HEADER HYDROLASE/RNA 21-JUN-05 2A1R TITLE CRYSTAL STRUCTURE OF PARN NUCLEASE DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(*AP*AP*A)-3'; COMPND 3 CHAIN: C, D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: POLY(A)-SPECIFIC RIBONUCLEASE PARN; COMPND 7 CHAIN: A, B; COMPND 8 FRAGMENT: PARN(1-430); COMPND 9 SYNONYM: POLYADENYLATE-SPECIFIC RIBONUCLEASE, DEADENYLATING NUCLEASE, COMPND 10 DEADENYLATION NUCLEASE, PARN; COMPND 11 EC: 3.1.13.4; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 5 ORGANISM_COMMON: HUMAN; SOURCE 6 ORGANISM_TAXID: 9606; SOURCE 7 GENE: PARN; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL-21 STAR; SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS PARN, DEDD, NUCLEASE DOMAIN, HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.WU,H.SONG REVDAT 5 13-NOV-24 2A1R 1 REMARK REVDAT 4 11-OCT-17 2A1R 1 REMARK REVDAT 3 13-JUL-11 2A1R 1 VERSN REVDAT 2 24-FEB-09 2A1R 1 VERSN REVDAT 1 20-DEC-05 2A1R 0 JRNL AUTH M.WU,M.REUTER,H.LILIE,Y.LIU,E.WAHLE,H.SONG JRNL TITL STRUCTURAL INSIGHT INTO POLY(A) BINDING AND CATALYTIC JRNL TITL 2 MECHANISM OF HUMAN PARN JRNL REF EMBO J. V. 24 4082 2005 JRNL REFN ISSN 0261-4189 JRNL PMID 16281054 JRNL DOI 10.1038/SJ.EMBOJ.7600869 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 31218 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1610 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2079 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3060 REMARK 3 BIN FREE R VALUE SET COUNT : 97 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4799 REMARK 3 NUCLEIC ACID ATOMS : 126 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 153 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 56.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.98000 REMARK 3 B22 (A**2) : -5.57000 REMARK 3 B33 (A**2) : 1.58000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.402 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.255 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.204 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.795 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5104 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4396 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6902 ; 1.292 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10320 ; 0.794 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 588 ; 5.546 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 732 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5526 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1060 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1174 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5126 ; 0.232 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2760 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 149 ; 0.170 ; 0.200 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): 