HEADER HYDROLASE/DNA 07-APR-15 4Z7B TITLE STRUCTURE OF THE ENZYME-PRODUCT COMPLEX RESULTING FROM TDG ACTION ON A TITLE 2 GFC MISMATCH COMPND MOL_ID: 1; COMPND 2 MOLECULE: G/T MISMATCH-SPECIFIC THYMINE DNA GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 111-308; COMPND 5 SYNONYM: THYMINE-DNA GLYCOSYLASE,HTDG; COMPND 6 EC: 3.2.2.29; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (28-MER); COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (28-MER); COMPND 14 CHAIN: D; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TDG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630 KEYWDS PROTEIN-DNA COMPLEX, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.POZHARSKI,S.S.MALIK,A.C.DROHAT REVDAT 6 27-SEP-23 4Z7B 1 REMARK REVDAT 5 25-DEC-19 4Z7B 1 REMARK REVDAT 4 13-SEP-17 4Z7B 1 JRNL REMARK REVDAT 3 11-NOV-15 4Z7B 1 JRNL REVDAT 2 30-SEP-15 4Z7B 1 JRNL REVDAT 1 16-SEP-15 4Z7B 0 JRNL AUTH S.S.MALIK,C.T.COEY,K.M.VARNEY,E.POZHARSKI,A.C.DROHAT JRNL TITL THYMINE DNA GLYCOSYLASE EXHIBITS NEGLIGIBLE AFFINITY FOR JRNL TITL 2 NUCLEOBASES THAT IT REMOVES FROM DNA. JRNL REF NUCLEIC ACIDS RES. V. 43 9541 2015 JRNL REFN ESSN 1362-4962 JRNL PMID 26358812 JRNL DOI 10.1093/NAR/GKV890 REMARK 2 REMARK 2 RESOLUTION. 2.02 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.02 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 26944 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.480 REMARK 3 FREE R VALUE TEST SET COUNT : 1206 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 14 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.02 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.10 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.68 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2746 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2373 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2640 REMARK 3 BIN R VALUE (WORKING SET) : 0.2359 REMARK 3 BIN FREE R VALUE : 0.2714 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 3.86 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 106 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 : 1516 REMARK 3 NUCLEIC ACID ATOMS : 1135 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 143 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.56 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -10.64040 REMARK 3 B22 (A**2) : 3.10580 REMARK 3 B33 (A**2) : 7.53460 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 6.89930 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.343 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.171 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.156 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.159 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.151 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2851 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4085 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 824 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 36 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 287 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2851 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 366 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3036 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.01 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.40 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 21.83 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|111 - A|125 } REMARK 3 ORIGIN FOR THE GROUP (A): 22.5642 -17.1508 30.5768 REMARK 3 T TENSOR REMARK 3 T11: 0.2920 T22: 0.1652 REMARK 3 T33: 0.0074 T12: 0.1430 REMARK 3 T13: -0.0049 T23: 0.0332 REMARK 3 L TENSOR REMARK 3 L11: 6.0448 L22: 5.9261 REMARK 3 L33: 13.4762 L12: -4.1653 REMARK 3 L13: 6.2920 L23: -8.4490 REMARK 3 S TENSOR REMARK 3 S11: 0.5764 S12: 0.4550 S13: -0.4762 REMARK 3 S21: -0.4217 S22: -0.8868 S23: -0.3211 REMARK 3 S31: 0.8015 S32: 1.6913 S33: 0.3104 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { A|126 - A|197 } REMARK 3 ORIGIN FOR THE GROUP (A): 8.3781 -6.8397 29.8784 REMARK 3 T TENSOR REMARK 3 T11: 0.0438 T22: -0.0647 REMARK 3 T33: -0.0820 T12: -0.0277 REMARK 3 T13: 0.0026 T23: -0.0161 REMARK 3 L TENSOR REMARK 3 L11: 1.8305 L22: 3.7101 REMARK 3 L33: 3.9004 L12: -0.8372 REMARK 3 L13: 0.1189 L23: -0.6038 REMARK 3 S TENSOR REMARK 3 S11: -0.0789 S12: -0.1606 S13: -0.0603 REMARK 3 S21: 0.2149 S22: -0.0437 S23: 0.3438 REMARK 3 S31: 0.1470 S32: -0.2143 S33: 0.1226 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { A|198 - A|208 } REMARK 3 ORIGIN FOR THE GROUP (A): 23.8169 -6.4120 17.6055 REMARK 3 T TENSOR REMARK 3 T11: 0.1424 T22: 0.2881 REMARK 3 T33: -0.0409 T12: -0.0124 REMARK 3 T13: 0.0422 T23: 0.1120 REMARK 3 L TENSOR REMARK 3 L11: 16.1102 L22: 8.0986 REMARK 3 L33: 0.9476 L12: 8.4412 REMARK 3 L13: 5.6588 L23: 3.6903 REMARK 3 S TENSOR REMARK 3 S11: 0.2018 S12: -0.2039 S13: -0.1301 REMARK 3 S21: -0.2122 S22: -0.5519 S23: -0.6304 REMARK 3 S31: 0.1928 S32: 0.6333 S33: 0.3501 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { A|209 - A|303 } REMARK 3 ORIGIN FOR THE GROUP (A): 6.4087 1.8788 18.4809 REMARK 3 T TENSOR REMARK 3 T11: 0.1972 T22: 0.0169 REMARK 3 T33: 0.0373 T12: 0.0125 REMARK 3 T13: -0.0905 T23: -0.0251 REMARK 3 L TENSOR REMARK 3 L11: 1.5606 L22: 3.9861 REMARK 3 L33: 3.4064 L12: -0.0369 REMARK 3 L13: 0.5441 L23: 0.2460 REMARK 3 S TENSOR REMARK 3 S11: -0.1936 S12: 0.1019 S13: 0.1112 REMARK 3 S21: -0.4779 S22: -0.0044 S23: 0.5945 REMARK 3 S31: -0.1886 S32: -0.2756 S33: 0.1981 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: { C|1 - C|17 } REMARK 3 ORIGIN FOR THE GROUP (A): 26.2393 8.5617 20.8644 REMARK 3 T TENSOR REMARK 3 T11: 0.2481 T22: 0.1883 REMARK 3 T33: -0.0854 T12: -0.1503 REMARK 3 T13: -0.0558 T23: 0.0827 REMARK 3 L TENSOR REMARK 3 L11: 3.3511 L22: 4.3084 REMARK 3 L33: 14.8260 L12: 0.4004 REMARK 3 L13: -3.3598 L23: -3.8198 REMARK 3 S TENSOR REMARK 3 S11: -0.0168 S12: 0.6300 S13: 0.2218 REMARK 3 S21: -0.9536 S22: 0.1244 S23: -0.3268 REMARK 3 S31: 0.3715 S32: -0.0075 S33: -0.1076 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: { C|18 - C|28 } REMARK 3 ORIGIN FOR THE GROUP (A): 32.8822 -5.6546 64.2107 REMARK 3 T TENSOR REMARK 3 T11: 0.6583 T22: 0.0583 REMARK 3 T33: 0.1009 T12: 0.0152 REMARK 3 T13: -0.1448 T23: 0.0152 REMARK 3 L TENSOR REMARK 3 L11: 2.2953 L22: 6.1874 REMARK 3 L33: 22.9387 L12: 0.3802 REMARK 3 L13: 0.4875 L23: -6.1021 REMARK 3 S TENSOR REMARK 3 S11: 0.5371 S12: -0.3181 S13: -0.1729 REMARK 3 S21: 1.2129 S22: 0.0358 S23: 0.0485 REMARK 3 S31: -0.9843 S32: -0.1992 S33: -0.5729 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: { D|1 - D|16 } REMARK 3 ORIGIN FOR THE GROUP (A): 32.2794 -3.1990 56.4884 REMARK 3 T TENSOR REMARK 3 T11: 0.2785 T22: -0.1917 REMARK 3 T33: -0.1325 T12: 0.0132 REMARK 3 T13: -0.1052 T23: 0.0127 REMARK 3 L TENSOR REMARK 3 L11: 2.3716 L22: 2.3475 REMARK 3 L33: 7.9274 L12: -0.0128 REMARK 3 L13: 1.0176 