HEADER TRANSFERASE 14-JAN-09 3FUC TITLE RECOMBINANT CALF PURINE NUCLEOSIDE PHOSPHORYLASE IN A BINARY COMPLEX TITLE 2 WITH MULTISUBSTRATE ANALOGUE INHIBITOR 9-(5',5'-DIFLUORO-5'- TITLE 3 PHOSPHONOPENTYL)-9-DEAZAGUANINE STRUCTURE IN A NEW SPACE GROUP WITH TITLE 4 ONE FULL TRIMER IN THE ASYMMETRIC UNIT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PURINE NUCLEOSIDE PHOSPHORYLASE; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: RESIDUES 1-284; COMPND 5 SYNONYM: PNP, INOSINE PHOSPHORYLASE; COMPND 6 EC: 2.4.2.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 GENE: NP, PNP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-28A+ KEYWDS PURINE NUCLEOSIDE PHOSPHORYLASE, RECOMBINANT, GLYCOSYLTRANSFERASE, KEYWDS 2 TRANSFERASE, 9-DEAZAGUANINE, MULTISUBSTRATE ANALOGUE INHIBITORS, KEYWDS 3 NUCLEOSIDE-BINDING, PHOSPHATE-BINDING, BINDING SITE, TRIMER EXPDTA X-RAY DIFFRACTION AUTHOR M.BOCHTLER,K.BREER,A.BZOWSKA,G.CHOJNOWSKI,M.HASHIMOTO,S.HIKISHIMA, AUTHOR 2 M.NARCZYK,B.WIELGUS-KUTROWSKA,T.YOKOMATSU REVDAT 5 01-NOV-23 3FUC 1 REMARK LINK REVDAT 4 01-NOV-17 3FUC 1 REMARK REVDAT 3 20-JUL-16 3FUC 1 FORMUL HET HETATM VERSN REVDAT 2 16-FEB-10 3FUC 1 JRNL REVDAT 1 08-DEC-09 3FUC 0 JRNL AUTH G.CHOJNOWSKI,K.BREER,M.NARCZYK,B.WIELGUS-KUTROWSKA, JRNL AUTH 2 H.CZAPINSKA,M.HASHIMOTO,S.HIKISHIMA,T.YOKOMATSU,M.BOCHTLER, JRNL AUTH 3 A.GIRSTUN,K.STARON,A.BZOWSKA JRNL TITL 1.45 A RESOLUTION CRYSTAL STRUCTURE OF RECOMBINANT PNP IN JRNL TITL 2 COMPLEX WITH A PM MULTISUBSTRATE ANALOGUE INHIBITOR BEARING JRNL TITL 3 ONE FEATURE OF THE POSTULATED TRANSITION STATE. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 391 703 2010 JRNL REFN ISSN 0006-291X JRNL PMID 19944078 JRNL DOI 10.1016/J.BBRC.2009.11.124 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0003 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 173360 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : THIN RESIOLUTION SHELLS REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 8787 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 12059 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.2150 REMARK 3 BIN FREE R VALUE SET COUNT : 676 REMARK 3 BIN FREE R VALUE : 0.2530 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6456 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 72 REMARK 3 SOLVENT ATOMS : 447 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.05000 REMARK 3 B22 (A**2) : -0.26000 REMARK 3 B33 (A**2) : 0.34000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.13000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.062 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.062 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 : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7112 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 6349 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9700 ; 1.386 ; 2.005 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14763 ; 3.683 ; 3.007 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 915 ; 5.847 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 343 ;37.674 ;23.965 