11 ; 0.201 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 42 ; 0.257 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.121 ; 0.200 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): 2987 ; 1.054 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4824 ; 1.997 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2117 ; 1.772 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2078 ; 3.144 ; 4.500 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 5 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 40 REMARK 3 RESIDUE RANGE : A 46 A 143 REMARK 3 RESIDUE RANGE : A 257 A 369 REMARK 3 RESIDUE RANGE : A 375 A 423 REMARK 3 RESIDUE RANGE : C 501 C 503 REMARK 3 ORIGIN FOR THE GROUP (A): 56.1045 52.7727 20.4356 REMARK 3 T TENSOR REMARK 3 T11: 0.0713 T22: 0.1014 REMARK 3 T33: 0.1111 T12: 0.0552 REMARK 3 T13: 0.0333 T23: -0.0407 REMARK 3 L TENSOR REMARK 3 L11: 0.5417 L22: 1.4404 REMARK 3 L33: 0.4579 L12: -0.0491 REMARK 3 L13: -0.0109 L23: -0.2061 REMARK 3 S TENSOR REMARK 3 S11: 0.0163 S12: -0.0383 S13: 0.1364 REMARK 3 S21: -0.0615 S22: -0.0006 S23: -0.1312 REMARK 3 S31: 0.0144 S32: 0.0909 S33: -0.0157 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 5 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 40 REMARK 3 RESIDUE RANGE : B 50 B 143 REMARK 3 RESIDUE RANGE : B 261 B 369 REMARK 3 RESIDUE RANGE : B 375 B 423 REMARK 3 RESIDUE RANGE : D 601 D 603 REMARK 3 ORIGIN FOR THE GROUP (A): 37.2725 14.3121 17.7321 REMARK 3 T TENSOR REMARK 3 T11: 0.0920 T22: 0.0873 REMARK 3 T33: 0.0429 T12: 0.0334 REMARK 3 T13: -0.0011 T23: 0.0119 REMARK 3 L TENSOR REMARK 3 L11: 0.6580 L22: 3.0675 REMARK 3 L33: 0.4520 L12: 0.5157 REMARK 3 L13: -0.1081 L23: -0.0335 REMARK 3 S TENSOR REMARK 3 S11: -0.0309 S12: 0.0519 S13: -0.0326 REMARK 3 S21: 0.0818 S22: 0.1174 S23: 0.1342 REMARK 3 S31: -0.0683 S32: -0.0957 S33: -0.0865 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2A1R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JUN-05. REMARK 100 THE DEPOSITION ID IS D_1000033383. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-OCT-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791, 0.9793, 0.9762 REMARK 200 MONOCHROMATOR : SILICON REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36318 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.64 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.45600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SNB REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, 0.2M AMMONIUM TARTRATE, PH REMARK 280 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 36.38900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 79.82100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.20050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 79.82100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.38900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.20050 