HEADER HYDROLASE 14-OCT-04 1XRF TITLE THE CRYSTAL STRUCTURE OF A NOVEL, LATENT DIHYDROOROTASE FROM AQUIFEX TITLE 2 AEOLICUS AT 1.7 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DHOASE; COMPND 5 EC: 3.5.2.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 63363; SOURCE 4 GENE: PYRC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DIHYDROOROTASE, AMIDOHYDROLASE, METALLOENZYME, PYRIMIDINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.D.MARTIN,C.PURCAREA,P.ZHANG,A.VAISHNAV,S.SADECKI,H.I.GUY-EVANS, AUTHOR 2 D.R.EVANS,B.F.EDWARDS REVDAT 7 14-FEB-24 1XRF 1 REMARK SEQADV LINK REVDAT 6 11-OCT-17 1XRF 1 REMARK REVDAT 5 13-JUL-11 1XRF 1 VERSN REVDAT 4 24-FEB-09 1XRF 1 VERSN REVDAT 3 09-AUG-05 1XRF 1 JRNL REVDAT 2 19-JUL-05 1XRF 1 HEADER REVDAT 1 05-JUL-05 1XRF 0 JRNL AUTH P.D.MARTIN,C.PURCAREA,P.ZHANG,A.VAISHNAV,S.SADECKI, JRNL AUTH 2 H.I.GUY-EVANS,D.R.EVANS,B.F.EDWARDS JRNL TITL THE CRYSTAL STRUCTURE OF A NOVEL, LATENT DIHYDROOROTASE FROM JRNL TITL 2 AQUIFEX AEOLICUS AT 1.7A RESOLUTION JRNL REF J.MOL.BIOL. V. 348 535 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 15826652 JRNL DOI 10.1016/J.JMB.2005.03.015 REMARK 2 REMARK 2 RESOLUTION. 1.65 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.4 REMARK 3 NUMBER OF REFLECTIONS : 47187 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2527 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2549 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.4320 REMARK 3 BIN FREE R VALUE SET COUNT : 134 REMARK 3 BIN FREE R VALUE : 0.4730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2803 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 411 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) : 21.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.51000 REMARK 3 B22 (A**2) : -0.99000 REMARK 3 B33 (A**2) : 2.50000 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): 0.096 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.098 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.069 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.158 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2853 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2700 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3854 ; 1.858 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6322 ; 0.915 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 359 ; 6.040 ; 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): 454 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3073 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 500 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 605 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3252 ; 0.248 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1774 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 244 ; 0.244 ; 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): 15 ; 0.285 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 46 ; 0.309 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.446 ; 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): 1798 ; 1.402 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2922 ; 2.556 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1055 ; 3.927 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 932 ; 6.760 ; 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 : 1 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 0 A 1818 REMARK 3 ORIGIN FOR THE GROUP (A): 20.0830 26.9210 25.9660 REMARK 3 T TENSOR REMARK 3 T11: 0.1369 T22: 0.1230 REMARK 3 T33: 0.0029 T12: -0.0051 REMARK 3 T13: -0.0091 T23: 0.0170 REMARK 3 L TENSOR REMARK 3 L11: 0.5227 L22: 0.3612 REMARK 3 L33: 0.2200 L12: -0.1436 REMARK 3 L13: 0.1667 L23: -0.0164 REMARK 3 S TENSOR REMARK 3 S11: 0.0067 S12: -0.0429 S13: -0.0345 REMARK 3 S21: -0.0002 S22: -0.0174 S23: -0.0252 REMARK 3 S31: 0.0395 S32: -0.0164 S33: 0.0106 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 1XRF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-NOV-04. REMARK 100 THE DEPOSITION ID IS D_1000030678. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9587, 0.9806, 0.9808 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47187 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 18.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 83.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.87900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 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 (%): 51.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ETHANOL, PEG 400, ACETATE, PH 4.6, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 29.66800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 29.66800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 45.78950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 86.35750 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.78950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 86.35750 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 29.66800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.78950 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 86.35750 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 29.66800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.78950 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 86.35750 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1760 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1784 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -44 REMARK 465 ARG A -43 REMARK 465 PHE A -42 REMARK 465 TRP A -41 REMARK 465 GLN A -40 REMARK 465 TYR A -39 REMARK 465 ILE A -38 REMARK 465 ASN A -37 REMARK 465 GLY A -36 REMARK 465 VAL A -35 REMARK 465 ASP A -34 REMARK 465 MET A -33 REMARK 465 ARG A -32 REMARK 465 GLY A -31 REMARK 465 SER A -30 REMARK 465 HIS A -29 REMARK 465 HIS A -28 REMARK 465 HIS A -27 REMARK 465 HIS A -26 REMARK 465 HIS A -25 REMARK 465 HIS A -24 REMARK 465 GLY A -23 REMARK 465 MET A -22 REMARK 465 ALA A -21 REMARK 465 SER A -20 REMARK 465 MET A -19 REMARK 465 THR A -18 REMARK 465 GLY A -17 REMARK 465 GLY A -16 REMARK 465 GLN A -15 REMARK 465 GLN A -14 REMARK 465 MET A -13 REMARK 465 GLY A -12 REMARK 465 ARG A -11 REMARK 465 ASP A -10 REMARK 465 LEU A -9 REMARK 465 TYR A -8 REMARK 465 ASP A -7 REMARK 465 ASP A -6 REMARK 465 ASP A -5 REMARK 465 ASP A -4 REMARK 465 LYS A -3 REMARK 465 ASP A -2 REMARK 465 ARG A -1 REMARK 465 CYS A 181 REMARK 465 GLU A 182 REMARK 465 ASP A 183 REMARK 465 ASP A 184 REMARK 465 LYS A 185 REMARK 465 LEU A 186 REMARK 465 ALA A 187 REMARK 465 TYR A 188 REMARK 465 GLY A 189 REMARK 465 VAL A 190 REMARK 465 ILE A 191 REMARK 465 ASN A 192 REMARK 465 