HEADER HYDROLASE 19-OCT-25 9YSM TITLE HUMAN DCTPP1 BOUND TO MPD COMPND MOL_ID: 1; COMPND 2 MOLECULE: DCTP PYROPHOSPHATASE 1; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: DEOXYCYTIDINE-TRIPHOSPHATASE 1,DCTPASE 1,RS21C6,XTP3- COMPND 5 TRANSACTIVATED GENE A PROTEIN; COMPND 6 EC: 3.6.1.12; COMPND 7 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: DCTPP1, XTP3TPA, CDA03; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, PYROPHOSPHATASE, HYDROLASE, HYDROLASE-INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR G.HAUK,J.M.BERGER REVDAT 1 10-JUN-26 9YSM 0 JRNL AUTH G.HAUK,J.LIU,W.G.NELSON,S.YEGNASUBRAMANIAN,J.M.BERGER JRNL TITL STRUCTURAL INSIGHTS INTO NOVEL DCTPP1 ANTAGONISTS AND THEIR JRNL TITL 2 SYNERGISTIC ACTION WITH DNMT INHIBITORS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.77 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 41601 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1998 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 28.7700 - 4.3700 0.98 3048 158 0.1998 0.2488 REMARK 3 2 4.3700 - 3.4700 0.98 2971 153 0.1560 0.1601 REMARK 3 3 3.4700 - 3.0300 0.98 2972 144 0.1771 0.2096 REMARK 3 4 3.0300 - 2.7600 0.99 2970 151 0.1786 0.2097 REMARK 3 5 2.7500 - 2.5600 0.99 2955 150 0.1687 0.2366 REMARK 3 6 2.5600 - 2.4100 0.99 2962 139 0.1664 0.2222 REMARK 3 7 2.4100 - 2.2900 1.00 2967 145 0.1596 0.2113 REMARK 3 8 2.2900 - 2.1900 1.00 2973 148 0.1555 0.2038 REMARK 3 9 2.1900 - 2.1000 1.00 2949 164 0.1802 0.2289 REMARK 3 10 2.1000 - 2.0300 0.99 2957 146 0.1893 0.2610 REMARK 3 11 2.0300 - 1.9700 0.98 2877 149 0.1979 0.2414 REMARK 3 12 1.9700 - 1.9100 0.94 2784 133 0.2803 0.3290 REMARK 3 13 1.9100 - 1.8600 0.81 2420 119 0.3143 0.3777 REMARK 3 14 1.8600 - 1.8100 0.62 1798 99 0.3670 0.4248 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.238 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.560 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.54 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.97 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 : 0.015 3556 REMARK 3 ANGLE : 1.414 4830 REMARK 3 CHIRALITY : 0.088 519 REMARK 3 PLANARITY : 0.028 618 REMARK 3 DIHEDRAL : 17.716 1329 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): 19.7299 -9.2647 28.1252 REMARK 3 T TENSOR REMARK 3 T11: 0.1904 T22: 0.1628 REMARK 3 T33: 0.1714 T12: 0.0015 REMARK 3 T13: 0.0136 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.2250 L22: 0.3257 REMARK 3 L33: 0.5336 L12: -0.2095 REMARK 3 L13: -0.2850 L23: 0.3680 REMARK 3 S TENSOR REMARK 3 S11: -0.0045 S12: -0.0195 S13: 0.0208 REMARK 3 S21: -0.0382 S22: 0.0309 S23: -0.0311 REMARK 3 S31: 0.0493 S32: 0.0456 S33: -0.0289 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 9YSM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-NOV-25. REMARK 100 THE DEPOSITION ID IS D_1000297096. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-18 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 : NSLS-II REMARK 200 BEAMLINE : 17-ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41611 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.810 REMARK 200 RESOLUTION RANGE LOW (A) : 28.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.81 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 42% MPD, 80MM NACL, 80MM MGCL2, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -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 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 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 21370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -322.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 -6.39118 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 93.99096 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 20540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -296.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 BIOMT1 2 -1.000000 0.000000 0.000000 61.90700 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 344 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 354 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 361 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 349 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 350 LIES ON A SPECIAL POSITION. 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 21 REMARK 465 THR A 75 REMARK 465 ASP A 76 REMARK 465 GLY A 77 REMARK 465 GLU A 78 REMARK 465 GLY B 21 REMARK 465 ASP B 76 REMARK 465 GLY B 77 REMARK 465 GLU B 78 REMARK 465 PRO B 79 REMARK 465 GLY C 21 REMARK 465 THR C 75 REMARK 465 ASP C 76 REMARK 465 GLY C 77 REMARK 465 GLU C 78 REMARK 465 GLY D 21 REMARK 465 ARG D 22 REMARK 465 THR D 75 REMARK 465 ASP D 76 REMARK 465 GLY D 77 REMARK 465 GLU D 78 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 GLU A 44 CG CD OE1 OE2 REMARK 470 ASP B 46 CG OD1 OD2 REMARK 470 GLU B 48 CG CD OE1 OE2 REMARK 470 GLU B 69 CG CD OE1 OE2 REMARK 470 GLN B 82 CG CD OE1 NE2 REMARK 470 GLU C 28 CG CD OE1 OE2 REMARK 470 GLU C 48 CG CD OE1 OE2 REMARK 470 GLN C 49 CG CD OE1 NE2 REMARK 470 ARG C 111 CG CD NE CZ NH1 NH2 REMARK 470 GLN D 49 CG CD OE1 NE2 REMARK 470 GLN D 52 CG CD OE1 NE2 REMARK 470 GLU D 69 CG CD OE1 OE2 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 H GLY C 80 O HOH C 301 1.53 REMARK 500 HH21 ARG B 89 O HOH B 301 1.59 REMARK 500 O HOH A 347 O HOH A 359 1.78 REMARK 