HEADER TRANSFERASE 10-OCT-02 1MZV TITLE CRYSTAL STRUCTURE OF ADENINE PHOSPHORIBOSYLTRANSFERASE (APRT) FROM TITLE 2 LEISHMANIA TARENTOLAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENINE PHOSPHORIBOSYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.4.2.7; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA TARENTOLAE; SOURCE 3 ORGANISM_TAXID: 5689; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET29(+) KEYWDS ALPHA/BETA STRUCTURE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR O.H.THIEMANN,M.SILVA,G.OLIVA,C.H.T.P.SILVA,J.IULEK REVDAT 5 14-FEB-24 1MZV 1 REMARK REVDAT 4 13-JUL-11 1MZV 1 VERSN REVDAT 3 24-FEB-09 1MZV 1 VERSN REVDAT 2 27-JAN-04 1MZV 1 JRNL REMARK REVDAT 1 28-OCT-03 1MZV 0 JRNL AUTH M.SILVA,C.H.T.P.SILVA,J.IULEK,G.OLIVA,O.H.THIEMANN JRNL TITL CRYSTAL STRUCTURE OF ADENINE PHOSPHORIBOSYLTRANSFERASE FROM JRNL TITL 2 LEISHMANIA TARENTOLAE: POTENTIAL IMPLICATIONS FOR APRT JRNL TITL 3 CATALYTIC MECHANISM. JRNL REF BIOCHIM.BIOPHYS.ACTA V.1696 31 2004 JRNL REFN ISSN 0006-3002 JRNL PMID 14726202 JRNL DOI 10.1016/J.BBAPAP.2003.09.003 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.08 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 14724 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) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 789 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 986 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 58 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1650 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 233 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) : 24.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.01000 REMARK 3 B22 (A**2) : 2.01000 REMARK 3 B33 (A**2) : -3.02000 REMARK 3 B12 (A**2) : 1.01000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1710 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1598 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2317 ; 1.494 ; 2.001 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3708 ; 0.871 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 215 ; 6.619 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 67 ;31.990 ;22.985 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 293 ;16.767 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;11.577 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 264 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1871 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 337 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 375 ; 0.220 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1897 ; 0.250 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 951 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 177 ; 0.233 ; 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): 4 ; 0.174 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 61 ; 0.368 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 22 ; 0.274 ; 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): 1070 ; 0.653 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1722 ; 1.231 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 640 ; 1.952 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 595 ; 3.251 ; 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 : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 217 REMARK 3 RESIDUE RANGE : A 301 A 301 REMARK 3 RESIDUE RANGE : A 401 A 401 REMARK 3 RESIDUE RANGE : A 402 A 634 REMARK 3 ORIGIN FOR THE GROUP (A): 8.3269 31.2102 68.4210 REMARK 3 T TENSOR