GLU A 193 REMARK 465 GLY A 194 REMARK 465 GLU A 195 REMARK 465 VAL A 196 REMARK 465 SER A 197 REMARK 465 ALA A 198 REMARK 465 LEU A 199 REMARK 465 LEU A 200 REMARK 465 GLY A 201 REMARK 465 LEU A 202 REMARK 465 SER A 203 REMARK 465 SER A 204 REMARK 465 ARG A 205 REMARK 465 ALA A 206 REMARK 465 PRO A 207 REMARK 465 GLU A 208 REMARK 465 PHE A 263 REMARK 465 THR A 264 REMARK 465 GLU A 265 REMARK 465 ARG A 266 REMARK 465 GLU A 267 REMARK 465 VAL A 268 REMARK 465 LEU A 269 REMARK 465 ASN A 270 REMARK 465 SER A 271 REMARK 465 GLY A 272 REMARK 465 ALA A 273 REMARK 465 ASN A 274 REMARK 465 ALA A 275 REMARK 465 ARG A 276 REMARK 465 VAL A 277 REMARK 465 ASN A 278 REMARK 465 PRO A 279 REMARK 465 PRO A 280 REMARK 465 LEU A 281 REMARK 465 ARG A 282 REMARK 465 LYS A 283 REMARK 465 LYS A 284 REMARK 465 GLU A 285 REMARK 465 PHE A 312 REMARK 465 GLU A 313 REMARK 465 LYS A 314 REMARK 465 GLU A 315 REMARK 465 LEU A 316 REMARK 465 VAL A 317 REMARK 465 GLU A 318 REMARK 465 PHE A 319 REMARK 465 ALA A 320 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 1662 O HOH A 1675 1.47 REMARK 500 OD2 ASP A 59 OG1 THR A 304 2.08 REMARK 500 NZ LYS A 408 O HOH A 1655 2.13 REMARK 500 NZ LYS A 7 OD2 ASP A 23 2.14 REMARK 500 O HOH A 1647 O HOH A 1671 2.15 REMARK 500 O HOH A 1723 O HOH A 1791 2.18 REMARK 500 N ALA A 209 O HOH A 1660 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1830 O HOH A 1830 4556 1.77 REMARK 500 O HOH A 1767 O HOH A 1767 3555 1.90 REMARK 500 REMARK 500 REMARK: NULL 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 LYS A 49 CE LYS A 49 NZ 0.163 REMARK 500 CYS A 81 CB CYS A 81 SG -0.137 REMARK 500 CYS A 92 CB CYS A 92 SG -0.097 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 LYS A 49 CD - CE - NZ ANGL. DEV. = 14.1 DEGREES REMARK 500 ASP A 59 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 74 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 120 NE - CZ - NH1 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 396 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ASP A 422 CB - CG - OD2 ANGL. DEV. = 6.9 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 ASN A 37 100.08 43.86 REMARK 500 ASN A 95 45.12 -87.25 REMARK 500 LEU A 118 -67.91 -125.94 REMARK 500 ASP A 153 126.63 -15.03 REMARK 500 THR A 353 -90.99 -130.58 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 A1423 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 61 NE2 REMARK 620 2 HIS A 63 NE2 109.4 REMARK 620 3 ASP A 153 OD2 86.8 113.7 REMARK 620 4 HOH A1425 O 103.3 107.2 131.5 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 1423 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1424 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XRT RELATED DB: PDB DBREF 1XRF A 1 422 UNP O66990 PYRC_AQUAE 1 422 SEQADV 1XRF MET A -44 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ARG A -43 UNP O66990 CLONING ARTIFACT SEQADV 1XRF PHE A -42 UNP O66990 CLONING ARTIFACT SEQADV 1XRF TRP A -41 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLN A -40 UNP O66990 CLONING ARTIFACT SEQADV 1XRF TYR A -39 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ILE A -38 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ASN A -37 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLY A -36 UNP O66990 CLONING ARTIFACT SEQADV 1XRF VAL A -35 