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 300 REMARK: HOMODIMER IS THE FUNCTIONAL UNIT 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, A, B 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 SER A 41 REMARK 465 ALA A 42 REMARK 465 LEU A 43 REMARK 465 THR A 44 REMARK 465 ASN A 45 REMARK 465 GLU A 144 REMARK 465 GLN A 145 REMARK 465 TYR A 146 REMARK 465 ASP A 147 REMARK 465 GLU A 148 REMARK 465 LYS A 149 REMARK 465 ARG A 150 REMARK 465 SER A 151 REMARK 465 GLN A 152 REMARK 465 ALA A 153 REMARK 465 ASN A 154 REMARK 465 GLY A 155 REMARK 465 ALA A 156 REMARK 465 GLY A 157 REMARK 465 ALA A 158 REMARK 465 LEU A 159 REMARK 465 SER A 160 REMARK 465 TYR A 161 REMARK 465 VAL A 162 REMARK 465 SER A 163 REMARK 465 PRO A 164 REMARK 465 ASN A 165 REMARK 465 THR A 166 REMARK 465 SER A 167 REMARK 465 LYS A 168 REMARK 465 CYS A 169 REMARK 465 PRO A 170 REMARK 465 VAL A 171 REMARK 465 THR A 172 REMARK 465 ILE A 173 REMARK 465 PRO A 174 REMARK 465 GLU A 175 REMARK 465 ASP A 176 REMARK 465 GLN A 177 REMARK 465 LYS A 178 REMARK 465 LYS A 179 REMARK 465 PHE A 180 REMARK 465 ILE A 181 REMARK 465 ASP A 182 REMARK 465 GLN A 183 REMARK 465 VAL A 184 REMARK 465 VAL A 185 REMARK 465 GLU A 186 REMARK 465 LYS A 187 REMARK 465 ILE A 188 REMARK 465 GLU A 189 REMARK 465 ASP A 190 REMARK 465 LEU A 191 REMARK 465 LEU A 192 REMARK 465 GLN A 193 REMARK 465 SER A 194 REMARK 465 GLU A 195 REMARK 465 GLU A 196 REMARK 465 ASN A 197 REMARK 465 LYS A 198 REMARK 465 ASN A 199 REMARK 465 LEU A 200 REMARK 465 ASP A 201 REMARK 465 LEU A 202 REMARK 465 GLU A 203 REMARK 465 PRO A 204 REMARK 465 CYS A 205 REMARK 465 THR A 206 REMARK 465 GLY A 207 REMARK 465 PHE A 208 REMARK 465 GLN A 209 REMARK 465 ARG A 210 REMARK 465 LYS A 211 REMARK 465 LEU A 212 REMARK 465 ILE A 213 REMARK 465 TYR A 214 REMARK 465 GLN A 215 REMARK 465 THR A 216 REMARK 465 LEU A 217 REMARK 465 SER A 218 REMARK 465 TRP A 219 REMARK 465 LYS A 220 REMARK 465 TYR A 221 REMARK 465 PRO A 222 REMARK 465 LYS A 223 REMARK 465 GLY A 224 REMARK 465 ILE A 225 REMARK 465 HIS A 226 REMARK 465 VAL A 227 REMARK 465 GLU A 228 REMARK 465 THR A 229 REMARK 465 LEU A 230 REMARK 465 GLU A 231 REMARK 465 THR A 232 REMARK 465 GLU A 233 REMARK 465 LYS A 234 REMARK 465 LYS A 235 REMARK 465 GLU A 236 REMARK 465 ARG A 237 REMARK 465 TYR A 238 REMARK 465 ILE A 239 REMARK 465 VAL A 240 REMARK 465 ILE A 241 REMARK 465 SER A 242 REMARK 465 LYS A 243 REMARK 465 VAL A 244 REMARK 465 ASP A 245 REMARK 465 GLU A 246 REMARK 465 GLU A 247 REMARK 465 GLU A 248 REMARK 465 ARG A 249 REMARK 465 LYS A 250 REMARK 465 ARG A 251 REMARK 465 ARG A 252 REMARK 465 GLU A 253 REMARK 465 GLN A 254 REMARK 465 GLN A 255 REMARK 465 LYS A 256 REMARK 465 ASP A 370 REMARK 465 THR A 371 REMARK 465 ALA A 372 REMARK 465 SER A 373 REMARK 465 