HEADER HYDROLASE 05-DEC-16 5WS7 TITLE CRYSTAL STRUCTURE OF HUMAN MTH1(G2K/C87A/C104S MUTANT) IN COMPLEX WITH TITLE 2 2-OXO-DATP COMPND MOL_ID: 1; COMPND 2 MOLECULE: 7,8-DIHYDRO-8-OXOGUANINE TRIPHOSPHATASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 42-197; COMPND 5 SYNONYM: 2-HYDROXY-DATP DIPHOSPHATASE,8-OXO-DGTPASE,NUCLEOSIDE COMPND 6 DIPHOSPHATE-LINKED MOIETY X MOTIF 1,NUDIX MOTIF 1; COMPND 7 EC: 3.6.1.55,3.6.1.56; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: NUDT1, MTH1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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: PET24A KEYWDS ALPHA-BETA-ALPHA SANDWICH, HYDROLASE, DNA DAMAGE, DNA REPAIR, DNA KEYWDS 2 REPLICATION EXPDTA X-RAY DIFFRACTION AUTHOR T.NAKAMURA,S.WAZ,K.HIRATA,Y.NAKABEPPU,Y.YAMAGATA REVDAT 5 08-NOV-23 5WS7 1 LINK REVDAT 4 27-SEP-17 5WS7 1 REMARK REVDAT 3 01-MAR-17 5WS7 1 JRNL REVDAT 2 11-JAN-17 5WS7 1 JRNL REVDAT 1 04-JAN-17 5WS7 0 JRNL AUTH S.WAZ,T.NAKAMURA,K.HIRATA,Y.KOGA-OGAWA,M.CHIRIFU,T.ARIMORI, JRNL AUTH 2 T.TAMADA,S.IKEMIZU,Y.NAKABEPPU,Y.YAMAGATA JRNL TITL STRUCTURAL AND KINETIC STUDIES OF THE HUMAN NUDIX HYDROLASE JRNL TITL 2 MTH1 REVEAL THE MECHANISM FOR ITS BROAD SUBSTRATE JRNL TITL 3 SPECIFICITY JRNL REF J. BIOL. CHEM. V. 292 2785 2017 JRNL REFN ESSN 1083-351X JRNL PMID 28035004 JRNL DOI 10.1074/JBC.M116.749713 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.KOGA,M.INAZATO,T.NAKAMURA,C.HASHIKAWA,M.CHIRIFU,A.MICHI, REMARK 1 AUTH 2 T.YAMASHITA,S.TOMA,A.KUNIYASU,S.IKEMIZU,Y.NAKABEPPU, REMARK 1 AUTH 3 Y.YAMAGATA REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF HUMAN MTH1 REMARK 1 TITL 2 WITH A HOMOGENEOUS N-TERMINUS. REMARK 1 REF ACTA CRYSTALLOGR. SECT. F V. 69 45 2013 REMARK 1 REF 2 STRUCT. BIOL. CRYST. COMMUN. REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 23295485 REMARK 1 DOI 10.1107/S1744309112048002 REMARK 2 REMARK 2 RESOLUTION. 1.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 144022 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.118 REMARK 3 R VALUE (WORKING SET) : 0.117 REMARK 3 FREE R VALUE : 0.138 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 7233 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 37.6341 - 3.1066 0.98 4965 271 0.1349 0.1623 REMARK 3 2 3.1066 - 2.4659 1.00 4804 268 0.1315 0.1463 REMARK 3 3 2.4659 - 2.1542 1.00 4770 259 0.1232 0.1407 REMARK 3 4 2.1542 - 1.9573 0.99 4768 221 0.1157 0.1444 REMARK 3 5 1.9573 - 1.8170 0.99 4740 218 0.1168 0.1368 REMARK 3 6 1.8170 - 1.7099 0.99 4710 232 0.1147 0.1224 REMARK 3 7 1.7099 - 1.6242 0.99 4618 278 0.1124 0.1327 REMARK 3 8 1.6242 - 1.5535 0.99 4656 230 0.1099 0.1313 REMARK 3 9 1.5535 - 1.4937 0.98 4632 246 0.1131 0.1322 REMARK 3 10 1.4937 - 1.4422 0.98 4598 247 0.1126 0.1321 REMARK 3 11 1.4422 - 1.3971 