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ASP A -34 UNP O66990 CLONING ARTIFACT SEQADV 1XRF MET A -33 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ARG A -32 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLY A -31 UNP O66990 CLONING ARTIFACT SEQADV 1XRF SER A -30 UNP O66990 CLONING ARTIFACT SEQADV 1XRF HIS A -29 UNP O66990 CLONING ARTIFACT SEQADV 1XRF HIS A -28 UNP O66990 CLONING ARTIFACT SEQADV 1XRF HIS A -27 UNP O66990 CLONING ARTIFACT SEQADV 1XRF HIS A -26 UNP O66990 CLONING ARTIFACT SEQADV 1XRF HIS A -25 UNP O66990 CLONING ARTIFACT SEQADV 1XRF HIS A -24 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLY A -23 UNP O66990 CLONING ARTIFACT SEQADV 1XRF MET A -22 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ALA A -21 UNP O66990 CLONING ARTIFACT SEQADV 1XRF SER A -20 UNP O66990 CLONING ARTIFACT SEQADV 1XRF MET A -19 UNP O66990 CLONING ARTIFACT SEQADV 1XRF THR A -18 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLY A -17 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLY A -16 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLN A -15 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLN A -14 UNP O66990 CLONING ARTIFACT SEQADV 1XRF MET A -13 UNP O66990 CLONING ARTIFACT SEQADV 1XRF GLY A -12 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ARG A -11 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ASP A -10 UNP O66990 CLONING ARTIFACT SEQADV 1XRF LEU A -9 UNP O66990 CLONING ARTIFACT SEQADV 1XRF TYR A -8 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ASP A -7 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ASP A -6 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ASP A -5 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ASP A -4 UNP O66990 CLONING ARTIFACT SEQADV 1XRF LYS A -3 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ASP A -2 UNP O66990 CLONING ARTIFACT SEQADV 1XRF ARG A -1 UNP O66990 CLONING ARTIFACT SEQADV 1XRF TRP A 0 UNP O66990 CLONING ARTIFACT SEQRES 1 A 467 MET ARG PHE TRP GLN TYR ILE ASN GLY VAL ASP MET ARG SEQRES 2 A 467 GLY SER HIS HIS HIS HIS HIS HIS GLY MET ALA SER MET SEQRES 3 A 467 THR GLY GLY GLN GLN MET GLY ARG ASP LEU TYR ASP ASP SEQRES 4 A 467 ASP ASP LYS ASP ARG TRP MET LEU LYS LEU ILE VAL LYS SEQRES 5 A 467 ASN GLY TYR VAL ILE ASP PRO SER GLN ASN LEU GLU GLY SEQRES 6 A 467 GLU PHE ASP ILE LEU VAL GLU ASN GLY LYS ILE LYS LYS SEQRES 7 A 467 ILE ASP LYS ASN ILE LEU VAL PRO GLU ALA GLU ILE ILE SEQRES 8 A 467 ASP ALA LYS GLY LEU ILE VAL CYS PRO GLY PHE ILE ASP SEQRES 9 A 467 ILE HIS VAL HIS LEU ARG ASP PRO GLY GLN THR TYR LYS SEQRES 10 A 467 GLU ASP ILE GLU SER GLY SER ARG CYS ALA VAL ALA GLY SEQRES 11 A 467 GLY PHE THR THR ILE VAL CYS MET PRO ASN THR ASN PRO SEQRES 12 A 467 PRO ILE ASP ASN THR THR VAL VAL ASN TYR ILE LEU GLN SEQRES 13 A 467 LYS SER LYS SER VAL GLY LEU CYS ARG VAL LEU PRO THR SEQRES 14 A 467 GLY THR ILE THR LYS GLY ARG LYS GLY LYS GLU ILE ALA SEQRES 15 A 467 ASP PHE TYR SER LEU LYS GLU ALA GLY CYS VAL ALA PHE SEQRES 16 A 467 THR ASP ASP GLY SER PRO VAL MET ASP SER SER VAL MET SEQRES 17 A 467 ARG LYS ALA LEU GLU LEU ALA SER GLN LEU GLY VAL PRO SEQRES 18 A 467 ILE MET ASP HIS CYS GLU ASP ASP LYS LEU ALA TYR GLY SEQRES 19 A 467 VAL ILE ASN GLU GLY GLU VAL SER ALA LEU LEU GLY LEU SEQRES 20 A 467 SER SER ARG ALA PRO GLU ALA GLU GLU