GLU A 374 REMARK 465 LEU A 424 REMARK 465 MET A 425 REMARK 465 ARG A 426 REMARK 465 VAL A 427 REMARK 465 MET A 428 REMARK 465 ASP A 429 REMARK 465 ILE A 430 REMARK 465 SER B 41 REMARK 465 ALA B 42 REMARK 465 LEU B 43 REMARK 465 THR B 44 REMARK 465 ASN B 45 REMARK 465 GLY B 46 REMARK 465 PHE B 47 REMARK 465 ASP B 48 REMARK 465 THR B 49 REMARK 465 GLU B 144 REMARK 465 GLN B 145 REMARK 465 TYR B 146 REMARK 465 ASP B 147 REMARK 465 GLU B 148 REMARK 465 LYS B 149 REMARK 465 ARG B 150 REMARK 465 SER B 151 REMARK 465 GLN B 152 REMARK 465 ALA B 153 REMARK 465 ASN B 154 REMARK 465 GLY B 155 REMARK 465 ALA B 156 REMARK 465 GLY B 157 REMARK 465 ALA B 158 REMARK 465 LEU B 159 REMARK 465 SER B 160 REMARK 465 TYR B 161 REMARK 465 VAL B 162 REMARK 465 SER B 163 REMARK 465 PRO B 164 REMARK 465 ASN B 165 REMARK 465 THR B 166 REMARK 465 SER B 167 REMARK 465 LYS B 168 REMARK 465 CYS B 169 REMARK 465 PRO B 170 REMARK 465 VAL B 171 REMARK 465 THR B 172 REMARK 465 ILE B 173 REMARK 465 PRO B 174 REMARK 465 GLU B 175 REMARK 465 ASP B 176 REMARK 465 GLN B 177 REMARK 465 LYS B 178 REMARK 465 LYS B 179 REMARK 465 PHE B 180 REMARK 465 ILE B 181 REMARK 465 ASP B 182 REMARK 465 GLN B 183 REMARK 465 VAL B 184 REMARK 465 VAL B 185 REMARK 465 GLU B 186 REMARK 465 LYS B 187 REMARK 465 ILE B 188 REMARK 465 GLU B 189 REMARK 465 ASP B 190 REMARK 465 LEU B 191 REMARK 465 LEU B 192 REMARK 465 GLN B 193 REMARK 465 SER B 194 REMARK 465 GLU B 195 REMARK 465 GLU B 196 REMARK 465 ASN B 197 REMARK 465 LYS B 198 REMARK 465 ASN B 199 REMARK 465 LEU B 200 REMARK 465 ASP B 201 REMARK 465 LEU B 202 REMARK 465 GLU B 203 REMARK 465 PRO B 204 REMARK 465 CYS B 205 REMARK 465 THR B 206 REMARK 465 GLY B 207 REMARK 465 PHE B 208 REMARK 465 GLN B 209 REMARK 465 ARG B 210 REMARK 465 LYS B 211 REMARK 465 LEU B 212 REMARK 465 ILE B 213 REMARK 465 TYR B 214 REMARK 465 GLN B 215 REMARK 465 THR B 216 REMARK 465 LEU B 217 REMARK 465 SER B 218 REMARK 465 TRP B 219 REMARK 465 LYS B 220 REMARK 465 TYR B 221 REMARK 465 PRO B 222 REMARK 465 LYS B 223 REMARK 465 GLY B 224 REMARK 465 ILE B 225 REMARK 465 HIS B 226 REMARK 465 VAL B 227 REMARK 465 GLU B 228 REMARK 465 THR B 229 REMARK 465 LEU B 230 REMARK 465 GLU B 231 REMARK 465 THR B 232 REMARK 465 GLU B 233 REMARK 465 LYS B 234 REMARK 465 LYS B 235 REMARK 465 GLU B 236 REMARK 465 ARG B 237 REMARK 465 TYR B 238 REMARK 465 ILE B 239 REMARK 465 VAL B 240 REMARK 465 ILE B 241 REMARK 465 SER B 242 REMARK 465 LYS B 243 REMARK 465 VAL B 244 REMARK 465 ASP B 245 REMARK 465 GLU B 246 REMARK 465 GLU B 247 REMARK 465 GLU B 248 REMARK 465 ARG B 249 REMARK 465 LYS B 250 REMARK 465 ARG B 251 REMARK 465 ARG B 252 REMARK 465 GLU B 253 REMARK 465 GLN B 254 REMARK 465 GLN B 255 REMARK 465 LYS B 256 REMARK 465 HIS B 257 REMARK 465 ALA B 258 REMARK 465 LYS B 259 REMARK 465 GLU B 260 REMARK 465 ASP B 370 REMARK 465 THR B 