0.98 4597 229 0.1071 0.1315 REMARK 3 12 1.3971 - 1.3571 0.98 4555 254 0.1017 0.1214 REMARK 3 13 1.3571 - 1.3214 0.97 4593 235 0.1043 0.1245 REMARK 3 14 1.3214 - 1.2892 0.97 4528 249 0.1033 0.1118 REMARK 3 15 1.2892 - 1.2599 0.97 4532 240 0.1062 0.1286 REMARK 3 16 1.2599 - 1.2331 0.97 4531 239 0.1051 0.1315 REMARK 3 17 1.2331 - 1.2084 0.97 4517 255 0.1044 0.1196 REMARK 3 18 1.2084 - 1.1856 0.96 4480 235 0.1039 0.1178 REMARK 3 19 1.1856 - 1.1644 0.96 4487 244 0.1003 0.1113 REMARK 3 20 1.1644 - 1.1447 0.96 4504 240 0.1006 0.1357 REMARK 3 21 1.1447 - 1.1262 0.96 4432 234 0.1008 0.1140 REMARK 3 22 1.1262 - 1.1089 0.96 4465 238 0.0967 0.1115 REMARK 3 23 1.1089 - 1.0926 0.96 4488 228 0.1011 0.1279 REMARK 3 24 1.0926 - 1.0772 0.95 4384 230 0.1031 0.1193 REMARK 3 25 1.0772 - 1.0626 0.95 4465 240 0.1053 0.1286 REMARK 3 26 1.0626 - 1.0488 0.95 4399 248 0.1078 0.1371 REMARK 3 27 1.0488 - 1.0357 0.95 4352 235 0.1117 0.1323 REMARK 3 28 1.0357 - 1.0232 0.95 4410 232 0.1204 0.1397 REMARK 3 29 1.0232 - 1.0113 0.94 4382 228 0.1267 0.1430 REMARK 3 30 1.0113 - 1.0000 0.94 4427 230 0.1375 0.1684 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.060 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 10.590 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.009 3401 REMARK 3 ANGLE : 1.456 4644 REMARK 3 CHIRALITY : 0.073 461 REMARK 3 PLANARITY : 0.009 615 REMARK 3 DIHEDRAL : 16.127 1311 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5WS7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1300002301. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-16 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 : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 144098 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.000 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 (%) : 97.0 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 68.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.02 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: 5GHJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CITRATE, TRIS, NACL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 23.31000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.90900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.67200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.90900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.31000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 23.67200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 TOTAL BURIED SURFACE AREA: 280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 VAL A 61 -33.79 -144.36 REMARK 500 ALA A 63 138.54 -175.07 REMARK 500 GLN A 92 23.71 -153.46 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 B1327 DISTANCE = 6.14 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 NA A 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 36 O REMARK 620 2 GLU A 56 OE2 72.0 REMARK 620 3 6U4 A 201 O2A 111.4 140.2 REMARK 620 4 HOH A 475 O 84.7 113.3 106.