HEADER HYDROLASE/DNA 05-MAY-22 7UXD TITLE CRYSTAL STRUCTURE OF APOBEC3G CATALYTIC DOMAIN COMPLEX WITH SSDNA TITLE 2 CONTAINING 2'-DEOXY ZEBULARINE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA DC->DU-EDITING ENZYME APOBEC-3G; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: APOBEC-RELATED CYTIDINE DEAMINASE,APOBEC-RELATED PROTEIN, COMPND 5 ARCD,APOBEC-RELATED PROTEIN 9,ARP-9,CEM-15,CEM15,DEOXYCYTIDINE COMPND 6 DEAMINASE,A3G; COMPND 7 EC: 3.5.4.38; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: DNA (5'-D(*AP*AP*TP*CP*CP*(DDN)P*AP*AP*A)-3'); COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 VARIANT: UNP RESIDUES 191-384; SOURCE 6 GENE: APOBEC3G, MDS019; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 EXPRESSION_SYSTEM: SYNTHETIC CONSTRUCT; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 32630 KEYWDS DNA CYTIDINE DEAMINASE, APOBEC, APOBEC- INHIBITOR COMPLEX, KEYWDS 2 ZEBULARINE, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.MAITI,H.MATSUO REVDAT 2 25-OCT-23 7UXD 1 REMARK REVDAT 1 14-DEC-22 7UXD 0 JRNL AUTH A.MAITI,A.K.HEDGER,W.MYINT,V.BALACHANDRAN,J.K.WATTS, JRNL AUTH 2 C.A.SCHIFFER,H.MATSUO JRNL TITL STRUCTURE OF THE CATALYTICALLY ACTIVE APOBEC3G BOUND TO A JRNL TITL 2 DNA OLIGONUCLEOTIDE INHIBITOR REVEALS TETRAHEDRAL GEOMETRY JRNL TITL 3 OF THE TRANSITION STATE. JRNL REF NAT COMMUN V. 13 7117 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 36402773 JRNL DOI 10.1038/S41467-022-34752-1 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.3 REMARK 3 NUMBER OF REFLECTIONS : 33634 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.920 REMARK 3 FREE R VALUE TEST SET COUNT : 1655 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 34.5000 - 3.4330 0.81 2363 134 0.1526 0.1675 REMARK 3 2 3.4330 - 2.7252 0.99 2871 132 0.1759 0.2000 REMARK 3 3 2.7252 - 2.3808 0.95 2723 128 0.1806 0.2190 REMARK 3 4 2.3808 - 2.1632 0.71 2046 97 0.1729 0.1937 REMARK 3 5 2.1632 - 2.0081 0.99 2859 126 0.1784 0.2109 REMARK 3 6 2.0081 - 1.8898 0.88 2474 140 0.1778 0.2073 REMARK 3 7 1.8898 - 1.7951 0.96 2707 153 0.1757 0.2013 REMARK 3 8 1.7951 - 1.7170 0.97 2744 159 0.1787 0.1960 REMARK 3 9 1.7170 - 1.6509 0.98 2804 151 0.1895 0.2161 REMARK 3 10 1.6509 - 1.5939 0.99 2777 139 0.1958 0.1872 REMARK 3 11 1.5939 - 1.5441 0.99 2834 139 0.2108 0.2449 REMARK 3 12 1.5441 - 1.5000 0.98 2777 157 0.2308 0.2626 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.560 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 10.3286 -4.9278 13.0935 REMARK 3 T TENSOR REMARK 3 T11: 0.1481 T22: 0.1759 REMARK 3 T33: 0.1605 T12: 0.0127 REMARK 3 T13: 0.0001 T23: -0.0122 REMARK 3 L TENSOR REMARK 3 L11: 2.3780 L22: 2.4152 REMARK 3 L33: 2.8906 L12: -0.3013 REMARK 3 L13: 0.4459 L23: 0.0313 REMARK 3 S TENSOR REMARK 3 S11: -0.0061 S12: 0.0892 S13: -0.0582 REMARK 3 S21: -0.0927 S22: 0.0035 S23: 0.2297 REMARK 3 S31: -0.1381 S32: -0.3952 S33: 0.0146 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7UXD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-MAY-22. REMARK 100 THE DEPOSITION ID IS D_1000265154. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-FEB-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33649 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.4 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.46800 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: PHASER REMARK 200 STARTING MODEL: 6BUX (CHAIN A) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG6000, 50 MM DI-SODIUM L-MALATE; REMARK 280 PH5.0, 30 MM CACL2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 23.56050 REMARK 290 SMTRY3 2 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: 1260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 GLY A 186 REMARK 465 PRO A 187 REMARK 465 LEU A 188 REMARK 465 GLY A 189 REMARK 465 SER A 190 REMARK 465 GLU A 191 REMARK 465 ILE A 192 REMARK 465 LEU A 193 REMARK 465 ASN A 384 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 ARG A 194 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 234 CG CD CE NZ REMARK 470 HIS A 250 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 270 CG CD CE NZ REMARK 470 LEU A 273 CG CD1 CD2 REMARK 470 LYS A 301 CG CD CE NZ REMARK 470 LYS A 318 CG CD CE NZ REMARK 470 LYS A 334 CE NZ REMARK 470 GLU A 366 CD OE1 OE2 REMARK 470 ARG A 376 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 382 CG CD OE1 NE2 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 ASP A 230 45.01 33.37 REMARK 500 ARG A 238 62.30 -101.78 REMARK 500 PHE A 252 60.74 -155.37 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 693 DISTANCE = 6.53 ANGSTROMS 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 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 257 ND1 REMARK 620 2 CYS A 288 SG 110.5 REMARK 620 3 CYS A 291 SG 110.7 109.5 REMARK 620 4 DDN B 0 O4 111.6 105.7 108.7 REMARK 620 N 1 2 3 DBREF 7UXD A 191 384 UNP Q9HC16 ABC3G_HUMAN 191 384 DBREF 7UXD B -5 3 PDB 7UXD 7UXD -5 3 SEQADV 7UXD GLY A 186 UNP Q9HC16 EXPRESSION TAG SEQADV 7UXD PRO A 187 UNP Q9HC16 EXPRESSION TAG SEQADV 7UXD LEU A 188 UNP Q9HC16 EXPRESSION TAG SEQADV 7UXD GLY A 189 UNP Q9HC16 EXPRESSION TAG SEQADV 7UXD SER A 190 UNP Q9HC16 EXPRESSION TAG SEQADV 7UXD ALA A 200 UNP Q9HC16 PRO 200 ENGINEERED MUTATION SEQADV 7UXD LYS A 234 UNP Q9HC16 LEU 234 ENGINEERED MUTATION SEQADV 7UXD ALA A 236 UNP Q9HC16 ASN 236 ENGINEERED MUTATION SEQADV 7UXD ALA A 243 UNP Q9HC16 CYS 243 ENGINEERED MUTATION SEQADV 7UXD LYS A 247 UNP Q9HC16 PRO 247 ENGINEERED MUTATION SEQADV 7UXD LYS A 310 UNP Q9HC16 