REMARK 3 T11: 0.1567 T22: 0.0033 REMARK 3 T33: 0.1514 T12: 0.0200 REMARK 3 T13: -0.1540 T23: -0.0197 REMARK 3 L TENSOR REMARK 3 L11: 1.9834 L22: 1.5704 REMARK 3 L33: 5.8951 L12: -0.2831 REMARK 3 L13: 2.4906 L23: 0.1629 REMARK 3 S TENSOR REMARK 3 S11: -0.2356 S12: 0.0148 S13: 0.1499 REMARK 3 S21: 0.1496 S22: 0.1159 S23: -0.1258 REMARK 3 S31: -0.3365 S32: 0.3358 S33: 0.1198 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 1MZV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-OCT-02. REMARK 100 THE DEPOSITION ID IS D_1000017343. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-AUG-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.3800 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE 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 : 15513 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 28.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1QB7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MOPS 100 MM, 22% ISOPROPANOL, PROTEIN REMARK 280 AT 8 MG/ML, PH 7.00, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 78.14667 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 156.29333 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 117.22000 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 195.36667 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 39.07333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 78.14667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 156.29333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 195.36667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 117.22000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 39.07333 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: THE BIOLOGICAL ASSEMBLY IS A DIMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE OPERATION: Y-X, Y, 1/2-Z 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 4980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 117.22000 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 1 REMARK 465 ASN A 218 REMARK 465 ASP A 219 REMARK 465 TYR A 220 REMARK 465 THR A 221 REMARK 465 GLY A 222 REMARK 465 PRO A 223 REMARK 465 ARG A 224 REMARK 465 VAL A 225 REMARK 465 LEU A 226 REMARK 465 SER A 227 REMARK 465 CYS A 228 REMARK 465 SER A 229 REMARK 465 ASP A 230 REMARK 465 LEU A 231 REMARK 465 LEU A 232 REMARK 465 VAL A 233 REMARK 465 ASN A 234 REMARK 465 GLN A 235 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 TYR A 121 CB CG CD1 CD2 CE1 CE2 CZ REMARK 470 TYR A 121 OH REMARK 470 LYS A 122 CB CG CD CE NZ REMARK 470 GLU A 123 CB CG CD OE1 OE2 REMARK 470 ALA A 124 CB REMARK 470 LEU A 217 CB CG CD1 CD2 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 577 O HOH A 600 1.91 REMARK 500 O HOH A 531 O HOH A 599 2.00 REMARK 500 O HOH A 573 O HOH A 620 2.03 REMARK 500 O HOH A 573 O HOH A 600 2.09 REMARK 500 O HOH A 598 O HOH A 621 2.12 REMARK 500 O HOH A 547 O HOH A 602 2.15 REMARK 500 O HOH A 576 O HOH A 609 2.17 REMARK 500 O HOH A 415 O HOH A 605 2.18 REMARK 500 O3' AMP A 301 O HOH A 589 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 585 O HOH A 629 11555 2.06 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 ASP A 44 CB - CG - OD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG A 82 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 82 NE - CZ - NH2 ANGL. DEV. = -5.2 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 TYR A 121 119.55 2.02 REMARK 500 LYS A 122 15.78 40.11 REMARK 500 GLU A 123 -159.13 -93.07 REMARK 500 