500 O HOH B 372 O HOH C 357 2.10 REMARK 500 O HOH B 387 O HOH B 388 2.14 REMARK 500 O HOH D 302 O HOH D 320 2.16 REMARK 500 O HOH B 310 O HOH B 372 2.18 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 ND2 ASN C 55 NH1 ARG D 54 2655 1.03 REMARK 500 HD21 ASN C 55 NH1 ARG D 54 2655 1.39 REMARK 500 ND2 ASN C 55 CZ ARG D 54 2655 1.56 REMARK 500 ND2 ASN C 55 NH2 ARG D 54 2655 1.82 REMARK 500 OE2 GLU C 69 O HOH C 326 2655 1.96 REMARK 500 ND2 ASN A 55 NH1 ARG B 54 2556 2.07 REMARK 500 O HOH B 373 O HOH B 386 2656 2.13 REMARK 500 CG ASN C 55 NH1 ARG D 54 2655 2.18 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 TYR A 129 61.43 -118.08 REMARK 500 TYR C 129 59.78 -119.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 54 0.18 SIDE CHAIN REMARK 500 ARG A 126 0.13 SIDE CHAIN REMARK 500 ARG C 54 0.11 SIDE CHAIN REMARK 500 ARG D 54 0.23 SIDE CHAIN 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 B 388 DISTANCE = 6.72 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 A 205 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 63 OE1 REMARK 620 2 GLU A 66 OE1 89.4 REMARK 620 3 GLU A 95 OE1 95.4 81.4 REMARK 620 4 ASP A 98 OD2 95.3 175.0 96.4 REMARK 620 5 HOH A 305 O 169.9 81.8 88.3 93.7 REMARK 620 6 HOH A 315 O 87.9 93.5 173.8 88.5 87.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 63 OE1 REMARK 620 2 GLU B 66 OE1 84.6 REMARK 620 3 GLU B 95 OE1 95.5 85.7 REMARK 620 4 ASP B 98 OD2 93.0 177.3 93.1 REMARK 620 5 HOH B 313 O 172.1 91.5 91.0 91.0 REMARK 620 6 HOH B 325 O 87.1 92.1 176.4 89.2 86.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 63 OE1 REMARK 620 2 GLU C 66 OE1 93.0 REMARK 620 3 GLU C 95 OE1 97.8 88.2 REMARK 620 4 ASP C 98 OD2 93.0 173.6 93.3 REMARK 620 5 HOH C 314 O 88.3 91.3 173.9 86.4 REMARK 620 6 HOH C 321 O 173.0 86.7 89.1 87.0 84.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 204 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 63 OE1 REMARK 620 2 GLU D 66 OE1 89.8 REMARK 620 3 GLU D 95 OE1 94.9 89.2 REMARK 620 4 ASP D 98 OD2 89.0 178.1 89.3 REMARK 620 5 HOH D 310 O 175.3 90.2 89.8 91.0 REMARK 620 6 HOH D 311 O 86.6 92.7 177.5 88.8 88.6 REMARK 620 N 1 2 3 4 5 DBREF 9YSM A 21 130 UNP Q9H773 DCTP1_HUMAN 21 130 DBREF 9YSM B 21 130 UNP Q9H773 DCTP1_HUMAN 21 130 DBREF 9YSM C 21 130 UNP Q9H773 DCTP1_HUMAN 21 130 DBREF 9YSM D 21 130 UNP Q9H773 DCTP1_HUMAN 21 130 SEQRES 1 A 110 GLY ARG PHE SER PHE SER PRO GLU PRO THR LEU GLU ASP SEQRES 2 A 110 ILE ARG ARG LEU HIS ALA GLU PHE ALA ALA GLU ARG ASP SEQRES 3 A 110 TRP GLU GLN PHE HIS GLN PRO ARG ASN LEU LEU LEU ALA SEQRES 4 A 110 LEU VAL GLY GLU VAL GLY GLU LEU ALA GLU LEU PHE GLN SEQRES 5 A 110 TRP LYS THR ASP GLY