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1189 ;13.148 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 54 ;17.384 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1017 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8229 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1502 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1333 ; 0.210 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 6192 ; 0.246 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3449 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 3402 ; 0.106 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 332 ; 0.103 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.004 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 4 ; 0.331 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 47 ; 0.270 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 11 ; 0.062 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 1 ; 0.007 ; 0.200 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): 4359 ; 0.782 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1787 ; 0.000 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7072 ; 1.369 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2753 ; 2.071 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2624 ; 3.264 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 3FUC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-JAN-09. REMARK 100 THE DEPOSITION ID IS D_1000051051. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-AUG-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0500 REMARK 200 MONOCHROMATOR : TRIANGULAR MONOCHROMATOR REMARK 200 OPTICS : BENT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 173360 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 10.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08200 REMARK 200 FOR THE DATA SET : 4.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.23600 REMARK 200 FOR SHELL : 3.000 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: PDB ENTRY 1LVU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 33% PEG 400, 0.1M SODIUM AZIDE, 0.1M REMARK 280 HEPES, 0.1M MAGNESIUM CHLORIDE, 1% OCTYL BETA-D-GLUCOPYRANOSIDE, REMARK 280 PH 7.7, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 67.89750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.12650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 67.89750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.12650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 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: 7230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 MG MG C 302 LIES ON A SPECIAL POSITION. REMARK 375 MG MG C 303 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 505 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 511 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 516 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 530 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 1 REMARK 465 GLN A 2 REMARK 465 GLU A 58 REMARK 465 SER A 59 REMARK 465 THR A 60 REMARK 465 VAL A 61 REMARK 465 PRO A 62 REMARK 465 GLY A 63 REMARK 