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 203 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 52 OE2 REMARK 620 2 6U4 A 201 O2B 100.9 REMARK 620 3 HOH A 311 O 168.3 90.8 REMARK 620 4 HOH A 313 O 81.0 81.3 100.1 REMARK 620 5 HOH A 336 O 87.8 168.9 80.5 93.5 REMARK 620 6 HOH A 405 O 83.0 98.2 96.3 163.6 89.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 6U4 A 201 O1B REMARK 620 2 6U4 A 201 O2A 86.0 REMARK 620 3 HOH A 310 O 51.2 123.9 REMARK 620 4 HOH A 398 O 86.0 96.1 53.1 REMARK 620 5 HOH A 420 O 83.0 168.8 49.1 85.5 REMARK 620 6 HOH A 513 O 169.1 100.6 118.2 84.7 90.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1002 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY B 36 O REMARK 620 2 GLU B 56 OE2 86.2 REMARK 620 3 6U4 B1001 O2B 104.2 102.1 REMARK 620 4 6U4 B1001 O1A 109.0 163.0 82.0 REMARK 620 5 HOH B1105 O 85.7 53.6 50.9 132.9 REMARK 620 6 HOH B1139 O 83.5 81.2 171.7 92.6 134.1 REMARK 620 7 HOH B1229 O 165.2 80.1 73.6 85.3 81.7 99.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1003 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 52 OE2 REMARK 620 2 6U4 B1001 O1B 103.5 REMARK 620 3 6U4 B1001 O2B 102.1 52.3 REMARK 620 4 HOH B1105 O 82.3 98.3 47.1 REMARK 620 5 HOH B1107 O 159.4 93.8 97.3 106.5 REMARK 620 6 HOH B1148 O 76.0 91.7 143.0 157.7 92.6 REMARK 620 7 HOH B1294 O 119.5 135.7 104.8 78.4 47.4 108.0 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6U4 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6U4 B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 1003 DBREF 5WS7 A 1 156 UNP P36639 8ODP_HUMAN 42 197 DBREF 5WS7 B 1 156 UNP P36639 8ODP_HUMAN 42 197 SEQADV 5WS7 LYS A 2 UNP P36639 GLY 43 ENGINEERED MUTATION SEQADV 5WS7 ALA A 87 UNP P36639 CYS 128 ENGINEERED MUTATION SEQADV 5WS7 SER A 104 UNP P36639 CYS 145 ENGINEERED MUTATION SEQADV 5WS7 LYS B 2 UNP P36639 GLY 43 ENGINEERED MUTATION SEQADV 5WS7 ALA B 87 UNP P36639 CYS 128 ENGINEERED MUTATION SEQADV 5WS7 SER B 104 UNP P36639 CYS 145 ENGINEERED MUTATION SEQRES 1 A 156 MET LYS ALA SER ARG LEU TYR THR LEU VAL LEU VAL LEU SEQRES 2 A 156 GLN PRO GLN ARG VAL LEU LEU GLY MET LYS LYS ARG GLY SEQRES 3 A 156 PHE GLY ALA GLY ARG TRP ASN GLY PHE GLY GLY LYS VAL SEQRES 4 A 156 GLN GLU GLY GLU THR ILE GLU ASP GLY ALA ARG ARG GLU SEQRES 5 A 156 LEU GLN GLU GLU SER GLY LEU THR VAL ASP ALA LEU HIS SEQRES 6 A 156 LYS VAL GLY GLN ILE VAL PHE GLU PHE VAL GLY GLU PRO SEQRES 7 A 156 GLU LEU MET ASP VAL HIS VAL PHE ALA THR ASP SER ILE SEQRES 8 A 156 GLN GLY THR PRO VAL GLU SER ASP GLU MET ARG PRO SER SEQRES 9 A 156 TRP