HEADER PROTEIN BINDING 29-MAY-12 4FE3 TITLE STRUCTURE OF MURINE CYTOSOLIC 5'-NUCLEOTIDASE III COMPLEXED WITH TITLE 2 URIDININE MONOPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOSOLIC 5'-NUCLEOTIDASE 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 42-327; COMPND 5 SYNONYM: CYTOSOLIC 5'-NUCLEOTIDASE III, CN-III, LUPIN, PYRIMIDINE 5'- COMPND 6 NUCLEOTIDASE 1, P5'N-1, P5N-1, PN-I; COMPND 7 EC: 3.1.3.5; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: NT5C3, NT5C3_PREDICTED, RCG_52382; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA 2 KEYWDS SUBSTRATE COMPLEX, HAD-LIKE, NUCLEOTIDASE, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR E.BITTO,C.A.BINGMAN REVDAT 3 13-SEP-23 4FE3 1 REMARK SEQADV LINK REVDAT 2 14-NOV-12 4FE3 1 JRNL REVDAT 1 29-AUG-12 4FE3 0 JRNL AUTH C.L.GROBOSKY,J.B.LOPEZ,S.RENNIE,D.J.SKOPELITIS,A.T.WIEST, JRNL AUTH 2 C.A.BINGMAN,E.BITTO JRNL TITL STRUCTURAL BASIS OF SUBSTRATE SPECIFICITY AND SELECTIVITY OF JRNL TITL 2 MURINE CYTOSOLIC 5'-NUCLEOTIDASE III. JRNL REF J.MOL.BIOL. V. 423 540 2012 JRNL REFN ISSN 0022-2836 JRNL PMID 22925580 JRNL DOI 10.1016/J.JMB.2012.08.014 REMARK 2 REMARK 2 RESOLUTION. 1.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 33814 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) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1710 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) : 1.74 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.78 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2025 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2860 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2326 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 335 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.107 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.113 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.064 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.928 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2419 ; 0.010 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3255 ; 1.356 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 298 ; 5.826 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 111 ;38.600 ;25.405 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 457 ;14.524 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;14.025 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 368 ; 0.119 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1775 ; 0.008 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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: U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4FE3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1000072785. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : KOHZU SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 607246 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.740 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 17.90 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : 0.06300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 32.1700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.74 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.77 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 97.10 REMARK 200 R MERGE FOR SHELL (I) : 0.55500 REMARK 200 R SYM FOR SHELL (I) : 0.53100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.800 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 2BDU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 