465 HIS A 64 REMARK 465 ALA A 65 REMARK 465 MET B 1 REMARK 465 GLN B 2 REMARK 465 GLU B 58 REMARK 465 SER B 59 REMARK 465 THR B 60 REMARK 465 VAL B 61 REMARK 465 PRO B 62 REMARK 465 GLY B 63 REMARK 465 HIS B 64 REMARK 465 ALA B 65 REMARK 465 MET C 1 REMARK 465 GLN C 2 REMARK 465 GLU C 58 REMARK 465 SER C 59 REMARK 465 THR C 60 REMARK 465 VAL C 61 REMARK 465 PRO C 62 REMARK 465 GLY C 63 REMARK 465 HIS C 64 REMARK 465 ALA C 65 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 215 CB - CG - OD2 ANGL. DEV. = 5.8 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 55 -5.77 71.75 REMARK 500 THR A 221 -56.39 78.31 REMARK 500 ASN B 55 -7.58 74.61 REMARK 500 THR B 221 -53.75 77.46 REMARK 500 ASN C 55 -9.56 77.56 REMARK 500 THR C 221 -55.25 79.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 HOH C 516 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 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 186 OE2 REMARK 620 2 HOH A 425 O 92.7 REMARK 620 3 HOH A 503 O 100.9 102.2 REMARK 620 4 HOH A 549 O 89.7 96.7 157.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 9 OD1 REMARK 620 2 HOH C 407 O 91.3 REMARK 620 3 HOH C 511 O 91.2 86.0 REMARK 620 4 HOH C 530 O 88.3 94.1 179.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 186 OE2 REMARK 620 2 HOH C 504 O 93.0 REMARK 620 3 HOH C 505 O 88.8 84.9 REMARK 620 4 HOH C 516 O 87.3 94.7 176.0 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 9D9 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 9D9 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 9D9 C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AZI C 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1V48 RELATED DB: PDB REMARK 900 CALF SPLEEN PURINE NUCLEOSIDE PHOSPHORYLASE (PNP) BINARY COMPLEX REMARK 900 WITH 9-(5,5-DIFLUORO-5-PHOSPHONOPENTHYL)GUANINE REMARK 900 RELATED ID: 1LV8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CALF SPLEEN PURINE NUCLEOSIDE PHOSPHORYLASE IN REMARK 900 A NEW SPACE GROUP WITH FULL TRIMER IN THE ASYMMETRIC UNIT REMARK 900 RELATED ID: 1LVU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CALF SPLEEN PURINE NUCLEOSIDE PHOSPHORYLASE IN REMARK 900 A NEW SPACE GROUP WITH FULL TRIMER IN THE ASYMMETRIC UNIT REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE FEATURE OF UNIPROT (PNPH_BOVIN, P55859) SHOWS "CONFLICT" AT REMARK 999 THIS POSITION: A -> Q (IN REF. 1) DBREF 3FUC A 1 284 UNP P55859 PNPH_BOVIN 1 284 DBREF 3FUC B 1 284 UNP P55859 PNPH_BOVIN 1 284 DBREF 3FUC C 1 284 UNP P55859 PNPH_BOVIN 1 284 SEQADV 3FUC GLN A 2 UNP P55859 ALA 2 SEE REMARK 999 SEQADV 3FUC GLN B 2 UNP P55859 ALA 2 SEE REMARK 999 SEQADV 3FUC GLN C 2 UNP P55859 ALA 2 SEE REMARK 999 SEQRES 1 A 284 MET GLN ASN GLY TYR THR TYR GLU ASP TYR GLN ASP THR SEQRES 2 A 284 ALA LYS TRP LEU LEU SER HIS THR GLU GLN ARG PRO GLN SEQRES 3 A 284 VAL ALA VAL ILE CYS GLY SER GLY LEU GLY GLY LEU VAL SEQRES 4 A 284 ASN LYS LEU THR GLN ALA GLN THR PHE ASP TYR SER GLU SEQRES 5 A 284 ILE PRO ASN PHE PRO GLU SER THR VAL PRO GLY HIS ALA SEQRES 6 A 284 GLY ARG LEU VAL PHE GLY ILE LEU ASN GLY ARG ALA CYS SEQRES 7 A 284 