GLU PRO GLY PRO GLN GLY TRP SER SEQRES 6 A 110 PRO ARG GLU ARG ALA ALA LEU GLN GLU GLU LEU SER ASP SEQRES 7 A 110 VAL LEU ILE TYR LEU VAL ALA LEU ALA ALA ARG CYS ARG SEQRES 8 A 110 VAL ASP LEU PRO LEU ALA VAL LEU SER LYS MET ASP ILE SEQRES 9 A 110 ASN ARG ARG ARG TYR PRO SEQRES 1 B 110 GLY ARG PHE SER PHE SER PRO GLU PRO THR LEU GLU ASP SEQRES 2 B 110 ILE ARG ARG LEU HIS ALA GLU PHE ALA ALA GLU ARG ASP SEQRES 3 B 110 TRP GLU GLN PHE HIS GLN PRO ARG ASN LEU LEU LEU ALA SEQRES 4 B 110 LEU VAL GLY GLU VAL GLY GLU LEU ALA GLU LEU PHE GLN SEQRES 5 B 110 TRP LYS THR ASP GLY GLU PRO GLY PRO GLN GLY TRP SER SEQRES 6 B 110 PRO ARG GLU ARG ALA ALA LEU GLN GLU GLU LEU SER ASP SEQRES 7 B 110 VAL LEU ILE TYR LEU VAL ALA LEU ALA ALA ARG CYS ARG SEQRES 8 B 110 VAL ASP LEU PRO LEU ALA VAL LEU SER LYS MET ASP ILE SEQRES 9 B 110 ASN ARG ARG ARG TYR PRO SEQRES 1 C 110 GLY ARG PHE SER PHE SER PRO GLU PRO THR LEU GLU ASP SEQRES 2 C 110 ILE ARG ARG LEU HIS ALA GLU PHE ALA ALA GLU ARG ASP SEQRES 3 C 110 TRP GLU GLN PHE HIS GLN PRO ARG ASN LEU LEU LEU ALA SEQRES 4 C 110 LEU VAL GLY GLU VAL GLY GLU LEU ALA GLU LEU PHE GLN SEQRES 5 C 110 TRP LYS THR ASP GLY GLU PRO GLY PRO GLN GLY TRP SER SEQRES 6 C 110 PRO ARG GLU ARG ALA ALA LEU GLN GLU GLU LEU SER ASP SEQRES 7 C 110 VAL LEU ILE TYR LEU VAL ALA LEU ALA ALA ARG CYS ARG SEQRES 8 C 110 VAL ASP LEU PRO LEU ALA VAL LEU SER LYS MET ASP ILE SEQRES 9 C 110 ASN ARG ARG ARG TYR PRO SEQRES 1 D 110 GLY ARG PHE SER PHE SER PRO GLU PRO THR LEU GLU ASP SEQRES 2 D 110 ILE ARG ARG LEU HIS ALA GLU PHE ALA ALA GLU ARG ASP SEQRES 3 D 110 TRP GLU GLN PHE HIS GLN PRO ARG ASN LEU LEU LEU ALA SEQRES 4 D 110 LEU VAL GLY GLU VAL GLY GLU LEU ALA GLU LEU PHE GLN SEQRES 5 D 110 TRP LYS THR ASP GLY GLU PRO GLY PRO GLN GLY TRP SER SEQRES 6 D 110 PRO ARG GLU ARG ALA ALA LEU GLN GLU GLU LEU SER ASP SEQRES 7 D 110 VAL LEU ILE TYR LEU VAL ALA LEU ALA ALA ARG CYS ARG SEQRES 8 D 110 VAL ASP LEU PRO LEU ALA VAL LEU SER LYS MET ASP ILE SEQRES 9 D 110 ASN ARG ARG ARG TYR PRO HET MPD A 201 22 HET MPD A 202 22 HET MPD A 203 22 HET MPD A 204 22 HET MG A 205 1 HET MPD B 201 22 HET MPD B 202 22 HET MG B 203 1 HET MPD C 201 22 HET MPD C 202 22 HET MG C 203 1 HET MPD D 201 22 HET MPD D 202 22 HET MPD D 203 22 HET MG D 204 1 HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MG MAGNESIUM ION FORMUL 5 MPD 11(C6 H14 O2) FORMUL 9 MG 4(MG 2+) FORMUL 20 HOH *294(H2 O) HELIX 1 AA1 THR A 30 ARG A 45 1 16 HELIX 2 AA2 ASP A 46 HIS A 51 5 6 HELIX 3 AA3 GLN A 52 GLN A 72 1 21 HELIX 4 AA4 GLY A 80 TRP A 84 5 5 HELIX 5 AA5 SER A 85 CYS A 110 1 26 HELIX 6 AA6 ASP A 113 TYR A 129 1 17 HELIX 7 AA7 THR B 30 ASP B 46 1 17 HELIX 8 