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 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,VAGIN,DODSON 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 SIDE-CHAIN BOND REFINED ATOMS (A**2): 640 ; 1.952 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 595 ; 3.251 ; 4.500 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 17-OCT-02. REMARK 100 THE RCSB ID CODE IS RCSB017343. 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 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 539 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH A 544 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A 545 DISTANCE = 9.18 ANGSTROMS REMARK 525 HOH A 546 DISTANCE = 6.63 ANGSTROMS REMARK 525 HOH A 551 DISTANCE = 7.69 ANGSTROMS REMARK 525 HOH A 554 DISTANCE = 8.26 ANGSTROMS REMARK 525 HOH A 556 DISTANCE = 8.57 ANGSTROMS REMARK 525 HOH A 579 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH A 582 DISTANCE = 6.46 ANGSTROMS REMARK 525 HOH A 585 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH A 598 DISTANCE = 6.96 ANGSTROMS REMARK 525 HOH A 601 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH A 621 DISTANCE = 5.67 ANGSTROMS REMARK 525 HOH A 625 DISTANCE = 7.07 ANGSTROMS REMARK 525 HOH A 629 DISTANCE = 7.70 ANGSTROMS REMARK 525 HOH A 634 DISTANCE = 8.84 ANGSTROMS 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 REMARK 900 FROM 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 MASTER 452 0 2 13 11 0 8 6 0 0 0 19 END