HEADER HYDROLASE 10-JUN-13 4L57 TITLE HIGH RESOLUTIN STRUCTURE OF HUMAN CYTOSOLIC 5'(3')- TITLE 2 DEOXYRIBONUCLEOTIDASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'(3')-DEOXYRIBONUCLEOTIDASE, CYTOSOLIC TYPE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 1-195; COMPND 5 SYNONYM: CYTOSOLIC 5',3'-PYRIMIDINE NUCLEOTIDASE, DEOXY-5'- COMPND 6 NUCLEOTIDASE 1, DNT-1; COMPND 7 EC: 3.1.3.-; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DNT1, NT5C, UMPH2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET 22 KEYWDS 5'-NUCLEOTIDASE, PROTEIN CONFORMATION, SEQUENCE HOMOLOGY, HAD-LIKE, KEYWDS 2 HYDROLASE, DEPHOSPHORYLATION EXPDTA X-RAY DIFFRACTION AUTHOR P.PACHL,J.BRYNDA,P.REZACOVA REVDAT 4 28-FEB-24 4L57 1 REMARK LINK REVDAT 3 18-APR-18 4L57 1 JRNL REVDAT 2 19-MAR-14 4L57 1 REMARK REVDAT 1 12-FEB-14 4L57 0 JRNL AUTH P.PACHL,M.FABRY,I.ROSENBERG,O.SIMAK,P.REZACOVA,J.BRYNDA JRNL TITL STRUCTURES OF HUMAN CYTOSOLIC AND MITOCHONDRIAL JRNL TITL 2 NUCLEOTIDASES: IMPLICATIONS FOR STRUCTURE-BASED DESIGN OF JRNL TITL 3 SELECTIVE INHIBITORS. JRNL REF ACTA CRYSTALLOGR. D BIOL. V. 70 461 2014 JRNL REF 2 CRYSTALLOGR. JRNL REFN ESSN 1399-0047 JRNL PMID 24531480 JRNL DOI 10.1107/S1399004713030502 REMARK 2 REMARK 2 RESOLUTION. 1.08 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELX REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.48 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.144 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.183 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 1463 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 144252 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3163 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 49 REMARK 3 SOLVENT ATOMS : 443 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : NULL REMARK 3 NUMBER OF RESTRAINTS : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 ANGLE DISTANCES (A) : NULL REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : NULL REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4L57 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000080195. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-FEB-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 142636 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.080 REMARK 200 RESOLUTION RANGE LOW (A) : 23.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40MM KH2PO4, 5% PEG 8000, 20% REMARK 280 GLYCEROL, PH 4.2, VAPOR DIFFUSION, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -62.0 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 9.10863 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 21.22737 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 56.89901 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 ALA A 2 REMARK 465 ARG A 3 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 ARG B 3 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 OE1 GLU B 39 O HOH B 417 1.26 REMARK 500 CD GLU B 39 O HOH B 417 1.98 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 ARG A 24 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 24 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 27 NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 27 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 28 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 28 