AA8 TRP B 47 HIS B 51 5 5 HELIX 9 AA9 GLN B 52 TRP B 73 1 22 HELIX 10 AB1 GLY B 80 TRP B 84 5 5 HELIX 11 AB2 SER B 85 CYS B 110 1 26 HELIX 12 AB3 ASP B 113 TYR B 129 1 17 HELIX 13 AB4 THR C 30 ARG C 45 1 16 HELIX 14 AB5 ASP C 46 HIS C 51 5 6 HELIX 15 AB6 GLN C 52 GLN C 72 1 21 HELIX 16 AB7 GLY C 80 TRP C 84 5 5 HELIX 17 AB8 SER C 85 CYS C 110 1 26 HELIX 18 AB9 ASP C 113 TYR C 129 1 17 HELIX 19 AC1 THR D 30 ASP D 46 1 17 HELIX 20 AC2 TRP D 47 HIS D 51 5 5 HELIX 21 AC3 GLN D 52 TRP D 73 1 22 HELIX 22 AC4 GLY D 80 TRP D 84 5 5 HELIX 23 AC5 SER D 85 CYS D 110 1 26 HELIX 24 AC6 ASP D 113 TYR D 129 1 17 LINK OE1 GLU A 63 MG MG A 205 1555 1555 2.02 LINK OE1 GLU A 66 MG MG A 205 1555 1555 2.00 LINK OE1 GLU A 95 MG MG A 205 1555 1555 2.10 LINK OD2 ASP A 98 MG MG A 205 1555 1555 2.02 LINK MG MG A 205 O HOH A 305 1555 1555 1.99 LINK MG MG A 205 O HOH A 315 1555 1555 2.17 LINK OE1 GLU B 63 MG MG B 203 1555 1555 2.10 LINK OE1 GLU B 66 MG MG B 203 1555 1555 2.06 LINK OE1 GLU B 95 MG MG B 203 1555 1555 2.09 LINK OD2 ASP B 98 MG MG B 203 1555 1555 2.10 LINK MG MG B 203 O HOH B 313 1555 1555 2.06 LINK MG MG B 203 O HOH B 325 1555 1555 2.08 LINK OE1 GLU C 63 MG MG C 203 1555 1555 2.03 LINK OE1 GLU C 66 MG MG C 203 1555 1555 2.14 LINK OE1 GLU C 95 MG MG C 203 1555 1555 2.08 LINK OD2 ASP C 98 MG MG C 203 1555 1555 2.21 LINK MG MG C 203 O HOH C 314 1555 1555 2.17 LINK MG MG C 203 O HOH C 321 1555 1555 2.08 LINK OE1 GLU D 63 MG MG D 204 1555 1555 2.04 LINK OE1 GLU D 66 MG MG D 204 1555 1555 2.13 LINK OE1 GLU D 95 MG MG D 204 1555 1555 2.14 LINK OD2 ASP D 98 MG MG D 204 1555 1555 2.20 LINK MG MG D 204 O HOH D 310 1555 1555 2.12 LINK MG MG D 204 O HOH D 311 1555 1555 2.15 CISPEP 1 GLU A 28 PRO A 29 0 -5.59 CISPEP 2 GLU B 28 PRO B 29 0 -2.84 CISPEP 3 GLU C 28 PRO C 29 0 -3.60 CISPEP 4 GLU D 28 PRO D 29 0 -6.29 CRYST1 61.907 41.765 94.208 90.00 93.89 90.00 P 1 2 1 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 0.016153 0.000000 0.001098 0.00000 SCALE2 0.000000 0.023943 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010639 0.00000 CONECT 678 6846 CONECT 716 6846 CONECT 1119 6846 CONECT 1164 6846 CONECT 2388 6891 CONECT 2426 6891 CONECT 2810 6891 CONECT 2855 6891 CONECT 4066 6936 CONECT 4104 6936 CONECT 4507 6936 CONECT 4552 6936 CONECT 5728 7003 CONECT 5766 7003 CONECT 6161 7003 CONECT 6206 7003 CONECT 6758 6759 6766 6767 6768 CONECT 6759 6758 6760 6761 6762 CONECT 6760 6759 6769 CONECT 6761 6759 6770 6771 6772 CONECT 6762 6759 6763 6773 6774 CONECT 6763 6762 6764 6765 6775 CONECT 6764 6763 6776 CONECT 6765 6763 6777 6778 6779 CONECT 6766 6758 CONECT 6767 6758 CONECT 6768 6758 CONECT 6769 6760 CONECT 6770 6761 