371 REMARK 465 ALA B 372 REMARK 465 SER B 373 REMARK 465 GLU B 374 REMARK 465 LEU B 424 REMARK 465 MET B 425 REMARK 465 ARG B 426 REMARK 465 VAL B 427 REMARK 465 MET B 428 REMARK 465 ASP B 429 REMARK 465 ILE B 430 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 A D 601 C3' - O3' - P ANGL. DEV. = 8.3 DEGREES REMARK 500 ASP A 28 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 36 CB - CG - OD2 ANGL. DEV. = 5.4 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 ILE A 4 -169.48 -112.85 REMARK 500 THR A 79 46.53 -89.91 REMARK 500 ASP A 80 -14.68 -175.44 REMARK 500 LEU A 142 37.72 -79.46 REMARK 500 LYS A 282 159.12 -42.42 REMARK 500 GLU A 378 140.55 179.98 REMARK 500 SER A 412 153.57 -49.57 REMARK 500 ASN A 420 53.39 34.49 REMARK 500 LYS A 421 -123.58 -102.93 REMARK 500 ILE B 34 -36.84 -147.67 REMARK 500 SER B 35 -76.21 -61.32 REMARK 500 ASP B 36 -58.38 79.24 REMARK 500 PRO B 38 174.93 -56.00 REMARK 500 SER B 39 -97.63 -90.79 REMARK 500 ASP B 80 -15.78 -159.43 REMARK 500 CYS B 302 144.90 -179.28 REMARK 500 GLU B 378 135.76 -173.54 REMARK 500 LEU B 422 24.73 -147.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER B 39 VAL B 40 -131.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2A1S RELATED DB: PDB REMARK 900 NATIVE PARN NUCLEASE DOMAIN DBREF 2A1R A 1 430 UNP O95453 PARN_HUMAN 1 430 DBREF 2A1R B 1 430 UNP O95453 PARN_HUMAN 1 430 DBREF 2A1R C 501 503 PDB 2A1R 2A1R 501 503 DBREF 2A1R D 601 603 PDB 2A1R 2A1R 601 603 SEQRES 1 C 3 A A A SEQRES 1 D 3 A A A SEQRES 1 A 430 MET GLU ILE ILE ARG SER ASN PHE LYS SER ASN LEU HIS SEQRES 2 A 430 LYS VAL TYR GLN ALA ILE GLU GLU ALA ASP PHE PHE ALA SEQRES 3 A 430 ILE ASP GLY GLU PHE SER GLY ILE SER ASP GLY PRO SER SEQRES 4 A 430 VAL SER ALA LEU THR ASN GLY PHE ASP THR PRO GLU GLU SEQRES 5 A 430 ARG TYR GLN LYS LEU LYS LYS HIS SER MET ASP PHE LEU SEQRES 6 A 430 LEU PHE GLN PHE GLY LEU CYS THR PHE LYS TYR ASP TYR SEQRES 7 A 430 THR ASP SER LYS TYR ILE THR LYS SER PHE ASN PHE TYR SEQRES 8 A 430 VAL PHE PRO LYS PRO PHE ASN ARG SER SER PRO ASP VAL SEQRES 9 A 430 LYS PHE VAL CYS GLN SER SER SER ILE ASP PHE LEU ALA SEQRES 10 A 430 SER GLN GLY PHE ASP PHE ASN LYS VAL PHE ARG ASN GLY SEQRES 11 A 430 ILE PRO TYR LEU ASN GLN GLU GLU GLU ARG GLN LEU ARG SEQRES 12 A 430 GLU GLN TYR ASP GLU LYS ARG SER GLN ALA ASN GLY ALA SEQRES 13 A 430 GLY ALA LEU SER TYR VAL SER PRO ASN THR SER LYS CYS SEQRES 14 A 430 PRO VAL THR ILE PRO GLU ASP GLN LYS LYS PHE ILE ASP SEQRES 15 A 430 GLN VAL VAL GLU LYS ILE GLU ASP LEU LEU GLN SER GLU SEQRES 16 A 430 GLU ASN LYS ASN LEU ASP LEU GLU PRO CYS THR GLY PHE SEQRES 17 A 430 GLN ARG LYS LEU ILE TYR GLN THR LEU SER TRP LYS TYR SEQRES 18 A 430 PRO LYS GLY ILE HIS VAL GLU THR LEU GLU THR GLU LYS SEQRES 19 A 430 LYS GLU ARG TYR ILE VAL ILE SER LYS VAL ASP GLU GLU SEQRES 20 A 430 GLU ARG LYS ARG ARG GLU GLN GLN LYS HIS