HEADER HYDROLASE 31-JUL-12 4GCY TITLE STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS DUTPASE H21W MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDOHYDROLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DUTPASE, DUTP PYROPHOSPHATASE; COMPND 5 EC: 3.6.1.23; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 GENE: DUT, RV2697C, MT2771, MTCY05A6.18C; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS JELLY-ROLL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.TOTH,B.G.VERTESSY,I.LEVELES,A.BENDES REVDAT 2 28-FEB-24 4GCY 1 REMARK SEQADV LINK REVDAT 1 03-JUL-13 4GCY 0 JRNL AUTH J.TOTH,B.G.VERTESSY,I.LEVELES,A.BENDES,A.LOPATA JRNL TITL RAMD IDENTIFICATION OF SUBSTRATE BINDING PATHWAYS TO THE JRNL TITL 2 ACTIVE SITE OF DUTPASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 21776 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) : 0.125 REMARK 3 R VALUE (WORKING SET) : 0.123 REMARK 3 FREE R VALUE : 0.158 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1186 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1598 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.59 REMARK 3 BIN R VALUE (WORKING SET) : 0.1830 REMARK 3 BIN FREE R VALUE SET COUNT : 94 REMARK 3 BIN FREE R VALUE : 0.2270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1151 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 156 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.07000 REMARK 3 B12 (A**2) : 0.02000 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): 0.074 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.062 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.472 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.982 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.973 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1284 ; 0.015 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1770 ; 1.555 ; 2.015 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 183 ; 5.850 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 42 ;32.140 ;22.857 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 186 ; 9.832 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;15.469 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 209 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 969 ; 0.008 ; 0.021 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): 852 ; 1.489 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1371 ; 2.417 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 432 ; 3.247 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 393 ; 4.796 ; 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): 1284 ; 1.550 ; 3.000 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 : 3 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 134 A 154 REMARK 3 ORIGIN FOR THE GROUP (A): 28.5162 -36.2830 -2.6879 REMARK 3 T TENSOR REMARK 3 T11: 0.0469 T22: 0.0473 REMARK 3 T33: 0.0591 T12: 0.0001 REMARK 3 T13: -0.0005 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 0.3078 L22: 0.1464 REMARK 3 L33: 0.3491 L12: -0.1317 REMARK 3 L13: 0.3626 L23: -0.0552 REMARK 3 S TENSOR REMARK 3 S11: 0.0208 S12: 0.0040 S13: -0.0391 REMARK 3 S21: 0.0154 S22: 0.0040 S23: 0.0152 REMARK 3 S31: 0.0273 S32: 0.0097 S33: -0.0248 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 -8 A 0 REMARK 3 ORIGIN FOR THE GROUP (A): 35.6931 0.6641 -26.3669 REMARK 3 T TENSOR REMARK 3 T11: 0.0605 T22: 0.0639 REMARK 3 T33: 0.0031 T12: 0.0149 REMARK 3 T13: -0.0144 T23: 0.0044 REMARK 3 L TENSOR REMARK 3 L11: -1.9859 L22: 8.1992 REMARK 3 L33: -1.0886 L12: 2.6387 REMARK 3 L13: 0.9748 L23: 0.1201 REMARK 3 S TENSOR