CONECT 6771 6761 CONECT 6772 6761 CONECT 6773 6762 CONECT 6774 6762 CONECT 6775 6763 CONECT 6776 6764 CONECT 6777 6765 CONECT 6778 6765 CONECT 6779 6765 CONECT 6780 6781 6788 6789 6790 CONECT 6781 6780 6782 6783 6784 CONECT 6782 6781 6791 CONECT 6783 6781 6792 6793 6794 CONECT 6784 6781 6785 6795 6796 CONECT 6785 6784 6786 6787 6797 CONECT 6786 6785 6798 CONECT 6787 6785 6799 6800 6801 CONECT 6788 6780 CONECT 6789 6780 CONECT 6790 6780 CONECT 6791 6782 CONECT 6792 6783 CONECT 6793 6783 CONECT 6794 6783 CONECT 6795 6784 CONECT 6796 6784 CONECT 6797 6785 CONECT 6798 6786 CONECT 6799 6787 CONECT 6800 6787 CONECT 6801 6787 CONECT 6802 6803 6810 6811 6812 CONECT 6803 6802 6804 6805 6806 CONECT 6804 6803 6813 CONECT 6805 6803 6814 6815 6816 CONECT 6806 6803 6807 6817 6818 CONECT 6807 6806 6808 6809 6819 CONECT 6808 6807 6820 CONECT 6809 6807 6821 6822 6823 CONECT 6810 6802 CONECT 6811 6802 CONECT 6812 6802 CONECT 6813 6804 CONECT 6814 6805 CONECT 6815 6805 CONECT 6816 6805 CONECT 6817 6806 CONECT 6818 6806 CONECT 6819 6807 CONECT 6820 6808 CONECT 6821 6809 CONECT 6822 6809 CONECT 6823 6809 CONECT 6824 6825 6832 6833 6834 CONECT 6825 6824 6826 6827 6828 CONECT 6826 6825 6835 CONECT 6827 6825 6836 6837 6838 CONECT 6828 6825 6829 6839 6840 CONECT 6829 6828 6830 6831 6841 CONECT 6830 6829 6842 CONECT 6831 6829 6843 6844 6845 CONECT 6832 6824 CONECT 6833 6824 CONECT 6834 6824 CONECT 6835 6826 CONECT 6836 6827 CONECT 6837 6827 CONECT 6838 6827 CONECT 6839 6828 CONECT 6840 6828 CONECT 6841 6829 CONECT 6842 6830 CONECT 6843 6831 CONECT 6844 6831 CONECT 6845 6831 CONECT 6846 678 716 1119 1164 CONECT 6846 7008 7018 CONECT 6847 6848 6855 6856 6857 CONECT 6848 6847 6849 6850 6851 CONECT 6849 6848 6858 CONECT 6850 6848 6859 6860 6861 CONECT 6851 6848 6852 6862 6863 CONECT 6852 6851 6853 6854 6864 CONECT 6853 6852 6865 CONECT 6854 6852 6866 6867 6868 CONECT 6855 6847 CONECT 6856 6847 CONECT 6857 6847 CONECT 6858 6849 CONECT 6859 6850 CONECT 6860 6850 CONECT 6861 6850 CONECT 6862 6851 CONECT 6863 6851 CONECT 6864 6852 CONECT 6865 6853 CONECT 6866 6854 CONECT 6867 6854 CONECT 6868 6854 CONECT 6869 6870 6877 6878 6879 CONECT 6870 6869 6871 6872 6873 CONECT 6871 6870 6880 CONECT 6872 6870 6881 6882 6883 CONECT 6873 6870 6874 6884 6885 CONECT 6874 6873 6875 6876 6886 CONECT 6875 6874 6887 CONECT 6876 6874 6888 6889 6890 CONECT 6877 6869 CONECT 6878 6869 CONECT 6879 6869 CONECT 6880 6871 CONECT 6881 6872 CONECT 6882 6872 CONECT 6883 6872 CONECT 6884 6873 CONECT 6885 6873 CONECT 6886 6874 CONECT 6887 6875 CONECT 6888 6876 CONECT 6889 6876 CONECT 6890 6876 CONECT 6891 2388 2426 2810 2855 CONECT 6891 7090 7102 CONECT 6892 