HEADER HYDROLASE 09-DEC-15 5F9K TITLE DICTYOSTELIUM DISCOIDEUM DUTPASE AT 2.2 ANGSTROM COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDOHYDROLASE; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: UNP RESIDUES 38-179; COMPND 5 SYNONYM: DUTPASE,DUTP PYROPHOSPHATASE; COMPND 6 EC: 3.6.1.23; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DICTYOSTELIUM DISCOIDEUM; SOURCE 3 ORGANISM_COMMON: SLIME MOLD; SOURCE 4 ORGANISM_TAXID: 44689; SOURCE 5 GENE: DUT, DDB_G0293374; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR N.INOGUCHI,C.P.CHIA,K.HECK,H.MORIYAMA REVDAT 4 27-SEP-23 5F9K 1 LINK REVDAT 3 22-JAN-20 5F9K 1 JRNL REVDAT 2 27-SEP-17 5F9K 1 REMARK REVDAT 1 14-DEC-16 5F9K 0 JRNL AUTH C.P.CHIA,N.INOGUCHI,K.C.VARON,B.M.BARTHOLOMAI,H.MORIYAMA JRNL TITL MITOCHONDRIAL LOCALIZATION OF DICTYOSTELIUM DISCOIDEUM JRNL TITL 2 DUTPASE MEDIATED BY ITS N-TERMINUS. JRNL REF BMC RES NOTES V. 13 16 2020 JRNL REFN ESSN 1756-0500 JRNL PMID 31910901 JRNL DOI 10.1186/S13104-019-4879-7 REMARK 2 REMARK 2 RESOLUTION. 2.18 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.63 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 20593 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.620 REMARK 3 FREE R VALUE TEST SET COUNT : 1982 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 32.6389 - 5.2440 0.96 1391 156 0.1933 0.2330 REMARK 3 2 5.2440 - 4.1651 0.97 1354 147 0.1756 0.2004 REMARK 3 3 4.1651 - 3.6394 0.98 1333 148 0.1856 0.2254 REMARK 3 4 3.6394 - 3.3070 0.99 1367 139 0.2012 0.2462 REMARK 3 5 3.3070 - 3.0701 1.00 1346 141 0.2235 0.2621 REMARK 3 6 3.0701 - 2.8892 1.00 1346 146 0.2441 0.2718 REMARK 3 7 2.8892 - 2.7446 1.00 1353 137 0.2454 0.2700 REMARK 3 8 2.7446 - 2.6252 1.00 1353 142 0.2459 0.3144 REMARK 3 9 2.6252 - 2.5242 1.00 1311 160 0.2451 0.3411 REMARK 3 10 2.5242 - 2.4371 1.00 1337 134 0.2500 0.3373 REMARK 3 11 2.4371 - 2.3609 1.00 1350 133 0.2494 0.2867 REMARK 3 12 2.3609 - 2.2935 1.00 1336 143 0.2499 0.3227 REMARK 3 13 2.2935 - 2.2331 1.00 1333 141 0.2545 0.3120 REMARK 3 14 2.2331 - 2.1786 0.83 1101 115 0.2567 0.3450 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.080 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 : 0.011 3068 REMARK 3 ANGLE : 1.411 4171 REMARK 3 CHIRALITY : 0.058 462 REMARK 3 PLANARITY : 0.008 531 REMARK 3 DIHEDRAL : 13.391 1095 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 5F9K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-DEC-15. REMARK 100 THE DEPOSITION ID IS D_1000216067. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9787 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20630 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.179 REMARK 200 RESOLUTION RANGE LOW (A) : 32.