L23: -2.7645 REMARK 3 S TENSOR REMARK 3 S11: 0.3632 S12: 0.0133 S13: -0.0486 REMARK 3 S21: 0.9460 S22: 0.0727 S23: -0.0977 REMARK 3 S31: -0.6969 S32: 0.2353 S33: -0.4359 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: { D|18 - D|28 } REMARK 3 ORIGIN FOR THE GROUP (A): 27.3670 10.9622 9.6644 REMARK 3 T TENSOR REMARK 3 T11: 0.8599 T22: 0.4405 REMARK 3 T33: -0.0328 T12: -0.1654 REMARK 3 T13: 0.0471 T23: 0.2139 REMARK 3 L TENSOR REMARK 3 L11: 1.9874 L22: 3.4584 REMARK 3 L33: 20.0085 L12: 2.8034 REMARK 3 L13: -7.1643 L23: -5.7696 REMARK 3 S TENSOR REMARK 3 S11: 0.4428 S12: 0.4544 S13: 0.2995 REMARK 3 S21: -1.1885 S22: -0.1212 S23: 0.1198 REMARK 3 S31: -1.0481 S32: 1.2270 S33: -0.3216 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4Z7B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-APR-15. REMARK 100 THE DEPOSITION ID IS D_1000208744. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26946 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.020 REMARK 200 RESOLUTION RANGE LOW (A) : 38.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 18.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.02 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.8 REMARK 200 DATA REDUNDANCY IN SHELL : 15.50 REMARK 200 R MERGE FOR SHELL (I) : 0.06800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4FNC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 4000, 0.2M AMMONIUM ACETATE, REMARK 280 0.1M SODIUM ACETATE, PH 6.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 48.07500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.91000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 48.07500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.91000 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: 5210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 105 REMARK 465 SER A 106 REMARK 465 HIS A 107 REMARK 465 MET A 108 REMARK 465 ALA A 109 REMARK 465 SER A 110 REMARK 465 ARG A 304 REMARK 465 ASN A 305 REMARK 465 MET A 306 REMARK 465 ASP A 307 REMARK 465 VAL A 308 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 LYS A 184 CG CD CE NZ REMARK 470 LYS A 206 CG CD CE NZ REMARK 470 LYS A 246 CG CD CE NZ REMARK 470 LYS A 248 CG CD CE NZ REMARK 470 ASN A 249 CG OD1 ND2 REMARK 470 ILE A 302 CG1 CG2 CD1 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 DC D 8 O3' DC D 8 C3' -0.042 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 DC C 4 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC C 17 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC C 27 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DT C 28 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG D 23 O4' - C1' - N9 ANGL. DEV. = 1.8 DEGREES REMARK 500 DC D 26 O4' - C1' - N1 ANGL. DEV. = 2.2 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 C 17 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACY A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACY A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Poly-Saccharide residues DA D REMARK 800 16 through DG D 18 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Z3A RELATED DB: PDB REMARK 900 RELATED ID: 4Z47 RELATED DB: PDB REMARK 900 RELATED ID: 4Z7Z RELATED DB: PDB REMARK 900 RELATED ID: 4XEG RELATED DB: PDB REMARK 900 RELATED ID: 5CYS RELATED DB: PDB DBREF 4Z7B A 111 308 UNP Q13569 TDG_HUMAN 111 308 DBREF 4Z7B C 1 28 PDB 4Z7B 4Z7B 1 28 DBREF 4Z7B D 1 28 PDB 4Z7B 4Z7B 1 28 SEQADV 4Z7B GLY A 105 UNP Q13569 EXPRESSION