PHE GLN LEU ASP GLN ILE PRO PHE LYS ASP MET TRP SEQRES 10 A 156 PRO ASP ASP SER TYR TRP PHE PRO LEU LEU LEU GLN LYS SEQRES 11 A 156 LYS LYS PHE HIS GLY TYR PHE LYS PHE GLN GLY GLN ASP SEQRES 12 A 156 THR ILE LEU ASP TYR THR LEU ARG GLU VAL ASP THR VAL SEQRES 1 B 156 MET LYS ALA SER ARG LEU TYR THR LEU VAL LEU VAL LEU SEQRES 2 B 156 GLN PRO GLN ARG VAL LEU LEU GLY MET LYS LYS ARG GLY SEQRES 3 B 156 PHE GLY ALA GLY ARG TRP ASN GLY PHE GLY GLY LYS VAL SEQRES 4 B 156 GLN GLU GLY GLU THR ILE GLU ASP GLY ALA ARG ARG GLU SEQRES 5 B 156 LEU GLN GLU GLU SER GLY LEU THR VAL ASP ALA LEU HIS SEQRES 6 B 156 LYS VAL GLY GLN ILE VAL PHE GLU PHE VAL GLY GLU PRO SEQRES 7 B 156 GLU LEU MET ASP VAL HIS VAL PHE ALA THR ASP SER ILE SEQRES 8 B 156 GLN GLY THR PRO VAL GLU SER ASP GLU MET ARG PRO SER SEQRES 9 B 156 TRP PHE GLN LEU ASP GLN ILE PRO PHE LYS ASP MET TRP SEQRES 10 B 156 PRO ASP ASP SER TYR TRP PHE PRO LEU LEU LEU GLN LYS SEQRES 11 B 156 LYS LYS PHE HIS GLY TYR PHE LYS PHE GLN GLY GLN ASP SEQRES 12 B 156 THR ILE LEU ASP TYR THR LEU ARG GLU VAL ASP THR VAL HET 6U4 A 201 31 HET NA A 202 2 HET NA A 203 1 HET 6U4 B1001 31 HET NA B1002 1 HET NA B1003 1 HETNAM 6U4 [[(2R,3S,5R)-5-(6-AZANYL-2-OXIDANYLIDENE-1H-PURIN-9- HETNAM 2 6U4 YL)-3-OXIDANYL-OXOLAN-2-YL]METHOXY-OXIDANYL- HETNAM 3 6U4 PHOSPHORYL] PHOSPHONO HYDROGEN PHOSPHATE HETNAM NA SODIUM ION HETSYN 6U4 2-OXO-DATP FORMUL 3 6U4 2(C10 H16 N5 O13 P3) FORMUL 4 NA 4(NA 1+) FORMUL 9 HOH *492(H2 O) HELIX 1 AA1 THR A 44 GLY A 58 1 15 HELIX 2 AA2 PRO A 112 MET A 116 5 5 HELIX 3 AA3 TRP A 117 PRO A 118 5 2 HELIX 4 AA4 ASP A 119 GLN A 129 1 11 HELIX 5 AA5 THR B 44 GLY B 58 1 15 HELIX 6 AA6 PRO B 112 MET B 116 5 5 HELIX 7 AA7 TRP B 117 PRO B 118 5 2 HELIX 8 AA8 ASP B 119 GLN B 129 1 11 SHEET 1 AA1 3 TRP A 32 ASN A 33 0 SHEET 2 AA1 3 ARG A 17 LYS A 23 -1 N GLY A 21 O ASN A 33 SHEET 3 AA1 3 MET A 101 GLN A 107 -1 O ARG A 102 N MET A 22 SHEET 1 AA2 7 TRP A 32 ASN A 33 0 SHEET 2 AA2 7 ARG A 17 LYS A 23 -1 N GLY A 21 O ASN A 33 SHEET 3 AA2 7 SER A 4 LEU A 13 -1 N VAL A 12 O LEU A 19 SHEET 4 AA2 7 LEU A 80 THR A 88 1 O ASP A 82 N ARG A 5 SHEET 5 AA2 7 LEU A 64 PHE A 74 -1 N ILE A 70 O VAL A 83 SHEET 6 AA2 7 LYS A 132 GLN A 140 1 O PHE A 139 N GLU A 73 SHEET 7 AA2 7 THR A 144 VAL A 153 -1 O ASP A 147 N LYS A 138 SHEET 1 AA3 3 TRP B 32 ASN B 33 0 SHEET 2 AA3 3 ARG B 17 LYS B 23 -1 N GLY B 21 O ASN B 33 SHEET 3 AA3 3 MET B 101 PHE B 106 -1 O ARG B 102 N MET B 22 SHEET 1 AA4 7 TRP B 32 ASN B 33 0 SHEET 2 AA4 7 ARG B 17 LYS B 23 -1 N GLY B 21 O ASN B 33 SHEET 3 AA4 7 SER B 4 GLN B 14 -1 N GLN B 14 O ARG B 17 SHEET 4 AA4 7 LEU B 80 GLN B 92 1 O ASP B 82 N ARG B 5 SHEET 5 AA4 7 THR B 60 PHE B 74 -1 N THR B 60 O GLN B 92 SHEET 6 AA4 7 LYS B 132 GLN B 140 1 O PHE B 139 N GLU B 73 SHEET 7 AA4 7 THR