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.3900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 4OOP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, MAGNESIUM CHLORIDE, REMARK 280 POTASSIUM PHOSPHATE, AND 2'DEOXYURIDINE 5'-ALPHA, BETA-IMIDO- REMARK 280 TRIPHOSPHATE (DUMPNPP), PH 7.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K 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 35.81650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.57900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.22900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 37.57900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.81650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.22900 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: 11620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -96.0 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 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 GLU A 129 REMARK 465 THR A 130 REMARK 465 GLN A 131 REMARK 465 ARG A 132 REMARK 465 GLY A 133 REMARK 465 ALA A 134 REMARK 465 GLY A 135 REMARK 465 GLY A 136 REMARK 465 PHE A 137 REMARK 465 GLY A 138 REMARK 465 SER A 139 REMARK 465 THR A 140 REMARK 465 GLY A 141 REMARK 465 VAL A 142 REMARK 465 LYS A 143 REMARK 465 VAL A 144 REMARK 465 GLN A 145 REMARK 465 ASN A 146 REMARK 465 GLN B 131 REMARK 465 ARG B 132 REMARK 465 GLY B 133 REMARK 465 ALA B 134 REMARK 465 GLY B 135 REMARK 465 GLY B 136 REMARK 465 PHE B 137 REMARK 465 GLY B 138 REMARK 465 SER B 139 REMARK 465 THR B 140 REMARK 465 GLY B 141 REMARK 465 VAL B 142 REMARK 465 LYS B 143 REMARK 465 VAL B 144 REMARK 465 GLN B 145 REMARK 465 ASN B 146 REMARK 465 GLU C 129 REMARK 465 THR C 130 REMARK 465 GLN C 131 REMARK 465 ARG C 132 REMARK 465 GLY C 133 REMARK 465 ALA C 134 REMARK 465 GLY C 135 REMARK 465 GLY C 136 REMARK 465 PHE C 137 REMARK 465 GLY C 138 REMARK 465 SER C 139 REMARK 465 THR C 140 REMARK 465 GLY C 141 REMARK 465 VAL C 142 REMARK 465 LYS C 143 REMARK 465 VAL C 144 REMARK 465 GLN C 145 REMARK 465 ASN C 146 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 C 120 O HOH C 301 1.95 REMARK 500 N SER C 2 O HOH C 302 1.96 REMARK 500 O HOH A 304 O HOH A 353 1.97 REMARK 500 OE1 GLU A 120 O HOH A 301 2.02 REMARK 500 OE2 GLU C 34 O HOH C 303 2.03 REMARK 500 OD1 ASP A 81 O HOH A 302 2.03 REMARK 500 O VAL C 104 O HOH C 304 2.04 REMARK 500 NE2 HIS B 40 OD1 ASP B 97 2.08 REMARK 500 O4 DUP B 201 O HOH B 301 2.10 REMARK 500 NH2 ARG A 60 O HOH A 303 2.14 REMARK 500 NH2 ARG A 115 O HOH A 304 2.14 REMARK 500 N GLY A 66 O1G DUP A 201 2.19 REMARK 500 OE1 GLU A 123 O HOH A 305 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 355 O HOH B 344 3645 1.99 REMARK 500 REMARK 500 REMARK: NULL 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 GLU B 120 CB GLU