TAG SEQADV 4Z7B SER A 106 UNP Q13569 EXPRESSION TAG SEQADV 4Z7B HIS A 107 UNP Q13569 EXPRESSION TAG SEQADV 4Z7B MET A 108 UNP Q13569 EXPRESSION TAG SEQADV 4Z7B ALA A 109 UNP Q13569 EXPRESSION TAG SEQADV 4Z7B SER A 110 UNP Q13569 EXPRESSION TAG SEQRES 1 A 204 GLY SER HIS MET ALA SER PHE ASN GLY VAL SER GLU ALA SEQRES 2 A 204 GLU LEU LEU THR LYS THR LEU PRO ASP ILE LEU THR PHE SEQRES 3 A 204 ASN LEU ASP ILE VAL ILE ILE GLY ILE ASN PRO GLY LEU SEQRES 4 A 204 MET ALA ALA TYR LYS GLY HIS HIS TYR PRO GLY PRO GLY SEQRES 5 A 204 ASN HIS PHE TRP LYS CYS LEU PHE MET SER GLY LEU SER SEQRES 6 A 204 GLU VAL GLN LEU ASN HIS MET ASP ASP HIS THR LEU PRO SEQRES 7 A 204 GLY LYS TYR GLY ILE GLY PHE THR ASN MET VAL GLU ARG SEQRES 8 A 204 THR THR PRO GLY SER LYS ASP LEU SER SER LYS GLU PHE SEQRES 9 A 204 ARG GLU GLY GLY ARG ILE LEU VAL GLN LYS LEU GLN LYS SEQRES 10 A 204 TYR GLN PRO ARG ILE ALA VAL PHE ASN GLY LYS CYS ILE SEQRES 11 A 204 TYR GLU ILE PHE SER LYS GLU VAL PHE GLY VAL LYS VAL SEQRES 12 A 204 LYS ASN LEU GLU PHE GLY LEU GLN PRO HIS LYS ILE PRO SEQRES 13 A 204 ASP THR GLU THR LEU CYS TYR VAL MET PRO SER SER SER SEQRES 14 A 204 ALA ARG CYS ALA GLN PHE PRO ARG ALA GLN ASP LYS VAL SEQRES 15 A 204 HIS TYR TYR ILE LYS LEU LYS ASP LEU ARG ASP GLN LEU SEQRES 16 A 204 LYS GLY ILE GLU ARG ASN MET ASP VAL SEQRES 1 C 28 DC DA DG DC DT DC DT DG DT DA DC DG DT SEQRES 2 C 28 DG DA DG DC DG DA DT DG DG DA DC DA DG SEQRES 3 C 28 DC DT SEQRES 1 D 28 DA DG DC DT DG DT DC DC DA DT DC DG DC SEQRES 2 D 28 DT DC DA ORP DG DT DA DC DA DG DA DG DC SEQRES 3 D 28 DT DG HET ORP D 17 12 HET EDO A 401 4 HET ACY A 402 4 HET ACY A 403 4 HETNAM ORP 2-DEOXY-5-PHOSPHONO-RIBOSE HETNAM EDO 1,2-ETHANEDIOL HETNAM ACY ACETIC ACID HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ORP C5 H11 O7 P FORMUL 4 EDO C2 H6 O2 FORMUL 5 ACY 2(C2 H4 O2) FORMUL 7 HOH *143(H2 O) HELIX 1 AA1 SER A 115 LEU A 120 1 6 HELIX 2 AA2 GLY A 142 GLY A 149 1 8 HELIX 3 AA3 HIS A 158 SER A 166 1 9 HELIX 4 AA4 ASN A 174 HIS A 179 5 6 HELIX 5 AA5 THR A 180 GLY A 186 1 7 HELIX 6 AA6 GLY A 199 LEU A 203 5 5 HELIX 7 AA7 SER A 204 GLN A 223 1 20 HELIX 8 AA8 GLY A 231 GLY A 244 1 14 HELIX 9 AA9 ARG A 281 ASP A 284 5 4 HELIX 10 AB1 LYS A 285 ILE A 302 1 18 SHEET 1 AA1 5 ILE A 187 ASN A 191 0 SHEET 2 AA1 5 ILE A 134 GLY A 138 1 N ILE A 136 O GLY A 188 SHEET 3 AA1 5 ILE A 226 ASN A 230 1 O VAL A 228 N VAL A 135 SHEET 4 AA1 5 LEU A 265 MET A 269 1 O LEU A 265 N ALA A 227 SHEET 5 AA1 5 GLY A 253 LEU A 254 -1 N GLY A 253 O VAL A 268 LINK O3' DA D 16 P ORP D 17 1555 1555 1.59 LINK O3 ORP D 17 P DG D 18 1555 1555 1.59 SITE 1 AC1 9 THR A 190 ASN A 191 MET A 192 GLU A 194 SITE 2 AC1 9 GLY A 211 ILE A 214 LEU A 215 LYS A 218 SITE 3 AC1 9 HOH A 535 SITE 1 AC2 8 ILE A 139 ASN A 140 TYR A 152 ASN A 191 SITE 2 AC2 8 HOH A 501 HOH A 505 HOH A 531 ORP D 17 SITE 1 AC3 3 GLN A 255 PRO A 256 LYS A 258 SITE 1 AC4 26 ILE A 139 ASN A 140 ASN A 157 GLY A 199 SITE 2 AC4 26 SER A 200 LYS A 201 SER A 271 SER A 273 SITE 3 AC4 26 ALA A 274 ARG A 275 CYS A 276 ALA A 277 SITE 4 AC4 26 GLN A 278 ACY A 402 HOH A 502 HOH A 557 SITE 5 AC4 26 DA C 10 DC C 11 DG C 12 DT C 13 SITE 6 AC4 26 DG C 14 DC D 15 DT D 19 HOH D 104 SITE 7 AC4 26 HOH D 122 HOH D 124 CRYST1 96.150 53.820 81.150 90.00 95.55 90.00 C 1 2 1 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 0.010400 0.000000 0.001011 0.00000 SCALE2 0.000000 0.018580 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012381 0.00000