ILE GLN ILE ALA SEQRES 21 A 467 ARG ASP GLY ILE LEU ALA GLN ARG THR GLY GLY HIS VAL SEQRES 22 A 467 HIS ILE GLN HIS VAL SER THR LYS LEU SER LEU GLU ILE SEQRES 23 A 467 ILE GLU PHE PHE LYS GLU LYS GLY VAL LYS ILE THR CYS SEQRES 24 A 467 GLU VAL ASN PRO ASN HIS LEU LEU PHE THR GLU ARG GLU SEQRES 25 A 467 VAL LEU ASN SER GLY ALA ASN ALA ARG VAL ASN PRO PRO SEQRES 26 A 467 LEU ARG LYS LYS GLU ASP ARG LEU ALA LEU ILE GLU GLY SEQRES 27 A 467 VAL LYS ARG GLY ILE ILE ASP CYS PHE ALA THR ASP HIS SEQRES 28 A 467 ALA PRO HIS GLN THR PHE GLU LYS GLU LEU VAL GLU PHE SEQRES 29 A 467 ALA MET PRO GLY ILE ILE GLY LEU GLN THR ALA LEU PRO SEQRES 30 A 467 SER ALA LEU GLU LEU TYR ARG LYS GLY ILE ILE SER LEU SEQRES 31 A 467 LYS LYS LEU ILE GLU MET PHE THR ILE ASN PRO ALA ARG SEQRES 32 A 467 ILE ILE GLY VAL ASP LEU GLY THR LEU LYS LEU GLY SER SEQRES 33 A 467 PRO ALA ASP ILE THR ILE PHE ASP PRO ASN LYS GLU TRP SEQRES 34 A 467 ILE LEU ASN GLU GLU THR ASN LEU SER LYS SER ARG ASN SEQRES 35 A 467 THR PRO LEU TRP GLY LYS VAL LEU LYS GLY LYS VAL ILE SEQRES 36 A 467 TYR THR ILE LYS ASP GLY LYS MET VAL TYR LYS ASP HET ZN A1423 1 HET SO4 A1424 5 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 2 ZN ZN 2+ FORMUL 3 SO4 O4 S 2- FORMUL 4 HOH *411(H2 O) HELIX 1 1 PRO A 14 ASN A 17 5 4 HELIX 2 2 ASP A 74 GLY A 85 1 12 HELIX 3 3 ASN A 102 GLY A 117 1 16 HELIX 4 4 THR A 128 LYS A 132 5 5 HELIX 5 5 ASP A 138 GLY A 146 1 9 HELIX 6 6 ASP A 159 GLY A 174 1 16 HELIX 7 7 ALA A 209 GLY A 225 1 17 HELIX 8 8 THR A 235 LYS A 248 1 14 HELIX 9 9 ASN A 257 LEU A 262 5 6 HELIX 10 10 ASP A 286 ARG A 296 1 11 HELIX 11 11 GLY A 326 GLN A 328 5 3 HELIX 12 12 THR A 329 LYS A 340 1 12 HELIX 13 13 SER A 344 THR A 353 1 10 HELIX 14 14 THR A 353 ILE A 360 1 8 SHEET 1 A 4 LYS A 30 ASP A 35 0 SHEET 2 A 4 ASP A 23 GLU A 27 -1 N ASP A 23 O ASP A 35 SHEET 3 A 4 LYS A 3 LYS A 7 -1 N LEU A 4 O VAL A 26 SHEET 4 A 4 ALA A 43 ASP A 47 1 O ILE A 46 N ILE A 5 SHEET 1 B 6 LEU A 18 GLU A 21 0 SHEET 2 B 6 TYR A 10 ASP A 13 -1 N ASP A 13 O LEU A 18 SHEET 3 B 6 ILE A 52 PRO A 55 1 O VAL A 53 N ILE A 12 SHEET 4 B 6 ILE A 375 ILE A 385 -1 O THR A 376 N CYS A 54 SHEET 5 B 6 VAL A 404 LYS A 414 -1 O LEU A 405 N TRP A 384 SHEET 6 B 6 LYS A 417 LYS A 421 -1 O VAL A 419 N THR A 412 SHEET 1 C 3 PHE A 57 VAL A 62 0 SHEET 2 C 3 PHE A 87 CYS A 92 1 O THR A 88 N PHE A 57 SHEET 3 C 3 ARG A 120 PRO A 123 1 O LEU A 122 N ILE A 90 SHEET 1 D 4 ILE A 177 ASP A 179 0 SHEET 2 D 4 VAL A 228 ILE A 230 1 O HIS A 229 N ILE A 177 SHEET 3 D 4 ILE A 252 VAL A 256 1 O THR A 253 N ILE A 230 SHEET 4 D 4 CYS A 301 PHE A 302 1 O CYS A 301 N VAL A 256 LINK NE2 HIS A 61 ZN ZN A1423 1555 1555 2.21 LINK NE2 HIS A 63 ZN ZN A1423 1555 1555 2.24 LINK OD2 ASP A 153 ZN ZN A1423 1555 1555 2.29 LINK ZN ZN A1423 O HOH A1425 1555 1555 2.61 CISPEP 1 ASP A 66 PRO A 67 0 8.48 CISPEP 2 ASN A 97 PRO A 98 0 -1.66 CISPEP 3 MET A 321 PRO A 322 0 -24.76 SITE 1 AC1 5 HIS A 61 HIS A 63 ASP A 153 ASP A 305 SITE 2 AC1 5 HOH A1425 SITE 1 AC2 7 LYS A 72 HIS A 309 GLN A 310 THR A 311 SITE 2 AC2 7 HOH A1564 HOH A1612 HOH A1731 CRYST1 91.579 172.715 59.336 90.00 90.00 90.00 C 2 2 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 0.010920 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005790 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016853 0.00000