B 120 CG 0.133 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 60 NE - CZ - NH2 ANGL. DEV. = -4.0 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 ALA A 77 -121.17 47.67 REMARK 500 ALA B 77 -117.18 48.08 REMARK 500 SER C 2 -90.86 -104.74 REMARK 500 ALA C 77 -122.39 53.94 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 C 360 DISTANCE = 6.15 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 MG B 204 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE B 61 O REMARK 620 2 HOH B 315 O 112.1 REMARK 620 3 HOH B 323 O 126.7 73.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 315 O REMARK 620 2 HOH C 337 O 93.3 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DUP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DUP B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DUP C 203 DBREF 5F9K A 5 146 UNP Q54BW5 DUT_DICDI 38 179 DBREF 5F9K B 5 146 UNP Q54BW5 DUT_DICDI 38 179 DBREF 5F9K C 5 146 UNP Q54BW5 DUT_DICDI 38 179 SEQADV 5F9K GLY A 1 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K SER A 2 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K HIS A 3 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K MET A 4 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K GLY B 1 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K SER B 2 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K HIS B 3 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K MET B 4 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K GLY C 1 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K SER C 2 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K HIS C 3 UNP Q54BW5 EXPRESSION TAG SEQADV 5F9K MET C 4 UNP Q54BW5 EXPRESSION TAG SEQRES 1 A 146 GLY SER HIS MET PHE LYS VAL LYS LYS LEU SER ASP LYS SEQRES 2 A 146 ALA ILE ILE PRO GLN ARG GLY SER LYS GLY ALA ALA GLY SEQRES 3 A 146 TYR ASP LEU SER SER ALA HIS GLU LEU VAL VAL PRO ALA SEQRES 4 A 146 HIS GLY LYS ALA LEU ALA MET THR ASP LEU GLN ILE ALA SEQRES 5 A 146 ILE PRO ASP GLY THR TYR GLY ARG ILE ALA PRO ARG SER SEQRES 6 A 146 GLY LEU ALA TRP LYS ASN PHE ILE ASP CYS GLY ALA GLY SEQRES 7 A 146 VAL ILE ASP SER ASP TYR ARG GLY ASN VAL GLY VAL VAL SEQRES 8 A 146 LEU PHE ASN HIS SER ASP VAL ASP PHE LYS VAL ALA VAL SEQRES 9 A 146 GLY ASP ARG VAL ALA GLN LEU ILE PHE GLU ARG ILE VAL SEQRES 10 A 146 THR PRO GLU PRO LEU GLU VAL ASP GLU ILE ASP GLU THR SEQRES 11 A 146 GLN ARG GLY ALA GLY GLY PHE GLY SER THR GLY VAL LYS SEQRES 12 A 146 VAL GLN ASN SEQRES 1 B 146 GLY SER HIS MET PHE LYS VAL LYS LYS LEU SER ASP LYS SEQRES 2 B 146 ALA ILE ILE PRO GLN ARG GLY SER LYS GLY ALA ALA GLY SEQRES 3 B 146 TYR ASP LEU SER SER ALA HIS GLU LEU VAL VAL PRO ALA SEQRES 4 B 146 HIS GLY LYS ALA LEU ALA MET THR ASP LEU GLN ILE ALA SEQRES 5 B 146 ILE