B 144 VAL B 153 -1 O ASP B 147 N LYS B 138 LINK O GLY A 36 NA B NA A 202 1555 1555 2.68 LINK OE2 GLU A 52 NA NA A 203 1555 1555 2.43 LINK OE2BGLU A 56 NA B NA A 202 1555 1555 2.48 LINK O1B 6U4 A 201 NA A NA A 202 1555 1555 2.30 LINK O2A 6U4 A 201 NA A NA A 202 1555 1555 2.35 LINK O2A 6U4 A 201 NA B NA A 202 1555 1555 3.18 LINK O2B 6U4 A 201 NA NA A 203 1555 1555 2.41 LINK NA A NA A 202 O HOH A 310 1555 1555 3.19 LINK NA A NA A 202 O HOH A 398 1555 1555 2.44 LINK NA A NA A 202 O HOH A 420 1555 1555 2.43 LINK NA B NA A 202 O HOH A 475 1555 1555 2.36 LINK NA A NA A 202 O HOH A 513 1555 1555 2.51 LINK NA NA A 203 O HOH A 311 1555 1555 2.41 LINK NA NA A 203 O HOH A 313 1555 1555 2.47 LINK NA NA A 203 O HOH A 336 1555 1555 2.39 LINK NA NA A 203 O HOH A 405 1555 1555 2.32 LINK O GLY B 36 NA NA B1002 1555 1555 2.42 LINK OE2 GLU B 52 NA NA B1003 1555 1555 2.54 LINK OE2BGLU B 56 NA NA B1002 1555 1555 2.22 LINK O2B 6U4 B1001 NA NA B1002 1555 1555 2.30 LINK O1A 6U4 B1001 NA NA B1002 1555 1555 2.31 LINK O1B 6U4 B1001 NA NA B1003 1555 1555 2.61 LINK O2B 6U4 B1001 NA NA B1003 1555 1555 3.19 LINK NA NA B1002 O HOH B1105 1555 1555 3.09 LINK NA NA B1002 O HOH B1139 1555 1555 2.41 LINK NA NA B1002 O HOH B1229 1555 1555 2.54 LINK NA NA B1003 O HOH B1105 1555 1555 2.81 LINK NA NA B1003 O HOH B1107 1555 1555 2.96 LINK NA NA B1003 O HOH B1148 1555 1555 2.77 LINK NA NA B1003 O HOH B1294 1555 1555 2.39 SITE 1 AC1 30 TYR A 7 THR A 8 LEU A 9 ASN A 33 SITE 2 AC1 30 GLY A 36 GLY A 37 LYS A 38 PHE A 72 SITE 3 AC1 30 MET A 81 TRP A 117 ASP A 119 ASP A 120 SITE 4 AC1 30 TRP A 123 NA A 202 NA A 203 HOH A 310 SITE 5 AC1 30 HOH A 311 HOH A 313 HOH A 319 HOH A 321 SITE 6 AC1 30 HOH A 327 HOH A 334 HOH A 347 HOH A 366 SITE 7 AC1 30 HOH A 398 HOH A 414 HOH A 423 HOH A 457 SITE 8 AC1 30 HOH A 493 HOH B1283 SITE 1 AC2 7 GLY A 36 GLU A 56 6U4 A 201 HOH A 398 SITE 2 AC2 7 HOH A 420 HOH A 475 HOH A 513 SITE 1 AC3 6 GLU A 52 6U4 A 201 HOH A 311 HOH A 313 SITE 2 AC3 6 HOH A 336 HOH A 405 SITE 1 AC4 28 TYR B 7 THR B 8 LEU B 9 LYS B 23 SITE 2 AC4 28 PHE B 27 ASN B 33 GLY B 36 GLY B 37 SITE 3 AC4 28 LYS B 38 GLU B 56 PHE B 72 MET B 81 SITE 4 AC4 28 GLU B 100 TRP B 117 ASP B 119 ASP B 120 SITE 5 AC4 28 TRP B 123 PHE B 139 NA B1002 NA B1003 SITE 6 AC4 28 HOH B1105 HOH B1107 HOH B1155 HOH B1163 SITE 7 AC4 28 HOH B1177 HOH B1207 HOH B1229 HOH B1255 SITE 1 AC5 6 GLY B 36 GLU B 56 6U4 B1001 HOH B1105 SITE 2 AC5 6 HOH B1139 HOH B1229 SITE 1 AC6 6 GLU B 52 6U4 B1001 HOH B1105 HOH B1107 SITE 2 AC6 6 HOH B1148 HOH B1294 CRYST1 46.620 47.344 123.818 90.00 90.00 90.00 P 21 21 21 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 0.021450 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021122 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008076 0.00000