REMARK 3 S11: 0.0988 S12: -0.0142 S13: -0.1341 REMARK 3 S21: 0.3549 S22: -0.0885 S23: -0.4030 REMARK 3 S31: -0.0458 S32: 0.0368 S33: -0.0103 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 1 A 133 REMARK 3 ORIGIN FOR THE GROUP (A): 25.6390 -5.6715 -1.9982 REMARK 3 T TENSOR REMARK 3 T11: 0.0491 T22: 0.0491 REMARK 3 T33: 0.0546 T12: 0.0008 REMARK 3 T13: -0.0005 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0138 L22: -0.0040 REMARK 3 L33: 0.0038 L12: -0.0021 REMARK 3 L13: 0.0009 L23: -0.0001 REMARK 3 S TENSOR REMARK 3 S11: -0.0002 S12: 0.0000 S13: -0.0006 REMARK 3 S21: -0.0012 S22: 0.0014 S23: -0.0018 REMARK 3 S31: -0.0003 S32: -0.0013 S33: -0.0013 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 4GCY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1000074026. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-SEP-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : CONFOCAL MIRRORS REMARK 200 OPTICS : BLUE CONFOCAL MAX-FLUX OPTICS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23022 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 27.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.57800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5M AMMONIUM SULPHATE, 0.1M TRIS/HCL, REMARK 280 10% GLYCEROL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 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 41.93000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 41.93000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 41.93000 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: 18070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -91.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 27.47000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -47.57944 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 54.94000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 N TRS A 202 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 363 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 391 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 407 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 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 -3 CG CD NE CZ NH1 NH2 REMARK 470 MET A 1 CG SD CE REMARK 470 ARG A 46 CZ NH1 NH2 REMARK 470 ARG A 70 NE CZ NH1 NH2 REMARK 470 ARG A 118 CZ NH1 NH2 REMARK 470 ASP A 131 CG OD1 OD2 REMARK 470 GLU A 132 CG CD OE1 OE2 REMARK 470 SER A 137 OG 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 C TRS A 202 C1 TRS A 202 3655 1.99 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 ALA A 100 -28.15 -141.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 TRS A 202 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 MG A 203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DUP A 201 O1A REMARK 620 2 DUP A 201 O1B 88.7 REMARK 620 3 DUP A 201 O2G 96.8 87.4 REMARK 620 4 HOH A 301 O 87.3 176.1 93.0 REMARK 620 5 HOH A 302 O 177.0 90.7 86.1 93.2 REMARK 620 6 HOH A 303 O 90.9 92.8 172.3 87.4 86.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DUP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 204 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2PY4 RELATED DB: PDB REMARK 900 WILD TYPE MT DUTPASE REMARK 900 RELATED ID: 3HZA RELATED DB: PDB REMARK 900 MT DUTPASE H145W DBREF 4GCY A 1 154 UNP P0A552 DUT_MYCTU 1 154 SEQADV 4GCY MET A -19 UNP P0A552 EXPRESSION TAG SEQADV 4GCY GLY A -18 UNP P0A552 EXPRESSION TAG SEQADV 4GCY SER A -17 UNP P0A552 EXPRESSION TAG SEQADV 4GCY SER A -16 UNP P0A552 EXPRESSION TAG SEQADV 4GCY HIS A -15 UNP P0A552 EXPRESSION TAG SEQADV 4GCY HIS A -14 UNP P0A552 EXPRESSION TAG SEQADV 