.1473 REMARK 3 L13: -0.2128 L23: 0.8591 REMARK 3 S TENSOR REMARK 3 S11: -0.0152 S12: -0.0293 S13: 0.1119 REMARK 3 S21: -0.0200 S22: -0.0331 S23: 0.0593 REMARK 3 S31: -0.0545 S32: -0.0307 S33: 0.0483 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 79 A 112 REMARK 3 ORIGIN FOR THE GROUP (A): 26.0904 -19.4070 12.7616 REMARK 3 T TENSOR REMARK 3 T11: -0.0236 T22: 0.0521 REMARK 3 T33: -0.0302 T12: 0.0153 REMARK 3 T13: 0.0058 T23: -0.0295 REMARK 3 L TENSOR REMARK 3 L11: 0.8450 L22: 1.0429 REMARK 3 L33: 1.0203 L12: -0.2355 REMARK 3 L13: -0.7930 L23: -0.2985 REMARK 3 S TENSOR REMARK 3 S11: 0.0258 S12: -0.1456 S13: 0.0322 REMARK 3 S21: 0.0954 S22: 0.0905 S23: -0.0542 REMARK 3 S31: 0.0119 S32: 0.0884 S33: -0.1163 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 113 A 133 REMARK 3 ORIGIN FOR THE GROUP (A): 6.6689 -12.4743 8.4674 REMARK 3 T TENSOR REMARK 3 T11: -0.0348 T22: 0.0383 REMARK 3 T33: -0.0081 T12: 0.0124 REMARK 3 T13: 0.0078 T23: -0.0554 REMARK 3 L TENSOR REMARK 3 L11: 0.7284 L22: 1.4602 REMARK 3 L33: 1.0619 L12: 0.7051 REMARK 3 L13: 0.7447 L23: 1.2044 REMARK 3 S TENSOR REMARK 3 S11: 0.0301 S12: -0.1105 S13: 0.1672 REMARK 3 S21: -0.0460 S22: -0.2142 S23: 0.0997 REMARK 3 S31: 0.0635 S32: -0.0981 S33: 0.1841 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 134 A 152 REMARK 3 ORIGIN FOR THE GROUP (A): 4.3363 8.0794 14.0641 REMARK 3 T TENSOR REMARK 3 T11: 0.0336 T22: -0.0447 REMARK 3 T33: -0.0276 T12: 0.1082 REMARK 3 T13: -0.0887 T23: -0.1025 REMARK 3 L TENSOR REMARK 3 L11: 2.5012 L22: 1.1174 REMARK 3 L33: 1.4616 L12: -0.0017 REMARK 3 L13: 0.3067 L23: 1.2612 REMARK 3 S TENSOR REMARK 3 S11: -0.0708 S12: 0.2127 S13: -0.0204 REMARK 3 S21: -0.4135 S22: -0.2916 S23: 0.0478 REMARK 3 S31: -0.3049 S32: -0.2307 S33: 0.3624 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 153 A 200 REMARK 3 ORIGIN FOR THE GROUP (A): 5.2048 7.8818 25.7242 REMARK 3 T TENSOR REMARK 3 T11: -0.0203 T22: -0.0211 REMARK 3 T33: -0.0082 T12: 0.0159 REMARK 3 T13: -0.0224 T23: -0.1084 REMARK 3 L TENSOR REMARK 3 L11: 1.3273 L22: 0.8053 REMARK 3 L33: 2.4841 L12: -0.0715 REMARK 3 L13: 0.2255 L23: 1.3879 REMARK 3 S TENSOR REMARK 3 S11: 0.1230 S12: -0.0109 S13: -0.0501 REMARK 3 S21: 0.0490 S22: -0.2529 S23: 0.0583 REMARK 3 S31: 0.0809 S32: -0.1790 S33: 0.1299 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 201 A 216 REMARK 3 ORIGIN FOR THE GROUP (A): 13.8639 12.3889 19.5446 REMARK 3 T TENSOR REMARK 3 T11: 0.0450 T22: -0.0471 REMARK 3 T33: -0.0297 T12: 0.0182 REMARK 3 T13: 0.0136 T23: -0.0353 REMARK 3 L TENSOR REMARK 3 L11: 10.0127 L22: 5.3924 REMARK 3 L33: 0.9371 L12: -4.5754 REMARK 3 L13: -0.9822 L23: 2.1149 REMARK 3 S TENSOR REMARK 3 S11: 0.1963 S12: 0.1464 S13: 0.2242 REMARK 3 S21: -0.4208 S22: -0.1606 S23: -0.2287 REMARK 3 S31: -0.3850 S32: 0.0953 S33: -0.0357 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): 14.8926 7.8700 36.2364 REMARK 3 T TENSOR REMARK 3 T11: 0.0256 T22: -0.0331 REMARK 3 T33: -0.0420 T12: -0.0033 REMARK 3 T13: -0.0140 T23: -0.0614 REMARK 3 L TENSOR REMARK 3 L11: 1.8332 L22: 2.7093 REMARK 3 L33: 1.9439 L12: 1.1859 REMARK 3 L13: 1.1619 L23: 2.0880 REMARK 3 S TENSOR REMARK 3 S11: 0.1177 S12: 0.0323 S13: 0.0320 REMARK 3 S21: 0.2865 S22: -0.0468 S23: -0.0141 REMARK 3 S31: 0.2789 S32: 0.0887 S33: -0.0709 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 2 B 14 REMARK 3 RESIDUE RANGE : C 5 C 15 REMARK 3 ORIGIN FOR THE GROUP (A): 4.2540 -12.4892 28.0329 REMARK 3 T TENSOR REMARK 3 T11: 0.0045 T22: 0.0130 REMARK 3 T33: 0.0021 T12: 0.0064 REMARK 3 T13: 0.0500 T23: -0.0421 REMARK 3 L TENSOR REMARK 3 L11: 2.7399 L22: 2.4370 REMARK 3 L33: 0.2545 L12: -0.5499 REMARK 3 L13: -0.2783 L23: -0.1532 REMARK 3 S TENSOR REMARK 3 S11: -0.1385 S12: -0.2603 S13: -0.0880 REMARK 3 S21: 0.2372 S22: 0.1618 S23: 0.4895 REMARK 3 S31: 0.0263 S32: -0.0072 S33: -0.0233 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 3GPX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000052166. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-06 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 : NSLS REMARK 200 BEAMLINE : X25 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 : 43267 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 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 (%) : 99.2 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 26.1420 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.48500 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 (%): 56.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.86 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 22.59400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.32500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.77050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.32500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.59400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.77050 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: 3070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 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 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 DA B 1 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 465 DG C 4 REMARK 465 DC C 16 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 CD NE CZ NH1 NH2 REMARK 470 ARG A 80 NE CZ NH1 NH2 REMARK 470 GLU A 150 CG CD OE1 OE2 REMARK 470 LYS A 154 CD CE NZ REMARK 470 LYS A 156 CG CD CE NZ REMARK 470 MET A 216 CG SD CE REMARK 470 HIS A 238 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 274 CD NE CZ NH1 NH2 REMARK 470 DG B 2 P OP1 OP2 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 DC B 10 O5' - C5' - C4' ANGL. DEV. = -7.0 DEGREES REMARK 500 DG C 8 O5' - C5' - C4' ANGL. DEV. = -5.9 DEGREES REMARK 500 DG C 8 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG C 10 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC C 15 O4' - C1' - N1 ANGL. DEV. = 3.5 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 -161.23 -106.35 REMARK 500 ARG A 76 -134.85 48.26 REMARK 500 ASP A 110 100.77 -167.72 REMARK 500 GLU A 133 -4.83 80.43 REMARK 500 VAL A 241 -35.88 -130.25 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 111.4 REMARK 620 3 CYS A 269 SG 113.4 98.9 REMARK 620 4 CYS A 272 SG 108.1 110.8 114.2 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: 3GPY RELATED DB: PDB REMARK 900 RELATED ID: 3GQ3 RELATED DB: PDB REMARK 900 RELATED ID: 3GQ4 RELATED DB: PDB REMARK 900 RELATED ID: 3GQ5 RELATED DB: PDB DBREF 3GPX A 2 274 UNP P84131 P84131_BACST 2 274 DBREF 3GPX B 1 16 PDB 3GPX 3GPX 1 16 DBREF 3GPX C 1 16 PDB 3GPX 3GPX 1 16 SEQADV 3GPX GLU A 3 UNP P84131 GLN 3 CONFLICT SEQADV 3GPX CYS A 166 UNP P84131 GLN 166 ENGINEERED MUTATION SEQADV 3GPX A UNP P84131 SER 220 DELETION SEQADV 3GPX A UNP P84131 THR 221 DELETION SEQADV 3GPX A UNP P84131 VAL 222 DELETION SEQADV 3GPX A UNP P84131 ARG 223 DELETION SEQADV 3GPX A UNP P84131 THR 224 DELETION SEQADV 3GPX A UNP P84131 TYR 225 DELETION SEQADV 3GPX A UNP P84131 VAL 226 DELETION SEQADV 3GPX A UNP P84131 ASN 227 DELETION SEQADV 3GPX A UNP P84131 THR 228 DELETION SEQADV 3GPX A UNP P84131 GLN 229 DELETION SEQADV 3GPX A UNP P84131 GLY 230 DELETION SEQADV 3GPX A UNP P84131 GLU 231 DELETION SEQADV 3GPX A UNP P84131 ALA 232 DELETION SEQADV 3GPX A UNP P84131 GLY 233 DELETION SEQADV 3GPX A UNP P84131 THR 234 DELETION SEQADV 3GPX 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 DT DC DG DG DA SEQRES 2 B 16 DC DG DC SEQRES 1 C 16 DT DG DC DG DT DC DC DG DA DG DT DC DT SEQRES 2 C 16 DA DC DC HET ZN A 300 1 HETNAM ZN ZINC ION FORMUL 4 ZN ZN 2+ FORMUL 5 HOH *256(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 ASP A 165 1 8 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 MET A 216 1 21 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 SER A 104 N PHE A 100 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 LEU A 62 O SER A 73 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 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 2.33 LINK SG CYS A 272 ZN ZN A 300 1555 1555 2.30 CISPEP 1 HIS A 36 PRO A 37 0 -8.69 CISPEP 2 PRO A 129 PRO A 130 0 2.90 SITE 1 AC1 4 CYS A 249 CYS A 252 CYS A 269 CYS A 272 CRYST1 45.188 93.541 104.650 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 0.022130 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010691 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009556 0.00000