ALA A 125 114.11 -10.50 REMARK 500 ALA A 150 -97.17 -109.91 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 PO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMP A 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QB7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF ADENINE PHOSPHORIBOSYLTRANSFERASE FROM REMARK 900 LEISHMANIA DONOVANI DBREF 1MZV A 1 235 UNP O77103 O77103_LEITA 1 235 SEQRES 1 A 235 MET SER LEU LYS GLU ILE GLY PRO ASN SER LEU LEU LEU SEQRES 2 A 235 GLU ASP SER HIS SER LEU SER GLN LEU LEU LYS LYS ASN SEQRES 3 A 235 TYR ARG TRP TYR SER PRO ILE PHE SER PRO ARG ASN VAL SEQRES 4 A 235 PRO ARG PHE ALA ASP VAL SER SER ILE THR GLU SER PRO SEQRES 5 A 235 GLU THR LEU LYS ALA ILE ARG ASP PHE LEU VAL GLU ARG SEQRES 6 A 235 TYR ARG THR MET SER PRO ALA PRO THR HIS ILE LEU GLY SEQRES 7 A 235 PHE ASP ALA ARG GLY PHE LEU PHE GLY PRO MET ILE ALA SEQRES 8 A 235 VAL GLU LEU GLY ILE PRO PHE VAL LEU MET ARG LYS ALA SEQRES 9 A 235 ASP LYS ASN ALA GLY LEU LEU ILE ARG SER GLU PRO TYR SEQRES 10 A 235 GLU LYS GLU TYR LYS GLU ALA ALA PRO GLU VAL MET THR SEQRES 11 A 235 ILE ARG HIS GLY SER ILE GLY LYS ASN SER ARG VAL VAL SEQRES 12 A 235 LEU ILE ASP ASP VAL LEU ALA THR GLY GLY THR ALA LEU SEQRES 13 A 235 SER GLY LEU GLN LEU VAL GLU ALA SER GLY ALA GLU VAL SEQRES 14 A 235 VAL GLU MET VAL SER ILE LEU THR ILE PRO PHE LEU LYS SEQRES 15 A 235 ALA ALA GLU ARG ILE HIS SER THR ALA GLY GLY ARG TYR SEQRES 16 A 235 LYS ASN VAL ARG PHE ILE GLY LEU LEU SER GLU ASP VAL SEQRES 17 A 235 LEU THR GLU ALA ASN CYS GLY ASP LEU ASN ASP TYR THR SEQRES 18 A 235 GLY PRO ARG VAL LEU SER CYS SER ASP LEU LEU VAL ASN SEQRES 19 A 235 GLN HET PO4 A 401 5 HET AMP A 301 23 HETNAM PO4 PHOSPHATE ION HETNAM AMP ADENOSINE MONOPHOSPHATE FORMUL 2 PO4 O4 P 3- FORMUL 3 AMP C10 H14 N5 O7 P FORMUL 4 HOH *233(H2 O) HELIX 1 1 HIS A 17 TYR A 27 1 11 HELIX 2 2 SER A 31 SER A 35 5 5 HELIX 3 3 VAL A 45 GLU A 50 1 6 HELIX 4 4 SER A 51 THR A 68 1 18 HELIX 5 5 ALA A 81 LEU A 85 5 5 HELIX 6 6 PHE A 86 GLY A 95 1 10 HELIX 7 7 LYS A 103 ASN A 107 5 5 HELIX 8 8 GLY A 152 SER A 165 1 14 HELIX 9 9 PRO A 179 LEU A 181 5 3 HELIX 10 10 LYS A 182 THR A 190 1 9 HELIX 11 11 ALA A 191 ARG A 194 5 4 HELIX 12 12 ASP A 207 LEU A 209 5 3 HELIX 13 13 THR A 210 CYS A 214 5 5 SHEET 1 A 7 LEU A 3 GLY A 7 0 SHEET 2 A 7 SER A 10 LEU A 13 -1 O LEU A 12 N LYS A 4 SHEET 3 A 7 PHE A 200 SER A 205 1 O PHE A 200 N LEU A 11 SHEET 4 A 7 GLU A 168 THR A 177 1 N MET A 172 O ILE A 201 SHEET 5 A 7 ARG A 141 LEU A 149 1 N LEU A 144 O VAL A 173 SHEET 6 A 7 HIS A 75 PHE A 79 1 N LEU A 77 O VAL A 143 SHEET 7 A 7 PHE A 98 MET A 101 1 O VAL A 99 N ILE A 76 SHEET 1 B 2 ARG A 28 TYR A 30 0 SHEET 2 B 2 PHE A 42 ASP A 44 -1 O ASP A 44 N ARG A 28 SHEET 1 C 2 LEU A 111 ARG A 113 0 SHEET 2 C 2 THR A 130 ARG A 132 -1 O ILE A 131 N ILE A 112 CISPEP 1 SER A 70 PRO A 71 0 -10.28 CISPEP 2 ASP A 80 ALA A 81 0 -2.43 SITE 1 AC1 9 ASP A 80 ALA A 81 ARG A 82 ARG A 102 SITE 2 AC1 9 LYS A 106 HOH A 461 HOH A 506 HOH A 571 SITE 3 AC1 9 HOH A 589 SITE 1 AC2 17 ARG A 37 ARG A 41 PHE A 42 ALA A 43 SITE 2 AC2 17 ARG A 82 ASP A 146 ASP A 147 VAL A 148 SITE 3 AC2 17 ALA A 150 THR A 151 GLY A 152 GLY A 153 SITE 4 AC2 17 THR A 154 HOH A 402 HOH A 403 HOH A 514 SITE 5 AC2 17 HOH A 589 CRYST1 64.538 64.538 234.440 90.00 90.00 120.00 P 61 2 2 12 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 0.015495 0.008946 0.000000 0.00000 SCALE2 0.000000 0.017892 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004265 0.00000