VAL MET MET GLN GLY ARG PHE HIS MET TYR GLU GLY TYR SEQRES 8 A 284 PRO PHE TRP LYS VAL THR PHE PRO VAL ARG VAL PHE ARG SEQRES 9 A 284 LEU LEU GLY VAL GLU THR LEU VAL VAL THR ASN ALA ALA SEQRES 10 A 284 GLY GLY LEU ASN PRO ASN PHE GLU VAL GLY ASP ILE MET SEQRES 11 A 284 LEU ILE ARG ASP HIS ILE ASN LEU PRO GLY PHE SER GLY SEQRES 12 A 284 GLU ASN PRO LEU ARG GLY PRO ASN GLU GLU ARG PHE GLY SEQRES 13 A 284 VAL ARG PHE PRO ALA MET SER ASP ALA TYR ASP ARG ASP SEQRES 14 A 284 MET ARG GLN LYS ALA HIS SER THR TRP LYS GLN MET GLY SEQRES 15 A 284 GLU GLN ARG GLU LEU GLN GLU GLY THR TYR VAL MET LEU SEQRES 16 A 284 GLY GLY PRO ASN PHE GLU THR VAL ALA GLU CYS ARG LEU SEQRES 17 A 284 LEU ARG ASN LEU GLY ALA ASP ALA VAL GLY MET SER THR SEQRES 18 A 284 VAL PRO GLU VAL ILE VAL ALA ARG HIS CYS GLY LEU ARG SEQRES 19 A 284 VAL PHE GLY PHE SER LEU ILE THR ASN LYS VAL ILE MET SEQRES 20 A 284 ASP TYR GLU SER GLN GLY LYS ALA ASN HIS GLU GLU VAL SEQRES 21 A 284 LEU GLU ALA GLY LYS GLN ALA ALA GLN LYS LEU GLU GLN SEQRES 22 A 284 PHE VAL SER LEU LEU MET ALA SER ILE PRO VAL SEQRES 1 B 284 MET GLN ASN GLY TYR THR TYR GLU ASP TYR GLN ASP THR SEQRES 2 B 284 ALA LYS TRP LEU LEU SER HIS THR GLU GLN ARG PRO GLN SEQRES 3 B 284 VAL ALA VAL ILE CYS GLY SER GLY LEU GLY GLY LEU VAL SEQRES 4 B 284 ASN LYS LEU THR GLN ALA GLN THR PHE ASP TYR SER GLU SEQRES 5 B 284 ILE PRO ASN PHE PRO GLU SER THR VAL PRO GLY HIS ALA SEQRES 6 B 284 GLY ARG LEU VAL PHE GLY ILE LEU ASN GLY ARG ALA CYS SEQRES 7 B 284 VAL MET MET GLN GLY ARG PHE HIS MET TYR GLU GLY TYR SEQRES 8 B 284 PRO PHE TRP LYS VAL THR PHE PRO VAL ARG VAL PHE ARG SEQRES 9 B 284 LEU LEU GLY VAL GLU THR LEU VAL VAL THR ASN ALA ALA SEQRES 10 B 284 GLY GLY LEU ASN PRO ASN PHE GLU VAL GLY ASP ILE MET SEQRES 11 B 284 LEU ILE ARG ASP HIS ILE ASN LEU PRO GLY PHE SER GLY SEQRES 12 B 284 GLU ASN PRO LEU ARG GLY PRO ASN GLU GLU ARG PHE GLY SEQRES 13 B 284 VAL ARG PHE PRO ALA MET SER ASP ALA TYR ASP ARG ASP SEQRES 14 B 284 MET ARG GLN LYS ALA HIS SER THR TRP LYS GLN MET GLY SEQRES 15 B 284 GLU GLN ARG GLU LEU GLN GLU GLY THR TYR VAL MET LEU SEQRES 16 B 284 GLY GLY PRO ASN PHE GLU THR VAL ALA GLU CYS ARG LEU SEQRES 17 B 284 LEU ARG ASN LEU GLY ALA ASP ALA VAL GLY MET SER THR SEQRES 18 B 284 VAL PRO GLU VAL ILE VAL ALA ARG HIS CYS GLY LEU ARG SEQRES 19 B 284 VAL PHE GLY PHE SER LEU ILE THR ASN LYS VAL ILE MET SEQRES 20 B 284 ASP TYR GLU SER GLN GLY LYS ALA ASN HIS GLU GLU VAL SEQRES 21 B 284 LEU GLU ALA GLY LYS GLN ALA ALA GLN LYS LEU GLU GLN SEQRES 22 B 284 PHE VAL SER LEU LEU MET ALA SER ILE PRO VAL SEQRES 1 C 284 MET GLN ASN GLY TYR THR TYR GLU ASP TYR GLN ASP THR SEQRES 2 C 284 ALA LYS TRP LEU LEU SER HIS THR GLU GLN ARG PRO GLN SEQRES 3 C 284 VAL ALA VAL ILE CYS GLY SER GLY LEU GLY GLY LEU VAL SEQRES 4 C 284 ASN LYS LEU THR GLN ALA GLN THR PHE ASP TYR SER GLU SEQRES 5 C 284 ILE PRO ASN PHE PRO GLU SER THR VAL PRO GLY HIS ALA SEQRES 6 C 284 GLY ARG LEU VAL PHE GLY ILE LEU ASN GLY ARG ALA CYS SEQRES 7 C 284 VAL MET MET GLN GLY ARG PHE HIS MET TYR GLU GLY TYR SEQRES 8 C 284 PRO PHE TRP LYS VAL THR PHE PRO VAL ARG VAL PHE ARG SEQRES 