6893 6900 6901 6902 CONECT 6893 6892 6894 6895 6896 CONECT 6894 6893 6903 CONECT 6895 6893 6904 6905 6906 CONECT 6896 6893 6897 6907 6908 CONECT 6897 6896 6898 6899 6909 CONECT 6898 6897 6910 CONECT 6899 6897 6911 6912 6913 CONECT 6900 6892 CONECT 6901 6892 CONECT 6902 6892 CONECT 6903 6894 CONECT 6904 6895 CONECT 6905 6895 CONECT 6906 6895 CONECT 6907 6896 CONECT 6908 6896 CONECT 6909 6897 CONECT 6910 6898 CONECT 6911 6899 CONECT 6912 6899 CONECT 6913 6899 CONECT 6914 6915 6922 6923 6924 CONECT 6915 6914 6916 6917 6918 CONECT 6916 6915 6925 CONECT 6917 6915 6926 6927 6928 CONECT 6918 6915 6919 6929 6930 CONECT 6919 6918 6920 6921 6931 CONECT 6920 6919 6932 CONECT 6921 6919 6933 6934 6935 CONECT 6922 6914 CONECT 6923 6914 CONECT 6924 6914 CONECT 6925 6916 CONECT 6926 6917 CONECT 6927 6917 CONECT 6928 6917 CONECT 6929 6918 CONECT 6930 6918 CONECT 6931 6919 CONECT 6932 6920 CONECT 6933 6921 CONECT 6934 6921 CONECT 6935 6921 CONECT 6936 4066 4104 4507 4552 CONECT 6936 7179 7186 CONECT 6937 6938 6945 6946 6947 CONECT 6938 6937 6939 6940 6941 CONECT 6939 6938 6948 CONECT 6940 6938 6949 6950 6951 CONECT 6941 6938 6942 6952 6953 CONECT 6942 6941 6943 6944 6954 CONECT 6943 6942 6955 CONECT 6944 6942 6956 6957 6958 CONECT 6945 6937 CONECT 6946 6937 CONECT 6947 6937 CONECT 6948 6939 CONECT 6949 6940 CONECT 6950 6940 CONECT 6951 6940 CONECT 6952 6941 CONECT 6953 6941 CONECT 6954 6942 CONECT 6955 6943 CONECT 6956 6944 CONECT 6957 6944 CONECT 6958 6944 CONECT 6959 6960 6967 6968 6969 CONECT 6960 6959 6961 6962 6963 CONECT 6961 6960 6970 CONECT 6962 6960 6971 6972 6973 CONECT 6963 6960 6964 6974 6975 CONECT 6964 6963 6965 6966 6976 CONECT 6965 6964 6977 CONECT 6966 6964 6978 6979 6980 CONECT 6967 6959 CONECT 6968 6959 CONECT 6969 6959 CONECT 6970 6961 CONECT 6971 6962 CONECT 6972 6962 CONECT 6973 6962 CONECT 6974 6963 CONECT 6975 6963 CONECT 6976 6964 CONECT 6977 6965 CONECT 6978 6966 CONECT 6979 6966 CONECT 6980 6966 CONECT 6981 6982 6989 6990 6991 CONECT 6982 6981 6983 6984 6985 CONECT 6983 6982 6992 CONECT 6984 6982 6993 6994 6995 CONECT 6985 6982 6986 6996 6997 CONECT 6986 6985 6987 6988 6998 CONECT 6987 6986 6999 CONECT 6988 6986 7000 7001 7002 CONECT 6989 6981 CONECT 6990 6981 CONECT 6991 6981 CONECT 6992 6983 CONECT 6993 6984 CONECT 6994 6984 CONECT 6995 6984 CONECT 6996 6985 CONECT 6997 6985 CONECT 6998 6986 CONECT 6999 6987 CONECT 7000 6988 CONECT 7001 6988 CONECT 7002 6988 CONECT 7003 5728 5766 6161 6206 CONECT 7003 7239 7240 CONECT 7008 6846 CONECT 7018 6846 CONECT 7090 6891 CONECT 7102 6891 CONECT 7179 6936 CONECT 7186 6936 CONECT 7239 7003 CONECT 7240 7003 MASTER 429 0 15 24 0 0 0 6 3782 4 274 36 END