100 MM TRIS, 50 MM REMARK 280 AMMONIUM ACETATE , PH 8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 283K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+1/4 REMARK 290 8555 -Y,-X,-Z+3/4 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 143.55050 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 215.32575 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 71.77525 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 143.55050 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 71.77525 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 215.32575 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 THR A 2 REMARK 465 ASN A 3 REMARK 465 GLN A 4 REMARK 465 GLU A 5 REMARK 465 SER A 6 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 68 CG HIS A 68 CD2 0.054 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 PHE A 50 -71.33 -107.69 REMARK 500 THR A 53 -62.40 -108.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 49 OD2 REMARK 620 2 ASN A 51 O 88.0 REMARK 620 3 ASP A 238 OD1 79.0 84.7 REMARK 620 4 U5P A 305 O2P 103.3 97.7 176.7 REMARK 620 5 HOH A 630 O 168.7 87.8 90.2 87.7 REMARK 620 6 HOH A 632 O 90.4 171.7 87.0 90.6 92.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 173 OE2 REMARK 620 2 HOH A 554 O 124.5 REMARK 620 3 HOH A 598 O 111.3 84.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE U5P A 305 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2G09 RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF MOUSE PYRIMIDINE 5'-NUCLEOTIDASE TYPE 1, PRODUCT REMARK 900 COMPLEX. REMARK 900 RELATED ID: 2G06 RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF MOUSE PYRIMIDINE 5'-NUCLEOTIDASE TYPE 1, WITH REMARK 900 BOUND MAGNESIUM(II) REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CRYSTALLIZED SEQUENCE CORRESPONDS TO THE ISOFORM I OF CYTOSOLIC REMARK 999 5'-NUCLEOTIDASE 3: UNP ENTRY Q9D020-1 DBREF 4FE3 A 12 297 UNP Q9D020 5NT3_MOUSE 42 327 SEQADV 4FE3 MET A 1 UNP Q9D020 INITIATING METHIONINE SEQADV 4FE3 THR A 2 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 ASN A 3 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 GLN A 4 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 GLU A 5 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 SER A 6 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 ALA A 7 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 VAL A 8 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 HIS A 9 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 LEU A 10 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 LYS A 11 UNP Q9D020 EXPRESSION TAG SEQADV 4FE3 ASN A 51 UNP Q9D020 ASP 81 ENGINEERED MUTATION SEQRES 1 A 297 MET THR ASN GLN GLU SER ALA VAL HIS LEU LYS MET MET SEQRES 2 A 297 PRO GLU PHE GLN LYS SER SER VAL ARG ILE LYS ASN PRO SEQRES 3 A 297 THR ARG VAL GLU GLU ILE ILE CYS GLY LEU ILE LYS GLY SEQRES 4 A 297 GLY ALA ALA LYS LEU GLN ILE ILE THR ASP PHE ASN MET SEQRES 5 A 297 THR LEU SER ARG PHE SER TYR ASN GLY LYS ARG CYS PRO SEQRES 6 A 297 THR CYS HIS ASN ILE ILE ASP ASN CYS LYS LEU VAL THR SEQRES 7 A 297 ASP GLU CYS ARG ARG LYS LEU LEU GLN LEU LYS GLU GLN SEQRES 8 A 297 TYR TYR ALA ILE GLU VAL ASP PRO VAL LEU THR VAL GLU SEQRES 9 A 297 GLU LYS PHE PRO TYR MET VAL GLU TRP TYR THR LYS SER SEQRES 10 A 297 HIS GLY LEU LEU ILE GLU GLN GLY ILE PRO LYS ALA LYS SEQRES 11 A 297 LEU LYS GLU ILE VAL ALA ASP SER ASP VAL MET LEU LYS SEQRES 12 A 297 GLU GLY TYR GLU