PRO ASP GLY THR TYR GLY ARG ILE ALA PRO ARG SER SEQRES 6 B 146 GLY LEU ALA TRP LYS ASN PHE ILE ASP CYS GLY ALA GLY SEQRES 7 B 146 VAL ILE ASP SER ASP TYR ARG GLY ASN VAL GLY VAL VAL SEQRES 8 B 146 LEU PHE ASN HIS SER ASP VAL ASP PHE LYS VAL ALA VAL SEQRES 9 B 146 GLY ASP ARG VAL ALA GLN LEU ILE PHE GLU ARG ILE VAL SEQRES 10 B 146 THR PRO GLU PRO LEU GLU VAL ASP GLU ILE ASP GLU THR SEQRES 11 B 146 GLN ARG GLY ALA GLY GLY PHE GLY SER THR GLY VAL LYS SEQRES 12 B 146 VAL GLN ASN SEQRES 1 C 146 GLY SER HIS MET PHE LYS VAL LYS LYS LEU SER ASP LYS SEQRES 2 C 146 ALA ILE ILE PRO GLN ARG GLY SER LYS GLY ALA ALA GLY SEQRES 3 C 146 TYR ASP LEU SER SER ALA HIS GLU LEU VAL VAL PRO ALA SEQRES 4 C 146 HIS GLY LYS ALA LEU ALA MET THR ASP LEU GLN ILE ALA SEQRES 5 C 146 ILE PRO ASP GLY THR TYR GLY ARG ILE ALA PRO ARG SER SEQRES 6 C 146 GLY LEU ALA TRP LYS ASN PHE ILE ASP CYS GLY ALA GLY SEQRES 7 C 146 VAL ILE ASP SER ASP TYR ARG GLY ASN VAL GLY VAL VAL SEQRES 8 C 146 LEU PHE ASN HIS SER ASP VAL ASP PHE LYS VAL ALA VAL SEQRES 9 C 146 GLY ASP ARG VAL ALA GLN LEU ILE PHE GLU ARG ILE VAL SEQRES 10 C 146 THR PRO GLU PRO LEU GLU VAL ASP GLU ILE ASP GLU THR SEQRES 11 C 146 GLN ARG GLY ALA GLY GLY PHE GLY SER THR GLY VAL LYS SEQRES 12 C 146 VAL GLN ASN HET DUP A 201 28 HET DUP B 201 28 HET MG B 202 1 HET MG B 203 1 HET MG B 204 1 HET MG B 205 1 HET MG C 201 1 HET SO4 C 202 5 HET DUP C 203 28 HETNAM DUP 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION FORMUL 4 DUP 3(C9 H16 N3 O13 P3) FORMUL 6 MG 5(MG 2+) FORMUL 11 SO4 O4 S 2- FORMUL 13 HOH *167(H2 O) HELIX 1 AA1 ARG A 64 PHE A 72 1 9 HELIX 2 AA2 ARG B 64 PHE B 72 1 9 HELIX 3 AA3 ARG C 64 PHE C 72 1 9 SHEET 1 AA1 3 LEU A 49 ILE A 51 0 SHEET 2 AA1 3 MET A 4 LYS A 9 -1 N LYS A 8 O GLN A 50 SHEET 3 AA1 3 GLU C 120 GLU C 123 1 O LEU C 122 N PHE A 5 SHEET 1 AA2 6 VAL C 79 ILE C 80 0 SHEET 2 AA2 6 THR C 57 ALA C 62 -1 N GLY C 59 O ILE C 80 SHEET 3 AA2 6 ARG C 107 VAL C 117 -1 O GLN C 110 N ALA C 62 SHEET 4 AA2 6 ARG B 107 VAL B 117 -1 N ARG B 115 O ARG C 115 SHEET 5 AA2 6 THR B 57 ALA B 62 -1 N ARG B 60 O ILE B 112 SHEET 6 AA2 6 VAL B 79 ILE B 80 -1 O ILE B 80 N GLY B 59 SHEET 1 AA3 5 TYR B 27 SER B 30 0 SHEET 2 AA3 5 ARG B 107 VAL B 117 -1 O LEU B 111 N TYR B 27 SHEET 3 AA3 5 ARG A 107 VAL A 117 -1 N ARG A 115 O ARG B 115 SHEET 4 AA3 5 THR A 57 ALA A 62 -1 N ALA A 62 O GLN A 110 SHEET 5 AA3 5 VAL A 79 ILE A 80 -1 O ILE A 80 N GLY A 59 SHEET 1 AA4 5 GLN A 18 ARG A 19 0 SHEET 2 AA4 5 TYR A 27 SER A 30 -1 O ASP A 28 N GLN A 18 SHEET 3 AA4 5 ARG A 107 VAL A 117 -1 O LEU A 111 N TYR A 27 SHEET 4 AA4 5 ARG C 107 VAL C 117 -1 O ARG C 115 N ARG A 115 SHEET 5 AA4 5 TYR C 27 SER C 30 -1 N TYR C 27 O LEU C 111 SHEET 1 AA5 7 VAL A 79 ILE A 80 0 SHEET 2 AA5 7 THR A 57 ALA