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 29 NE - CZ - NH2 ANGL. DEV. = -7.2 DEGREES REMARK 500 GLU A 32 OE1 - CD - OE2 ANGL. DEV. = 8.1 DEGREES REMARK 500 ARG A 47 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 85 CD - NE - CZ ANGL. DEV. = 28.2 DEGREES REMARK 500 ARG A 85 CD - NE - CZ ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG A 85 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 TYR A 105 CB - CG - CD1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 114 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 127 NE - CZ - NH2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ARG A 132 NE - CZ - NH1 ANGL. DEV. = -5.2 DEGREES REMARK 500 CYS A 165 CA - CB - SG ANGL. DEV. = -10.9 DEGREES REMARK 500 ARG A 178 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 178 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 179 NH1 - CZ - NH2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ARG A 179 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 179 NE - CZ - NH2 ANGL. DEV. = 4.5 DEGREES REMARK 500 ASN A 186 CB - CA - C ANGL. DEV. = 12.2 DEGREES REMARK 500 ARG B 24 NE - CZ - NH1 ANGL. DEV. = 7.2 DEGREES REMARK 500 ARG B 24 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 ARG B 27 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG B 27 NE - CZ - NH2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG B 29 NE - CZ - NH1 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG B 41 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 42 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG B 47 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG B 54 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 85 CD - NE - CZ ANGL. DEV. = 16.2 DEGREES REMARK 500 ARG B 85 CD - NE - CZ ANGL. DEV. = 11.8 DEGREES REMARK 500 ARG B 85 NH1 - CZ - NH2 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG B 85 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG B 85 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG B 85 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 VAL B 109 CB - CA - C ANGL. DEV. = 12.2 DEGREES REMARK 500 VAL B 109 CG1 - CB - CG2 ANGL. DEV. = -16.9 DEGREES REMARK 500 VAL B 109 CA - CB - CG1 ANGL. DEV. = 14.8 DEGREES REMARK 500 ARG B 114 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 127 NH1 - CZ - NH2 ANGL. DEV. = 14.3 DEGREES REMARK 500 ARG B 127 NE - CZ - NH1 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG B 127 NE - CZ - NH2 ANGL. DEV. = -8.0 DEGREES REMARK 500 ASP B 147 CA - CB - CG ANGL. DEV. = 30.4 DEGREES REMARK 500 ARG B 150 CD - NE - CZ ANGL. DEV. = 9.9 DEGREES REMARK 500 ARG B 150 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 GLN B 152 OE1 - CD - NE2 ANGL. DEV. = 14.6 DEGREES REMARK 500 CYS B 165 CA - CB - SG ANGL. DEV. = 6.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 55 ANGLE DEVIATIONS. 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 MET A 11 -74.11 -100.06 REMARK 500 ASP A 185 41.12 -94.29 REMARK 500 MET B 11 -72.82 -99.97 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 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 10 OD2 REMARK 620 2 ASP A 12 O 86.1 REMARK 620 3 ASP A 145 OD1 83.3 89.7 REMARK 620 4 PO4 A 202 O2 87.3 95.0 169.2 REMARK 620 5 HOH A 311 O 91.2 177.3 89.4 85.5 REMARK 620 6 HOH A 320 O 174.5 88.5 95.5 94.4 94.