ASN PHE PHE GLY LYS LEU GLN GLN HIS SEQRES 13 A 297 GLY ILE PRO VAL PHE ILE PHE SER ALA GLY ILE GLY ASP SEQRES 14 A 297 VAL LEU GLU GLU VAL ILE ARG GLN ALA GLY VAL TYR HIS SEQRES 15 A 297 SER ASN VAL LYS VAL VAL SER ASN PHE MET ASP PHE ASP SEQRES 16 A 297 GLU ASN GLY VAL LEU LYS GLY PHE LYS GLY GLU LEU ILE SEQRES 17 A 297 HIS VAL PHE ASN LYS HIS ASP GLY ALA LEU LYS ASN THR SEQRES 18 A 297 ASP TYR PHE SER GLN LEU LYS ASP ASN SER ASN ILE ILE SEQRES 19 A 297 LEU LEU GLY ASP SER GLN GLY ASP LEU ARG MET ALA ASP SEQRES 20 A 297 GLY VAL ALA ASN VAL GLU HIS ILE LEU LYS ILE GLY TYR SEQRES 21 A 297 LEU ASN ASP ARG VAL ASP GLU LEU LEU GLU LYS TYR MET SEQRES 22 A 297 ASP SER TYR ASP ILE VAL LEU VAL LYS GLU GLU SER LEU SEQRES 23 A 297 GLU VAL VAL ASN SER ILE LEU GLN LYS THR LEU HET BME A 301 4 HET BME A 302 4 HET NA A 303 1 HET MG A 304 1 HET U5P A 305 21 HETNAM BME BETA-MERCAPTOETHANOL HETNAM NA SODIUM ION HETNAM MG MAGNESIUM ION HETNAM U5P URIDINE-5'-MONOPHOSPHATE FORMUL 2 BME 2(C2 H6 O S) FORMUL 4 NA NA 1+ FORMUL 5 MG MG 2+ FORMUL 6 U5P C9 H13 N2 O9 P FORMUL 7 HOH *335(H2 O) HELIX 1 1 HIS A 9 GLN A 17 5 9 HELIX 2 2 ASN A 25 LYS A 43 1 19 HELIX 3 3 THR A 66 ASN A 73 1 8 HELIX 4 4 THR A 78 ASP A 98 1 21 HELIX 5 5 THR A 102 GLN A 124 1 23 HELIX 6 6 PRO A 127 ALA A 129 5 3 HELIX 7 7 LYS A 130 ASP A 137 1 8 HELIX 8 8 GLY A 145 HIS A 156 1 12 HELIX 9 9 GLY A 168 ALA A 178 1 11 HELIX 10 10 ASN A 212 LYS A 219 1 8 HELIX 11 11 ASN A 220 LEU A 227 1 8 HELIX 12 12 SER A 239 MET A 245 5 7 HELIX 13 13 ARG A 264 TYR A 276 1 13 HELIX 14 14 LEU A 286 LEU A 297 1 12 SHEET 1 A 7 VAL A 21 ARG A 22 0 SHEET 2 A 7 ILE A 278 VAL A 281 -1 O VAL A 279 N ARG A 22 SHEET 3 A 7 HIS A 254 LEU A 261 1 N GLY A 259 O ILE A 278 SHEET 4 A 7 ASN A 232 GLY A 237 1 N LEU A 235 O ILE A 258 SHEET 5 A 7 LEU A 44 THR A 48 1 N ILE A 47 O ILE A 234 SHEET 6 A 7 VAL A 160 ILE A 167 1 O PHE A 161 N THR A 48 SHEET 7 A 7 VAL A 185 ASN A 190 1 O LYS A 186 N ILE A 162 SHEET 1 B 2 SER A 58 TYR A 59 0 SHEET 2 B 2 LYS A 62 ARG A 63 -1 O LYS A 62 N TYR A 59 SHEET 1 C 2 MET A 192 PHE A 194 0 SHEET 2 C 2 LEU A 200 PHE A 203 -1 O GLY A 202 N ASP A 193 LINK SG CYS A 34 S2 BME A 302 1555 1555 2.04 LINK SG CYS A 64 S2 BME A 301 1555 1555 2.05 LINK OD2 ASP A 49 MG MG A 304 1555 1555 1.97 LINK O ASN A 51 MG MG A 304 1555 1555 2.17 LINK OE2 GLU A 173 NA NA A 303 1555 1555 2.30 LINK OD1 ASP A 238 MG MG A 304 1555 1555 1.96 LINK NA NA A 303 O HOH A 554 1555 1555 2.88 LINK NA NA A 303 O HOH A 598 1555 1555 2.67 LINK MG MG A 304 O2P U5P A 305 1555 1555 1.95 LINK MG MG A 304 O HOH A 630 1555 1555 2.17 LINK MG MG A 304 O HOH A 632 1555 1555 2.10 SITE 1 AC1 5 LYS A 62 ARG A 63 CYS A 64 ASP A 139 SITE 2 AC1 5 MET A 141 SITE 1 AC2 3 CYS A 34 ILE A 37 LYS A 38 SITE 1 AC3 6 LYS A 132 GLN A 155 GLU A 173 GLN A 177 SITE 2 AC3 6 HOH A 554 HOH A 598 SITE 1 AC4 6 ASP A 49 ASN A 51 ASP A 238 U5P A 305 SITE 2 AC4 6 HOH A 630 HOH A 632 SITE 1 AC5 23 ASP A 49 PHE A 50 ASN A 51 THR A 66 SITE 2 AC5 23 HIS A 68 ASN A 69 LYS A 89 GLU A 96 SITE 3 AC5 23 TRP A 113 TYR A 114 SER A 117 SER A 164 SITE 4 AC5 23 ALA A 165 GLY A 166 VAL A 210 LYS A 213 SITE 5 AC5 23 MG A 304 HOH A 401 HOH A 402 HOH A 488 SITE 6 AC5 23 HOH A 534 HOH A 630 HOH A 632 CRYST1 46.878 46.878 287.101 90.00 90.00 90.00 P 43 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.021332 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021332 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003483 0.00000