4GCY HIS A -13 UNP P0A552 EXPRESSION TAG SEQADV 4GCY HIS A -12 UNP P0A552 EXPRESSION TAG SEQADV 4GCY HIS A -11 UNP P0A552 EXPRESSION TAG SEQADV 4GCY HIS A -10 UNP P0A552 EXPRESSION TAG SEQADV 4GCY SER A -9 UNP P0A552 EXPRESSION TAG SEQADV 4GCY SER A -8 UNP P0A552 EXPRESSION TAG SEQADV 4GCY GLY A -7 UNP P0A552 EXPRESSION TAG SEQADV 4GCY LEU A -6 UNP P0A552 EXPRESSION TAG SEQADV 4GCY VAL A -5 UNP P0A552 EXPRESSION TAG SEQADV 4GCY PRO A -4 UNP P0A552 EXPRESSION TAG SEQADV 4GCY ARG A -3 UNP P0A552 EXPRESSION TAG SEQADV 4GCY GLY A -2 UNP P0A552 EXPRESSION TAG SEQADV 4GCY SER A -1 UNP P0A552 EXPRESSION TAG SEQADV 4GCY HIS A 0 UNP P0A552 EXPRESSION TAG SEQADV 4GCY TRP A 21 UNP P0A552 HIS 21 ENGINEERED MUTATION SEQRES 1 A 174 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 174 LEU VAL PRO ARG GLY SER HIS MET SER THR THR LEU ALA SEQRES 3 A 174 ILE VAL ARG LEU ASP PRO GLY LEU PRO LEU PRO SER ARG SEQRES 4 A 174 ALA TRP ASP GLY ASP ALA GLY VAL ASP LEU TYR SER ALA SEQRES 5 A 174 GLU ASP VAL GLU LEU ALA PRO GLY ARG ARG ALA LEU VAL SEQRES 6 A 174 ARG THR GLY VAL ALA VAL ALA VAL PRO PHE GLY MET VAL SEQRES 7 A 174 GLY LEU VAL HIS PRO ARG SER GLY LEU ALA THR ARG VAL SEQRES 8 A 174 GLY LEU SER ILE VAL ASN SER PRO GLY THR ILE ASP ALA SEQRES 9 A 174 GLY TYR ARG GLY GLU ILE LYS VAL ALA LEU ILE ASN LEU SEQRES 10 A 174 ASP PRO ALA ALA PRO ILE VAL VAL HIS ARG GLY ASP ARG SEQRES 11 A 174 ILE ALA GLN LEU LEU VAL GLN ARG VAL GLU LEU VAL GLU SEQRES 12 A 174 LEU VAL GLU VAL SER SER PHE ASP GLU ALA GLY LEU ALA SEQRES 13 A 174 SER THR SER ARG GLY ASP GLY GLY HIS GLY SER SER GLY SEQRES 14 A 174 GLY HIS ALA SER LEU HET DUP A 201 28 HET TRS A 202 4 HET MG A 203 1 HET GOL A 204 6 HETNAM DUP 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETSYN TRS TRIS BUFFER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 DUP C9 H16 N3 O13 P3 FORMUL 3 TRS C4 H12 N O3 1+ FORMUL 4 MG MG 2+ FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *156(H2 O) HELIX 1 1 PRO A -4 HIS A 0 5 5 HELIX 2 2 ARG A 64 GLY A 72 1 9 SHEET 1 A 2 ALA A 6 ARG A 9 0 SHEET 2 A 2 VAL A 49 ALA A 52 -1 O ALA A 50 N VAL A 8 SHEET 1 B 4 VAL A 27 TYR A 30 0 SHEET 2 B 4 ARG A 110 ARG A 118 -1 O LEU A 114 N VAL A 27 SHEET 3 B 4 MET A 57 HIS A 62 -1 N LEU A 60 O LEU A 115 SHEET 4 B 4 GLY A 80 ILE A 82 -1 O ILE A 82 N GLY A 59 SHEET 1 C 2 VAL A 35 LEU A 37 0 SHEET 2 C 2 ILE A 103 VAL A 105 -1 O VAL A 105 N VAL A 35 SHEET 1 D 3 ARG A 42 ARG A 46 0 SHEET 2 D 3 LYS A 91 ASN A 96 -1 O VAL A 92 N VAL A 45 SHEET 3 D 3 LEU A 73 ILE A 75 -1 N SER A 74 O ILE A 95 LINK O1A DUP A 201 MG MG A 203 1555 1555 2.00 LINK O1B DUP A 201 MG MG A 203 1555 1555 2.05 LINK O2G DUP A 201 MG MG A 203 1555 1555 2.06 LINK MG MG A 203 O HOH A 301 1555 1555 2.16 LINK MG MG A 203 O HOH A 302 1555 1555 2.13 LINK MG MG A 203 O HOH A 303 1555 1555 2.07 CISPEP 1 SER A 78 PRO A 79 0 -4.63 SITE 1 AC1 27 ARG A 64 SER A 65 GLY A 66 ASN A 77 SITE 2 AC1 27 GLY A 80 THR A 81 ILE A 82 ASP A 83 SITE 3 AC1 27 TYR A 86 GLU A 89 ILE A 90 LYS A 91 SITE 4 AC1 27 GLN A 113 ARG A 140 GLY A 144 HIS A 145 SITE 5 AC1 27 GLY A 146 SER A 147 SER A 148 MG A 203 SITE 6 AC1 27 HOH A 301 HOH A 302 HOH A 303 HOH A 304 SITE 7 AC1 27 HOH A 309 HOH A 321 HOH A 333 SITE 1 AC2 4 SER A 74 ILE A 75 VAL A 76 HOH A 318 SITE 1 AC3 4 DUP A 201 HOH A 301 HOH A 302 HOH A 303 SITE 1 AC4 4 TYR A 30 ARG A 110 HOH A 388 HOH A 395 CRYST1 54.940 54.940 83.860 90.00 90.00 120.00 P 63 6 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 0.018202 0.010509 0.000000 0.00000 SCALE2 0.000000 0.021018 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011925 0.00000