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 208 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 88 O REMARK 620 2 LEU A 90 O 107.5 REMARK 620 3 THR A 93 O 102.0 90.8 REMARK 620 4 HOH A 423 O 61.9 143.9 61.1 REMARK 620 5 HOH A 429 O 160.4 87.0 63.8 98.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 10 OD2 REMARK 620 2 ASP B 12 O 85.9 REMARK 620 3 ASP B 145 OD1 84.6 89.4 REMARK 620 4 PO4 B 202 O2 86.8 94.5 170.3 REMARK 620 5 HOH B 314 O 90.7 176.6 90.5 85.1 REMARK 620 6 HOH B 315 O 174.4 88.7 96.8 92.1 94.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 203 DBREF 4L57 A 1 195 UNP Q8TCD5 NT5C_HUMAN 1 195 DBREF 4L57 B 1 195 UNP Q8TCD5 NT5C_HUMAN 1 195 SEQRES 1 A 195 MET ALA ARG SER VAL ARG VAL LEU VAL ASP MET ASP GLY SEQRES 2 A 195 VAL LEU ALA ASP PHE GLU ALA GLY LEU LEU ARG GLY PHE SEQRES 3 A 195 ARG ARG ARG PHE PRO GLU GLU PRO HIS VAL PRO LEU GLU SEQRES 4 A 195 GLN ARG ARG GLY PHE LEU ALA ARG GLU GLN TYR ARG ALA SEQRES 5 A 195 LEU ARG PRO ASP LEU ALA ASP LYS VAL ALA SER VAL TYR SEQRES 6 A 195 GLU ALA PRO GLY PHE PHE LEU ASP LEU GLU PRO ILE PRO SEQRES 7 A 195 GLY ALA LEU ASP ALA VAL ARG GLU MET ASN ASP LEU PRO SEQRES 8 A 195 ASP THR GLN VAL PHE ILE CYS THR SER PRO LEU LEU LYS SEQRES 9 A 195 TYR HIS HIS CYS VAL GLY GLU LYS TYR ARG TRP VAL GLU SEQRES 10 A 195 GLN HIS LEU GLY PRO GLN PHE VAL GLU ARG ILE ILE LEU SEQRES 11 A 195 THR ARG ASP LYS THR VAL VAL LEU GLY ASP LEU LEU ILE SEQRES 12 A 195 ASP ASP LYS ASP THR VAL ARG GLY GLN GLU GLU THR PRO SEQRES 13 A 195 SER TRP GLU HIS ILE LEU PHE THR CYS CYS HIS ASN ARG SEQRES 14 A 195 HIS LEU VAL LEU PRO PRO THR ARG ARG ARG LEU LEU SER SEQRES 15 A 195 TRP SER ASP ASN TRP ARG GLU ILE LEU ASP SER LYS ARG SEQRES 1 B 195 MET ALA ARG SER VAL ARG VAL LEU VAL ASP MET ASP GLY SEQRES 2 B 195 VAL LEU ALA ASP PHE GLU ALA GLY LEU LEU ARG GLY PHE SEQRES 3 B 195 ARG ARG ARG PHE PRO GLU GLU PRO HIS VAL PRO LEU GLU SEQRES 4 B 195 GLN ARG ARG GLY PHE LEU ALA ARG GLU GLN TYR ARG ALA SEQRES 5 B 195 LEU ARG PRO ASP LEU ALA ASP LYS VAL ALA SER VAL TYR SEQRES 6 B 195 GLU ALA PRO GLY PHE PHE LEU ASP LEU GLU PRO ILE PRO SEQRES 7 B 195 GLY ALA LEU ASP ALA VAL ARG GLU MET ASN ASP LEU PRO SEQRES 8 B 195 ASP THR GLN VAL PHE ILE CYS THR SER PRO LEU LEU LYS SEQRES 9 B 195 TYR HIS HIS CYS VAL GLY GLU LYS TYR ARG TRP VAL GLU SEQRES 10 B 195 GLN HIS LEU GLY PRO GLN PHE VAL GLU ARG ILE ILE LEU SEQRES 11 B 195 THR ARG ASP LYS THR VAL VAL LEU GLY ASP LEU LEU ILE SEQRES 12 B 195 ASP ASP LYS ASP THR VAL ARG GLY GLN GLU GLU THR PRO SEQRES 13 B 195 SER TRP GLU HIS ILE LEU PHE THR CYS CYS HIS ASN ARG SEQRES 14 B 195 HIS LEU VAL LEU PRO PRO THR ARG ARG ARG LEU LEU SER SEQRES 15 B 195 TRP SER ASP ASN TRP ARG GLU ILE LEU ASP SER LYS ARG HET MG A 201 1 HET PO4 A 202 5 HET GOL A 203 6 HET GOL A 204 6 HET GOL A 205 6 HET GOL A 206 6 HET GOL A 207 6 HET NA A 208 1 HET MG B 201 1 HET PO4 B 202 5 HET GOL B 203 6 HETNAM MG MAGNESIUM ION HETNAM PO4 PHOSPHATE ION HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MG 2(MG 2+) FORMUL 4 PO4 2(O4 P 3-) FORMUL 5 GOL 6(C3 H8 O3) FORMUL 10 NA NA 1+ FORMUL 14 HOH *443(H2 O) HELIX 1 1 ASP A 17 PHE A 30 1 14 HELIX 2 2 PRO A 37 ARG A 41 5 5 HELIX 3 3 LEU A 45 ARG A 54 1 10 HELIX 4 4 ASP A 56 GLU A 66 1 11 HELIX 5 5 GLY A 79 LEU A 90 1 12 HELIX 6 6 CYS A 108 GLY A 121 1 14 HELIX 7 7 GLY A 121 GLU