HEADER TRANSFERASE 22-JAN-20 6XVW TITLE CATALYTIC DOMAIN OF HUMAN PARP-1 IN COMPLEX WITH THE INHIBITOR MC2050 COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLY [ADP-RIBOSE] POLYMERASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PARP-1,ADP-RIBOSYLTRANSFERASE DIPHTHERIA TOXIN-LIKE 1,ARTD1, COMPND 5 DNA ADP-RIBOSYLTRANSFERASE PARP1,NAD(+) ADP-RIBOSYLTRANSFERASE 1, COMPND 6 ADPRT 1,POLY[ADP-RIBOSE] SYNTHASE 1,PROTEIN POLY-ADP- COMPND 7 RIBOSYLTRANSFERASE PARP1; COMPND 8 EC: 2.4.2.30,2.4.2.-; COMPND 9 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: PARP1, ADPRT, PPOL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, COMPLEX, DNA-REPAIR, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.PFAHLER,C.STEEGBORN REVDAT 2 24-JAN-24 6XVW 1 LINK REVDAT 1 03-JUN-20 6XVW 0 JRNL AUTH S.TOMASSI,J.PFAHLER,N.MAUTONE,A.ROVERE,C.ESPOSITO,D.PASSERI, JRNL AUTH 2 R.PELLICCIARI,E.NOVELLINO,M.PANNEK,C.STEEGBORN,A.PAIARDINI, JRNL AUTH 3 A.MAI,D.ROTILI JRNL TITL FROM PARP1 TO TNKS2 INHIBITION: A STRUCTURE-BASED APPROACH. JRNL REF ACS MED.CHEM.LETT. V. 11 862 2020 JRNL REFN ISSN 1948-5875 JRNL PMID 32435397 JRNL DOI 10.1021/ACSMEDCHEMLETT.9B00654 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 71.73 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.880 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 96325 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.231 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 4782 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 71.7300 - 6.2100 0.96 2979 174 0.1803 0.2252 REMARK 3 2 6.2100 - 4.9300 0.97 3055 169 0.1893 0.2201 REMARK 3 3 4.9300 - 4.3100 0.96 3006 172 0.1591 0.2044 REMARK 3 4 4.3100 - 3.9100 0.98 3050 151 0.1738 0.2171 REMARK 3 5 3.9100 - 3.6300 0.97 3042 165 0.1849 0.2029 REMARK 3 6 3.6300 - 3.4200 0.97 3034 162 0.1963 0.2513 REMARK 3 7 3.4200 - 3.2500 0.97 3063 126 0.2165 0.2257 REMARK 3 8 3.2500 - 3.1100 0.98 3048 184 0.2340 0.2880 REMARK 3 9 3.1100 - 2.9900 0.99 3099 160 0.2482 0.2958 REMARK 3 10 2.9900 - 2.8800 0.99 3132 144 0.2519 0.2842 REMARK 3 11 2.8800 - 2.7900 0.98 3086 170 0.2508 0.2593 REMARK 3 12 2.7900 - 2.7100 0.98 3010 172 0.2677 0.3074 REMARK 3 13 2.7100 - 2.6400 0.98 3109 143 0.2751 0.3881 REMARK 3 14 2.6400 - 2.5800 0.98 3071 181 0.2811 0.2800 REMARK 3 15 2.5800 - 2.5200 0.98 3008 158 0.2775 0.3078 REMARK 3 16 2.5200 - 2.4700 0.98 3117 168 0.2770 0.3058 REMARK 3 17 2.4700 - 2.4200 0.98 3001 168 0.2892 0.3570 REMARK 3 18 2.4200 - 2.3700 0.97 3081 138 0.3104 0.3888 REMARK 3 19 2.3700 - 2.3300 0.98 3042 183 0.3003 0.3293 REMARK 3 20 2.3300 - 2.2900 0.99 3082 152 0.3244 0.3246 REMARK 3 21 2.2900 - 2.2500 0.98 3115 147 0.3361 0.3666 REMARK 3 22 2.2500 - 2.2200 0.98 3054 166 0.3400 0.3857 REMARK 3 23 2.2200 - 2.1900 0.99 3141 135 0.3357 0.3901 REMARK 3 24 2.1900 - 2.1500 0.99 3051 175 0.3541 0.3970 REMARK 3 25 2.1500 - 2.1300 0.98 3074 137 0.3663 0.3778 REMARK 3 26 2.1300 - 2.1000 0.98 3078 171 0.3663 0.3666 REMARK 3 27 2.1000 - 2.0700 0.97 3022 172 0.3796 0.4156 REMARK 3 28 2.0700 - 2.0500 0.95 2997 165 0.3794 0.3586 REMARK 3 29 2.0500 - 2.0200 0.96 3022 129 0.3717 0.3971 REMARK 3 30 2.0200 - 2.0000 0.93 2874 145 0.4392 0.4224 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) : 0.378 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.751 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 49.05 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.66 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 : 0.003 5651 REMARK 3 ANGLE : 0.567 7615 REMARK 3 CHIRALITY : 0.043 848 REMARK 3 PLANARITY : 0.004 969 REMARK 3 DIHEDRAL : 4.968 777 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 6XVW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106387. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-FEB-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000020 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 96367 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 71.734 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 2.334 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.6200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.29 REMARK 200 R MERGE FOR SHELL (I) : 1.47400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX 1.14_3260 REMARK 200 STARTING MODEL: 4ZZZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS PH 8.5, 20% (W/W) PEG 2.000 REMARK 280 MME, 0.01 M NICL2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 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 34.08600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.81750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.36350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.81750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.08600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.36350 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 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 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 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 746 REMARK 465 LYS A 747 REMARK 465 LYS A 748 REMARK 465 GLY A 781 REMARK 465 SER A 782 REMARK 465 ASP A 783 REMARK 465 SER A 1012 REMARK 465 LEU A 1013 REMARK 465 TRP A 1014 REMARK 465 GLY B 745 REMARK 465 MET B 746 REMARK 465 LYS B 747 REMARK 465 LYS B 748 REMARK 465 PRO B 749 REMARK 465 SER B 1012 REMARK 465 LEU B 1013 REMARK 465 TRP B 1014 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 OD1 ASN A 961 O HOH A 1201 2.10 REMARK 500 OD1 ASN B 961 O HOH B 1201 2.15 REMARK 500 O HOH B 1222 O HOH B 1343 2.19 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 696 87.18 -154.56 REMARK 500 ASP A 726 -10.36 78.59 REMARK 500 ILE A 834 -60.68 -92.09 REMARK 500 SER B 724 63.25 37.77 REMARK 500 ASP B 726 19.45 57.10 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 A1395 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH B1357 DISTANCE = 6.56 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 NI A1104 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 822 NE2 REMARK 620 2 HIS A 826 NE2 89.6 REMARK 620 3 ASP A 830 OD1 89.8 92.8 REMARK 620 4 HOH A1222 O 170.0 99.2 85.1 REMARK 620 5 HOH A1317 O 101.8 168.6 86.5 69.4 REMARK 620 6 HOH A1356 O 109.8 117.2 143.2 70.3 59.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A1103 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 909 NE2 REMARK 620 2 HOH A1322 O 101.5 REMARK 620 3 HOH A1339 O 99.0 105.9 REMARK 620 4 HOH B1202 O 159.4 99.1 75.7 REMARK 620 5 HOH B1326 O 107.4 54.4 149.4 84.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A1101 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 934 NE2 REMARK 620 2 HIS B 937 NE2 97.5 REMARK 620 3 HOH B1251 O 94.1 94.0 REMARK 620 4 HOH B1254 O 102.8 152.7 66.8 REMARK 620 5 HOH B1269 O 95.6 85.5 170.2 110.1 REMARK 620 6 HOH B1306 O 162.6 98.2 77.3 60.0 93.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A1102 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 937 NE2 REMARK 620 2 HOH A1261 O 171.2 REMARK 620 3 HOH A1264 O 101.5 70.7 REMARK 620 4 HOH A1341 O 98.1 76.5 77.2 REMARK 620 5 HIS B 934 NE2 96.8 87.2 89.0 161.4 REMARK 620 6 HOH B1237 O 91.6 95.8 165.7 95.5 95.