ALA LYS GLU SEQRES 21 A 430 GLN GLU GLU LEU ASN ASP ALA VAL GLY PHE SER ARG VAL SEQRES 22 A 430 ILE HIS ALA ILE ALA ASN SER GLY LYS LEU VAL ILE GLY SEQRES 23 A 430 HIS ASN MET LEU LEU ASP VAL MET HIS THR VAL HIS GLN SEQRES 24 A 430 PHE TYR CYS PRO LEU PRO ALA ASP LEU SER GLU PHE LYS SEQRES 25 A 430 GLU MET THR THR CYS VAL PHE PRO ARG LEU LEU ASP THR SEQRES 26 A 430 LYS LEU MET ALA SER THR GLN PRO PHE LYS ASP ILE ILE SEQRES 27 A 430 ASN ASN THR SER LEU ALA GLU LEU GLU LYS ARG LEU LYS SEQRES 28 A 430 GLU THR PRO PHE ASN PRO PRO LYS VAL GLU SER ALA GLU SEQRES 29 A 430 GLY PHE PRO SER TYR ASP THR ALA SER GLU GLN LEU HIS SEQRES 30 A 430 GLU ALA GLY TYR ASP ALA TYR ILE THR GLY LEU CYS PHE SEQRES 31 A 430 ILE SER MET ALA ASN TYR LEU GLY SER PHE LEU SER PRO SEQRES 32 A 430 PRO LYS ILE HIS VAL SER ALA ARG SER LYS LEU ILE GLU SEQRES 33 A 430 PRO PHE PHE ASN LYS LEU PHE LEU MET ARG VAL MET ASP SEQRES 34 A 430 ILE SEQRES 1 B 430 MET GLU ILE ILE ARG SER ASN PHE LYS SER ASN LEU HIS SEQRES 2 B 430 LYS VAL TYR GLN ALA ILE GLU GLU ALA ASP PHE PHE ALA SEQRES 3 B 430 ILE ASP GLY GLU PHE SER GLY ILE SER ASP GLY PRO SER SEQRES 4 B 430 VAL SER ALA LEU THR ASN GLY PHE ASP THR PRO GLU GLU SEQRES 5 B 430 ARG TYR GLN LYS LEU LYS LYS HIS SER MET ASP PHE LEU SEQRES 6 B 430 LEU PHE GLN PHE GLY LEU CYS THR PHE LYS TYR ASP TYR SEQRES 7 B 430 THR ASP SER LYS TYR ILE THR LYS SER PHE ASN PHE TYR SEQRES 8 B 430 VAL PHE PRO LYS PRO PHE ASN ARG SER SER PRO ASP VAL SEQRES 9 B 430 LYS PHE VAL CYS GLN SER SER SER ILE ASP PHE LEU ALA SEQRES 10 B 430 SER GLN GLY PHE ASP PHE ASN LYS VAL PHE ARG ASN GLY SEQRES 11 B 430 ILE PRO TYR LEU ASN GLN GLU GLU GLU ARG GLN LEU ARG SEQRES 12 B 430 GLU GLN TYR ASP GLU LYS ARG SER GLN ALA ASN GLY ALA SEQRES 13 B 430 GLY ALA LEU SER TYR VAL SER PRO ASN THR SER LYS CYS SEQRES 14 B 430 PRO VAL THR ILE PRO GLU ASP GLN LYS LYS PHE ILE ASP SEQRES 15 B 430 GLN VAL VAL GLU LYS ILE GLU ASP LEU LEU GLN SER GLU SEQRES 16 B 430 GLU ASN LYS ASN LEU ASP LEU GLU PRO CYS THR GLY PHE SEQRES 17 B 430 GLN ARG LYS LEU ILE TYR GLN THR LEU SER TRP LYS TYR SEQRES 18 B 430 PRO LYS GLY ILE HIS VAL GLU THR LEU GLU THR GLU LYS SEQRES 19 B 430 LYS GLU ARG TYR ILE VAL ILE SER LYS VAL ASP GLU GLU SEQRES 20 B 430 GLU ARG LYS ARG ARG GLU GLN GLN LYS HIS ALA LYS GLU SEQRES 21 B 430 GLN GLU GLU LEU ASN ASP ALA VAL GLY PHE SER ARG VAL SEQRES 22 B 430 ILE HIS ALA ILE ALA ASN SER GLY LYS LEU VAL ILE GLY SEQRES 23 B 430 HIS ASN MET LEU LEU ASP VAL MET HIS THR VAL HIS GLN SEQRES 24 B 430 PHE TYR CYS PRO LEU PRO ALA ASP LEU SER GLU PHE LYS SEQRES 25 B 430 GLU MET THR THR CYS VAL PHE PRO ARG LEU LEU ASP THR SEQRES 26 B 430 LYS LEU MET ALA SER THR GLN PRO PHE LYS ASP ILE ILE SEQRES 27 B 430 ASN ASN THR SER LEU ALA GLU LEU GLU LYS ARG LEU LYS SEQRES 28 B 430 GLU THR PRO PHE ASN PRO PRO LYS VAL GLU SER ALA GLU SEQRES 29 B 430 GLY