A 62 -1 N GLY A 59 O ILE A 80 SHEET 3 AA5 7 ARG A 107 VAL A 117 -1 O GLN A 110 N ALA A 62 SHEET 4 AA5 7 ARG C 107 VAL C 117 -1 O ARG C 115 N ARG A 115 SHEET 5 AA5 7 ARG B 107 VAL B 117 -1 N ARG B 115 O ARG C 115 SHEET 6 AA5 7 THR B 57 ALA B 62 -1 N ARG B 60 O ILE B 112 SHEET 7 AA5 7 VAL B 79 ILE B 80 -1 O ILE B 80 N GLY B 59 SHEET 1 AA6 2 LEU A 35 VAL A 37 0 SHEET 2 AA6 2 PHE A 100 VAL A 102 -1 O VAL A 102 N LEU A 35 SHEET 1 AA7 3 GLY A 41 MET A 46 0 SHEET 2 AA7 3 GLY A 89 ASN A 94 -1 O VAL A 90 N ALA A 45 SHEET 3 AA7 3 ILE A 73 GLY A 76 -1 N ASP A 74 O PHE A 93 SHEET 1 AA8 3 LEU A 122 GLU A 123 0 SHEET 2 AA8 3 LYS B 6 LYS B 9 1 O VAL B 7 N LEU A 122 SHEET 3 AA8 3 LEU B 49 ALA B 52 -1 O GLN B 50 N LYS B 8 SHEET 1 AA9 2 LEU B 35 VAL B 37 0 SHEET 2 AA9 2 PHE B 100 VAL B 102 -1 O VAL B 102 N LEU B 35 SHEET 1 AB1 3 LYS B 42 MET B 46 0 SHEET 2 AB1 3 GLY B 89 ASN B 94 -1 O VAL B 90 N ALA B 45 SHEET 3 AB1 3 ILE B 73 GLY B 76 -1 N ASP B 74 O PHE B 93 SHEET 1 AB2 3 LEU B 122 GLU B 123 0 SHEET 2 AB2 3 LYS C 6 LYS C 9 1 O VAL C 7 N LEU B 122 SHEET 3 AB2 3 LEU C 49 ALA C 52 -1 O GLN C 50 N LYS C 8 SHEET 1 AB3 2 LEU C 35 VAL C 37 0 SHEET 2 AB3 2 PHE C 100 VAL C 102 -1 O VAL C 102 N LEU C 35 SHEET 1 AB4 3 GLY C 41 MET C 46 0 SHEET 2 AB4 3 GLY C 89 ASN C 94 -1 O VAL C 90 N ALA C 45 SHEET 3 AB4 3 ILE C 73 GLY C 76 -1 N GLY C 76 O VAL C 91 LINK O ILE B 61 MG MG B 204 1555 1555 2.92 LINK OD2 ASP B 81 MG MG B 202 1555 1555 2.71 LINK O2B DUP B 201 MG MG B 203 1555 1555 2.05 LINK MG MG B 204 O HOH B 315 1555 1555 2.98 LINK MG MG B 204 O HOH B 323 1555 1555 2.46 LINK MG MG B 205 O HOH B 302 1555 1555 2.33 LINK O HOH B 315 MG MG C 201 1555 1555 2.81 LINK MG MG C 201 O HOH C 337 1555 1555 2.71 SITE 1 AC1 11 ARG A 64 SER A 65 GLY A 66 HOH A 309 SITE 2 AC1 11 ALA C 77 GLY C 78 VAL C 79 ILE C 80 SITE 3 AC1 11 ASP C 81 TYR C 84 GLY C 89 SITE 1 AC2 8 GLY A 89 VAL A 91 ARG B 64 SER B 65 SITE 2 AC2 8 GLY B 66 ARG B 107 MG B 203 HOH B 301 SITE 1 AC3 4 VAL B 79 ASP B 81 GLN C 110 DUP C 203 SITE 1 AC4 4 ARG B 64 SER B 65 GLN B 110 DUP B 201 SITE 1 AC5 5 ARG B 60 ILE B 61 HOH B 315 HOH B 323 SITE 2 AC5 5 MG C 201 SITE 1 AC6 3 HOH B 302 MG C 201 HOH C 329 SITE 1 AC7 5 MG B 204 MG B 205 HOH B 315 ARG C 60 SITE 2 AC7 5 HOH C 337 SITE 1 AC8 5 LYS C 9 ALA C 14 ILE C 15 ILE C 16 SITE 2 AC8 5 HOH C 346 SITE 1 AC9 14 ALA B 77 GLY B 78 VAL B 79 ILE B 80 SITE 2 AC9 14 ASP B 81 TYR B 84 GLY B 89 MG B 202 SITE 3 AC9 14 HOH B 312 ARG C 64 SER C 65 GLY C 66 SITE 4 AC9 14 GLN C 110 HOH C 343 CRYST1 71.633 72.458 75.158 90.00 90.00 90.00 P 21 21 21 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 0.013960 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013801 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013305 0.00000