PHE 310 ENGINEERED MUTATION SEQADV 7UXD LYS A 318 UNP Q9HC16 GLN 318 ENGINEERED MUTATION SEQADV 7UXD ALA A 321 UNP Q9HC16 CYS 321 ENGINEERED MUTATION SEQADV 7UXD ALA A 322 UNP Q9HC16 GLN 322 ENGINEERED MUTATION SEQADV 7UXD ALA A 356 UNP Q9HC16 CYS 356 ENGINEERED MUTATION SEQRES 1 A 199 GLY PRO LEU GLY SER GLU ILE LEU ARG HIS SER MET ASP SEQRES 2 A 199 PRO ALA THR PHE THR PHE ASN PHE ASN ASN GLU PRO TRP SEQRES 3 A 199 VAL ARG GLY ARG HIS GLU THR TYR LEU CYS TYR GLU VAL SEQRES 4 A 199 GLU ARG MET HIS ASN ASP THR TRP VAL LYS LEU ALA GLN SEQRES 5 A 199 ARG ARG GLY PHE LEU ALA ASN GLN ALA LYS HIS LYS HIS SEQRES 6 A 199 GLY PHE LEU GLU GLY ARG HIS ALA GLU LEU CYS PHE LEU SEQRES 7 A 199 ASP VAL ILE PRO PHE TRP LYS LEU ASP LEU ASP GLN ASP SEQRES 8 A 199 TYR ARG VAL THR CYS PHE THR SER TRP SER PRO CYS PHE SEQRES 9 A 199 SER CYS ALA GLN GLU MET ALA LYS PHE ILE SER LYS ASN SEQRES 10 A 199 LYS HIS VAL SER LEU CYS ILE LYS THR ALA ARG ILE TYR SEQRES 11 A 199 ASP ASP LYS GLY ARG ALA ALA GLU GLY LEU ARG THR LEU SEQRES 12 A 199 ALA GLU ALA GLY ALA LYS ILE SER ILE MET THR TYR SER SEQRES 13 A 199 GLU PHE LYS HIS CYS TRP ASP THR PHE VAL ASP HIS GLN SEQRES 14 A 199 GLY ALA PRO PHE GLN PRO TRP ASP GLY LEU ASP GLU HIS SEQRES 15 A 199 SER GLN ASP LEU SER GLY ARG LEU ARG ALA ILE LEU GLN SEQRES 16 A 199 ASN GLN GLU ASN SEQRES 1 B 9 DA DA DT DC DC DDN DA DA DA HET DDN B 0 19 HET ZN A 401 1 HETNAM DDN 3,4-DIHYDRO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE HETNAM ZN ZINC ION HETSYN DDN ((2R,3S,5R)-3-HYDROXY-5-(4-HYDROXY-2-OXO-3,4- HETSYN 2 DDN DIHYDROPYRIMIDIN-1(2H)-YL)-TETRAHYDROFURAN-2-YL)METHYL HETSYN 3 DDN DIHYDROGEN PHOSPHATE FORMUL 2 DDN C9 H15 N2 O8 P FORMUL 3 ZN ZN 2+ FORMUL 4 HOH *212(H2 O) HELIX 1 AA1 ASP A 198 ASN A 207 1 10 HELIX 2 AA2 HIS A 257 LYS A 270 1 14 HELIX 3 AA3 CYS A 288 ASN A 302 1 15 HELIX 4 AA4 ARG A 320 ALA A 331 1 12 HELIX 5 AA5 THR A 339 VAL A 351 1 13 HELIX 6 AA6 GLY A 363 GLN A 380 1 18 SHEET 1 AA1 6 THR A 231 LYS A 234 0 SHEET 2 AA1 6 GLY A 240 ALA A 243 1 N TYR A 222 O GLY A 240 SHEET 3 AA1 6 TYR A 219 HIS A 228 -1 O PHE A 282 N CYS A 221 SHEET 4 AA1 6 TYR A 277 TRP A 285 -1 O LYS A 310 N CYS A 281 SHEET 5 AA1 6 VAL A 305 ARG A 313 1 O SER A 336 N ILE A 309 SHEET 6 AA1 6 LYS A 334 ILE A 337 1 LINK O3' DC B -1 P DDN B 0 1555 1555 1.60 LINK O3' DDN B 0 P DA B 1 1555 1555 1.60 LINK ND1 HIS A 257 ZN ZN A 401 1555 1555 2.07 LINK SG CYS A 288 ZN ZN A 401 1555 1555 2.31 LINK SG CYS A 291 ZN ZN A 401 1555 1555 2.28 LINK ZN ZN A 401 O4 DDN B 0 1555 1555 2.02 CRYST1 47.489 47.121 52.042 90.00 103.18 90.00 P 1 21 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 0.021058 0.000000 0.004932 0.00000 SCALE2 0.000000 0.021222 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019735 0.00000