PHE PRO SER TYR ASP THR ALA SER GLU GLN LEU HIS SEQRES 30 B 430 GLU ALA GLY TYR ASP ALA TYR ILE THR GLY LEU CYS PHE SEQRES 31 B 430 ILE SER MET ALA ASN TYR LEU GLY SER PHE LEU SER PRO SEQRES 32 B 430 PRO LYS ILE HIS VAL SER ALA ARG SER LYS LEU ILE GLU SEQRES 33 B 430 PRO PHE PHE ASN LYS LEU PHE LEU MET ARG VAL MET ASP SEQRES 34 B 430 ILE FORMUL 5 HOH *153(H2 O) HELIX 1 1 ILE A 4 ALA A 22 1 19 HELIX 2 2 THR A 49 SER A 61 1 13 HELIX 3 3 SER A 110 GLN A 119 1 10 HELIX 4 4 ASP A 122 ARG A 128 1 7 HELIX 5 5 ASN A 135 LEU A 142 1 8 HELIX 6 6 LYS A 259 ASP A 266 1 8 HELIX 7 7 PHE A 270 GLY A 281 1 12 HELIX 8 8 MET A 289 TYR A 301 1 13 HELIX 9 9 ASP A 307 PHE A 319 1 13 HELIX 10 10 THR A 325 SER A 330 1 6 HELIX 11 11 SER A 342 LEU A 350 1 9 HELIX 12 12 GLU A 378 GLY A 398 1 21 HELIX 13 13 SER A 399 LEU A 401 5 3 HELIX 14 14 ILE A 415 PHE A 419 5 5 HELIX 15 15 ILE B 4 GLU B 21 1 18 HELIX 16 16 GLU B 52 SER B 61 1 10 HELIX 17 17 SER B 110 GLN B 119 1 10 HELIX 18 18 PHE B 123 ARG B 128 1 6 HELIX 19 19 ASN B 135 LEU B 142 1 8 HELIX 20 20 GLN B 261 ASP B 266 1 6 HELIX 21 21 PHE B 270 SER B 280 1 11 HELIX 22 22 MET B 289 TYR B 301 1 13 HELIX 23 23 ASP B 307 PHE B 319 1 13 HELIX 24 24 THR B 325 SER B 330 1 6 HELIX 25 25 SER B 342 LEU B 350 1 9 HELIX 26 26 GLU B 378 GLY B 398 1 21 HELIX 27 27 SER B 399 LEU B 401 5 3 HELIX 28 28 ILE B 415 PHE B 419 5 5 SHEET 1 A 6 GLU A 2 ILE A 3 0 SHEET 2 A 6 LYS A 82 TYR A 91 1 O ASN A 89 N ILE A 3 SHEET 3 A 6 LEU A 66 ASP A 77 -1 N LEU A 71 O PHE A 88 SHEET 4 A 6 PHE A 24 PHE A 31 -1 N ASP A 28 O GLY A 70 SHEET 5 A 6 LEU A 283 GLY A 286 1 O ILE A 285 N PHE A 25 SHEET 6 A 6 LEU A 322 ASP A 324 1 O LEU A 323 N GLY A 286 SHEET 1 B 3 GLU A 2 ILE A 3 0 SHEET 2 B 3 LYS A 82 TYR A 91 1 O ASN A 89 N ILE A 3 SHEET 3 B 3 VAL A 360 SER A 362 1 O GLU A 361 N THR A 85 SHEET 1 C 2 LYS A 105 GLN A 109 0 SHEET 2 C 2 LYS B 105 GLN B 109 -1 O PHE B 106 N CYS A 108 SHEET 1 D 6 GLU B 2 ILE B 3 0 SHEET 2 D 6 LYS B 82 TYR B 91 1 O ASN B 89 N ILE B 3 SHEET 3 D 6 LEU B 66 ASP B 77 -1 N LEU B 71 O PHE B 88 SHEET 4 D 6 PHE B 24 PHE B 31 -1 N ASP B 28 O GLY B 70 SHEET 5 D 6 LEU B 283 GLY B 286 1 O ILE B 285 N PHE B 25 SHEET 6 D 6 LEU B 322 ASP B 324 1 O LEU B 323 N GLY B 286 SHEET 1 E 3 GLU B 2 ILE B 3 0 SHEET 2 E 3 LYS B 82 TYR B 91 1 O ASN B 89 N ILE B 3 SHEET 3 E 3 VAL B 360 SER B 362 1 O GLU B 361 N THR B 85 SSBOND 1 CYS A 108 CYS B 108 1555 1555 2.22 CISPEP 1 GLN A 332 PRO A 333 0 -2.60 CISPEP 2 THR A 353 PRO A 354 0 9.80 CISPEP 3 SER A 402 PRO A 403 0 -1.95 CISPEP 4 GLN B 332 PRO B 333 0 5.19 CISPEP 5 THR B 353 PRO B 354 0 9.28 CISPEP 6 SER B 402 PRO B 403 0 -0.30 CRYST1 72.778 92.401 159.642 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 0.013740 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010822 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006264 0.00000