A 126 1 6 HELIX 8 8 ASP A 133 VAL A 137 5 5 HELIX 9 9 CYS A 165 ARG A 169 5 5 HELIX 10 10 ASN A 186 SER A 193 1 8 HELIX 11 11 ASP B 17 PHE B 30 1 14 HELIX 12 12 PRO B 37 ARG B 41 5 5 HELIX 13 13 LEU B 45 ARG B 54 1 10 HELIX 14 14 ASP B 56 GLU B 66 1 11 HELIX 15 15 GLY B 79 LEU B 90 1 12 HELIX 16 16 CYS B 108 GLY B 121 1 14 HELIX 17 17 GLY B 121 GLU B 126 1 6 HELIX 18 18 ASP B 133 VAL B 137 5 5 HELIX 19 19 ASN B 186 SER B 193 1 8 SHEET 1 A 6 ILE A 128 LEU A 130 0 SHEET 2 A 6 THR A 93 THR A 99 1 N ILE A 97 O ILE A 129 SHEET 3 A 6 VAL A 5 VAL A 9 1 N VAL A 9 O PHE A 96 SHEET 4 A 6 LEU A 141 ASP A 144 1 O LEU A 141 N LEU A 8 SHEET 5 A 6 GLU A 159 PHE A 163 1 O ILE A 161 N LEU A 142 SHEET 6 A 6 ARG A 179 LEU A 180 1 O LEU A 180 N LEU A 162 SHEET 1 B 6 ILE B 128 LEU B 130 0 SHEET 2 B 6 THR B 93 THR B 99 1 N ILE B 97 O ILE B 129 SHEET 3 B 6 VAL B 5 VAL B 9 1 N VAL B 9 O PHE B 96 SHEET 4 B 6 LEU B 141 ASP B 144 1 O LEU B 141 N LEU B 8 SHEET 5 B 6 GLU B 159 PHE B 163 1 O ILE B 161 N LEU B 142 SHEET 6 B 6 ARG B 179 LEU B 180 1 O LEU B 180 N LEU B 162 LINK OD2 ASP A 10 MG MG A 201 1555 1555 2.12 LINK O ASP A 12 MG MG A 201 1555 1555 2.06 LINK O ASN A 88 NA NA A 208 1555 1555 2.62 LINK O LEU A 90 NA NA A 208 1555 1555 2.58 LINK O THR A 93 NA NA A 208 1555 1555 3.01 LINK OD1 ASP A 145 MG MG A 201 1555 1555 2.03 LINK MG MG A 201 O2 PO4 A 202 1555 1555 2.12 LINK MG MG A 201 O HOH A 311 1555 1555 2.08 LINK MG MG A 201 O HOH A 320 1555 1555 2.05 LINK NA NA A 208 O HOH A 423 1555 1555 2.57 LINK NA NA A 208 O HOH A 429 1555 1555 2.74 LINK OD2 ASP B 10 MG MG B 201 1555 1555 2.14 LINK O ASP B 12 MG MG B 201 1555 1555 2.06 LINK OD1 ASP B 145 MG MG B 201 1555 1555 2.02 LINK MG MG B 201 O2 PO4 B 202 1555 1555 2.12 LINK MG MG B 201 O HOH B 314 1555 1555 2.06 LINK MG MG B 201 O HOH B 315 1555 1555 2.04 SITE 1 AC1 6 ASP A 10 ASP A 12 ASP A 145 PO4 A 202 SITE 2 AC1 6 HOH A 311 HOH A 320 SITE 1 AC2 13 ASP A 10 MET A 11 ASP A 12 THR A 99 SITE 2 AC2 13 SER A 100 LYS A 112 LYS A 134 MG A 201 SITE 3 AC2 13 GOL A 204 HOH A 301 HOH A 311 HOH A 320 SITE 4 AC2 13 HOH A 535 SITE 1 AC3 8 ASN A 186 ARG A 188 GLU A 189 HOH A 335 SITE 2 AC3 8 HOH A 391 HOH A 524 HOH B 336 HOH B 353 SITE 1 AC4 9 PHE A 18 GLU A 19 PHE A 44 PO4 A 202 SITE 2 AC4 9 GOL A 207 HOH A 320 HOH A 326 HOH A 500 SITE 3 AC4 9 HOH A 510 SITE 1 AC5 6 PHE A 44 SER A 100 ARG A 132 HOH A 301 SITE 2 AC5 6 HOH A 389 HOH A 546 SITE 1 AC6 7 ARG A 51 ASP A 59 GLU A 117 GLN A 118 SITE 2 AC6 7 HOH A 318 HOH A 332 HOH A 520 SITE 1 AC7 9 PHE A 18 PHE A 44 LEU A 45 ALA A 46 SITE 2 AC7 9 ARG A 47 TYR A 65 GOL A 204 HOH A 410 SITE 3 AC7 9 HOH A 511 SITE 1 AC8 5 ASN A 88 LEU A 90 THR A 93 HOH A 423 SITE 2 AC8 5 HOH A 429 SITE 1 AC9 6 ASP B 10 ASP B 12 ASP B 145 PO4 B 202 SITE 2 AC9 6 HOH B 314 HOH B 315 SITE 1 BC1 13 ASP B 10 MET B 11 ASP B 12 THR B 99 SITE 2 BC1 13 SER B 100 LYS B 112 LYS B 134 MG B 201 SITE 3 BC1 13 GOL B 203 HOH B 301 HOH B 314 HOH B 315 SITE 4 BC1 13 HOH B 371 SITE 1 BC2 10 ASP B 12 PHE B 18 PHE B 44 LEU B 45 SITE 2 BC2 10 PHE B 71 LEU B 102 PO4 B 202 HOH B 371 SITE 3 BC2 10 HOH B 384 HOH B 479 CRYST1 39.128 46.493 61.409 68.16 81.47 75.28 P 1 2 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 0.025557 -0.006714 -0.001586 0.00000 SCALE2 0.000000 0.022239 -0.008297 0.00000 SCALE3 0.000000 0.000000 0.017575 0.00000