9 C 284 LEU LEU GLY VAL GLU THR LEU VAL VAL THR ASN ALA ALA SEQRES 10 C 284 GLY GLY LEU ASN PRO ASN PHE GLU VAL GLY ASP ILE MET SEQRES 11 C 284 LEU ILE ARG ASP HIS ILE ASN LEU PRO GLY PHE SER GLY SEQRES 12 C 284 GLU ASN PRO LEU ARG GLY PRO ASN GLU GLU ARG PHE GLY SEQRES 13 C 284 VAL ARG PHE PRO ALA MET SER ASP ALA TYR ASP ARG ASP SEQRES 14 C 284 MET ARG GLN LYS ALA HIS SER THR TRP LYS GLN MET GLY SEQRES 15 C 284 GLU GLN ARG GLU LEU GLN GLU GLY THR TYR VAL MET LEU SEQRES 16 C 284 GLY GLY PRO ASN PHE GLU THR VAL ALA GLU CYS ARG LEU SEQRES 17 C 284 LEU ARG ASN LEU GLY ALA ASP ALA VAL GLY MET SER THR SEQRES 18 C 284 VAL PRO GLU VAL ILE VAL ALA ARG HIS CYS GLY LEU ARG SEQRES 19 C 284 VAL PHE GLY PHE SER LEU ILE THR ASN LYS VAL ILE MET SEQRES 20 C 284 ASP TYR GLU SER GLN GLY LYS ALA ASN HIS GLU GLU VAL SEQRES 21 C 284 LEU GLU ALA GLY LYS GLN ALA ALA GLN LYS LEU GLU GLN SEQRES 22 C 284 PHE VAL SER LEU LEU MET ALA SER ILE PRO VAL HET 9D9 A 301 22 HET MG A 302 1 HET 9D9 B 301 22 HET 9D9 C 301 22 HET MG C 302 1 HET MG C 303 1 HET AZI C 304 3 HETNAM 9D9 [5-(2-AMINO-4-OXO-4,5-DIHYDRO-3H-PYRROLO[3,2- HETNAM 2 9D9 D]PYRIMIDIN-7-YL)-1,1-DIFLUOROPENTYL]PHOSPHONIC ACID HETNAM MG MAGNESIUM ION HETNAM AZI AZIDE ION HETSYN 9D9 DFPP-DG FORMUL 4 9D9 3(C11 H15 F2 N4 O4 P) FORMUL 5 MG 3(MG 2+) FORMUL 10 AZI N3 1- FORMUL 11 HOH *447(H2 O) HELIX 1 1 THR A 6 THR A 21 1 16 HELIX 2 2 LEU A 35 LEU A 42 5 8 HELIX 3 3 SER A 51 ILE A 53 5 3 HELIX 4 4 HIS A 86 GLY A 90 5 5 HELIX 5 5 PRO A 92 THR A 97 1 6 HELIX 6 6 THR A 97 GLY A 107 1 11 HELIX 7 7 LEU A 138 SER A 142 1 5 HELIX 8 8 ASP A 167 GLY A 182 1 16 HELIX 9 9 THR A 202 LEU A 212 1 11 HELIX 10 10 THR A 221 CYS A 231 1 11 HELIX 11 11 ASN A 256 MET A 279 1 24 HELIX 12 12 ALA A 280 ILE A 282 5 3 HELIX 13 13 THR B 6 THR B 21 1 16 HELIX 14 14 LEU B 35 LEU B 42 5 8 HELIX 15 15 SER B 51 ILE B 53 5 3 HELIX 16 16 HIS B 86 GLY B 90 5 5 HELIX 17 17 PRO B 92 THR B 97 1 6 HELIX 18 18 THR B 97 GLY B 107 1 11 HELIX 19 19 LEU B 138 SER B 142 1 5 HELIX 20 20 ASP B 167 MET B 181 1 15 HELIX 21 21 THR B 202 LEU B 212 1 11 HELIX 22 22 THR B 221 CYS B 231 1 11 HELIX 23 23 ASN B 256 MET B 279 1 24 HELIX 24 24 ALA B 280 ILE B 282 5 3 HELIX 25 25 THR C 6 THR C 21 1 16 HELIX 26 26 LEU C 35 LEU C 42 5 8 HELIX 27 27 SER C 51 ILE C 53 5 3 HELIX 28 28 HIS C 86 GLY C 90 5 5 HELIX 29 29 PRO C 92 THR C 97 1 6 HELIX 30 30 THR C 97 GLY C 107 1 11 HELIX 31 31 LEU C 138 SER C 142 1 5 HELIX 32 32 ASP C 167 MET C 181 1 15 HELIX 33 33 THR C 202 LEU C 212 1 11 HELIX 34 34 THR C 221 CYS C 231 1 11 HELIX 35 35 ASN C 256 MET C 279 1 24 HELIX 36 36 ALA C 280 ILE C 282 5 3 SHEET 1 A10 THR A 43 ASP A 49 0 SHEET 2 A10 ARG A 67 LEU A 73 -1 O LEU A 68 N PHE A 48 SHEET 3 A10 ARG A 76 GLN A 82 -1 O CYS A 78 N GLY A 71 SHEET 4 A10 VAL A 27 CYS A 31 1 N VAL A 29 O MET A 81 SHEET 5 A10 THR A 110 GLY A 119 1 O VAL A 112 N ALA A 28 SHEET 6 A10 ARG A 234 LYS A 244 1 O ASN A 243 N GLY A 119 SHEET 7 A10 ILE A 129 ASN A 137 -1 N MET A 130 O SER A 239 SHEET 8 A10 GLN A 188 MET A 194 1 O GLN A 188 N LEU A 131 SHEET 9 A10 ALA A 216 GLY A 218 1 O ALA A 216 N VAL A 193 SHEET 10 A10 THR A 110 GLY A 119 -1 N GLY A 118 O VAL A 217 SHEET 1 B10 THR B 43 ASP B 49 0 SHEET 2 B10 ARG B 67 LEU B 73 -1 O PHE B 70 N GLN B 46 SHEET 3 B10 ARG B 76 GLN B 82 -1 O CYS B 78 N GLY B 71 SHEET 4 B10 VAL B 27 CYS B 31 1 N VAL B 29 O MET B 81 SHEET 5 B10 THR B 110 GLY B 119 1 O VAL B 112 N ALA B 28 SHEET 6 B10 ARG B 234 LYS B 244 1 O ASN B 243 N GLY B 119 SHEET 7 B10 ILE B 129 ASN B 137 -1 N MET B 130 O SER B 239 SHEET 8 B10 GLN B 188 MET B 194 1 O GLN B 188 N LEU B 131 SHEET 9 B10 ALA B 216 GLY B 218 1 O ALA B 216 N VAL B 193 SHEET 10 B10 THR B 110 GLY B 119 -1 N GLY B 118 O VAL B 217 SHEET 1 C10 THR C 43 ASP C 49 0 SHEET 2 C10 ARG C 67 LEU C 73 -1 O LEU C 68 N PHE C 48 SHEET 3 C10 ARG C 76 GLN C 82 -1 O CYS C 78 N GLY C 71 SHEET 4 C10 VAL C 27 CYS C 31 1 N VAL C 29 O MET C 81 SHEET 5 C10 THR C 110 GLY C 119 1 O VAL C 112 N ALA C 28 SHEET 6 C10 ARG C 234 LYS C 244 1 O ASN C 243 N GLY C 119 SHEET 7 C10 ILE C 129 ASN C 137 -1 N MET C 130 O SER C 239 SHEET 8 C10 GLN C 188 MET C 194 1 O GLN C 188 N LEU C 131 SHEET 9 C10 ALA C 216 GLY C 218 1 O ALA C 216 N VAL C 193 SHEET 10 C10 THR C 110 GLY C 119 -1 N GLY C 118 O VAL C 217 LINK OE2 GLU A 186 MG MG A 302 1555 1555 2.00 LINK MG MG A 302 O HOH A 425 1555 1555 1.99 LINK MG MG A 302 O HOH A 503 1555 1555 2.28 LINK MG MG A 302 O HOH A 549 1555 1555 2.04 LINK OD1 ASP C 9 MG MG C 302 1555 1555 2.03 LINK OE2 GLU C 186 MG MG C 303 1555 1555 2.18 LINK MG MG C 302 O HOH C 407 1555 1555 2.14 LINK MG MG C 302 O HOH C 511 1555 1555 2.10 LINK MG MG C 302 O HOH C 530 1555 1555 1.98 LINK MG MG C 303 O HOH C 504 1555 1555 2.16 LINK MG MG C 303 O HOH C 505 1555 1555 2.26 LINK MG MG C 303 O HOH C 516 1555 1555 2.02 CISPEP 1 GLY A 197 PRO A 198 0 8.71 CISPEP 2 GLY B 197 PRO B 198 0 9.64 CISPEP 3 GLY C 197 PRO C 198 0 9.12 SITE 1 AC1 21 SER A 33 ARG A 84 HIS A 86 TYR A 88 SITE 2 AC1 21 ASN A 115 ALA A 116 ALA A 117 GLY A 118 SITE 3 AC1 21 LEU A 195 PHE A 200 GLU A 201 VAL A 217 SITE 4 AC1 21 GLY A 218 MET A 219 SER A 220 THR A 242 SITE 5 AC1 21 ASN A 243 VAL A 245 HOH A 428 HOH A 440 SITE 6 AC1 21 HOH A 556 SITE 1 AC2 6 GLU A 186 HOH A 425 HOH A 503 HOH A 549 SITE 2 AC2 6 GLU B 186 HOH B 626 SITE 1 AC3 20 SER B 33 ARG B 84 HIS B 86 TYR B 88 SITE 2 AC3 20 ASN B 115 ALA B 116 ALA B 117 GLY B 118 SITE 3 AC3 20 LEU B 195 PHE B 200 GLU B 201 VAL B 217 SITE 4 AC3 20 GLY B 218 MET B 219 SER B 220 THR B 242 SITE 5 AC3 20 ASN B 243 HOH B 510 HOH B 533 HOH B 619 SITE 1 AC4 21 SER C 33 ARG C 84 HIS C 86 TYR C 88 SITE 2 AC4 21 ASN C 115 ALA C 116 ALA C 117 GLY C 118 SITE 3 AC4 21 LEU C 195 PHE C 200 GLU C 201 VAL C 217 SITE 4 AC4 21 GLY C 218 MET C 219 SER C 220 THR C 242 SITE 5 AC4 21 ASN C 243 VAL C 245 HOH C 401 HOH C 486 SITE 6 AC4 21 HOH C 493 SITE 1 AC5 4 ASP C 9 HOH C 407 HOH C 511 HOH C 530 SITE 1 AC6 3 GLU C 186 HOH C 504 HOH C 505 SITE 1 AC7 2 PRO C 92 LYS C 95 CRYST1 135.795 78.253 94.901 90.00 97.19 90.00 C 1 2 1 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 0.007364 0.000000 0.000929 0.00000 SCALE2 0.000000 0.012779 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010621 0.00000