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B1101 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1207 O REMARK 620 2 HIS B 909 NE2 155.3 REMARK 620 3 HOH B1289 O 75.5 87.0 REMARK 620 4 HOH B1299 O 75.3 81.2 61.6 REMARK 620 5 HOH B1320 O 98.6 101.4 168.6 126.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B1102 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 822 NE2 REMARK 620 2 HIS B 826 NE2 94.1 REMARK 620 3 ASP B 830 OD1 83.1 87.2 REMARK 620 4 HOH B1217 O 159.4 92.3 77.7 REMARK 620 5 HOH B1222 O 100.9 158.8 80.0 68.6 REMARK 620 6 HOH B1305 O 139.0 89.7 137.9 60.5 88.6 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 NI A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1110 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O3H A 1111 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O3H B 1105 DBREF 6XVW A 663 1014 UNP P09874 PARP1_HUMAN 663 1014 DBREF 6XVW B 663 1014 UNP P09874 PARP1_HUMAN 663 1014 SEQADV 6XVW HIS A 661 UNP P09874 EXPRESSION TAG SEQADV 6XVW MET A 662 UNP P09874 EXPRESSION TAG SEQADV 6XVW HIS B 661 UNP P09874 EXPRESSION TAG SEQADV 6XVW MET B 662 UNP P09874 EXPRESSION TAG SEQRES 1 A 354 HIS MET SER LYS LEU PRO LYS PRO VAL GLN ASP LEU ILE SEQRES 2 A 354 LYS MET ILE PHE ASP VAL GLU SER MET LYS LYS ALA MET SEQRES 3 A 354 VAL GLU TYR GLU ILE ASP LEU GLN LYS MET PRO LEU GLY SEQRES 4 A 354 LYS LEU SER LYS ARG GLN ILE GLN ALA ALA TYR SER ILE SEQRES 5 A 354 LEU SER GLU VAL GLN GLN ALA VAL SER GLN GLY SER SER SEQRES 6 A 354 ASP SER GLN ILE LEU ASP LEU SER ASN ARG PHE TYR THR SEQRES 7 A 354 LEU ILE PRO HIS ASP PHE GLY MET LYS LYS PRO PRO LEU SEQRES 8 A 354 LEU ASN ASN ALA ASP SER VAL GLN ALA LYS VAL GLU MET SEQRES 9 A 354 LEU ASP ASN LEU LEU ASP ILE GLU VAL ALA TYR SER LEU SEQRES 10 A 354 LEU ARG GLY GLY SER ASP ASP SER SER LYS ASP PRO ILE SEQRES 11 A 354 ASP VAL ASN TYR GLU LYS LEU LYS THR ASP ILE LYS VAL SEQRES 12 A 354 VAL ASP ARG ASP SER GLU GLU ALA GLU ILE ILE ARG LYS SEQRES 13 A 354 TYR VAL LYS ASN THR HIS ALA THR THR HIS ASN ALA TYR SEQRES 14 A 354 ASP LEU GLU VAL ILE ASP ILE PHE LYS ILE GLU ARG GLU SEQRES 15 A 354 GLY GLU CYS GLN ARG TYR LYS PRO PHE LYS GLN LEU HIS SEQRES 16 A 354 ASN ARG ARG LEU LEU TRP HIS GLY SER ARG THR THR ASN SEQRES 17 A 354 PHE ALA GLY ILE LEU SER GLN GLY LEU ARG ILE ALA PRO SEQRES 18 A 354 PRO GLU ALA PRO VAL THR GLY TYR MET PHE GLY LYS GLY SEQRES 19 A 354 ILE TYR PHE ALA ASP MET VAL SER LYS SER ALA ASN TYR SEQRES 20 A 354 CYS HIS THR SER GLN GLY ASP PRO ILE GLY LEU ILE LEU SEQRES 21 A 354 LEU GLY GLU VAL ALA LEU GLY ASN MET TYR GLU LEU LYS SEQRES 22 A 354 HIS ALA SER HIS ILE SER LYS LEU PRO LYS GLY LYS HIS SEQRES 23 A 354 SER VAL LYS GLY LEU GLY LYS THR THR PRO ASP PRO SER SEQRES 24 A 354 ALA ASN ILE SER LEU ASP GLY VAL ASP VAL PRO LEU GLY SEQRES 25 A 354 THR GLY ILE SER SER GLY VAL ASN ASP THR SER LEU LEU SEQRES 26 A 354 TYR ASN GLU TYR ILE VAL TYR ASP ILE ALA GLN VAL ASN SEQRES 27 A 354 LEU LYS TYR LEU LEU LYS LEU LYS PHE ASN PHE LYS THR SEQRES 28 A 354 SER LEU TRP SEQRES 1 B 354 HIS MET SER LYS LEU PRO LYS PRO VAL GLN ASP LEU ILE SEQRES 2 B 354 LYS MET ILE PHE ASP VAL GLU SER MET LYS LYS ALA MET SEQRES 3 B 354 VAL GLU TYR GLU ILE ASP LEU GLN LYS MET PRO LEU GLY SEQRES 4 B 354 LYS LEU SER LYS ARG GLN ILE GLN ALA ALA TYR SER ILE SEQRES 5 B 354 LEU SER GLU VAL GLN GLN ALA VAL SER GLN GLY SER SER SEQRES 6 B 354 ASP SER GLN ILE LEU ASP LEU SER ASN ARG PHE TYR THR SEQRES 7 B 354 LEU ILE PRO HIS ASP PHE GLY MET LYS LYS PRO PRO LEU SEQRES 8 B 354 LEU ASN ASN ALA ASP SER VAL GLN ALA LYS VAL GLU MET SEQRES 9 B 354 LEU ASP ASN LEU LEU ASP ILE GLU VAL ALA TYR SER LEU SEQRES 10 B 354 LEU ARG GLY GLY SER ASP ASP SER SER LYS ASP PRO ILE SEQRES 11 B 354 ASP VAL ASN TYR GLU LYS LEU LYS THR ASP ILE LYS VAL SEQRES 12 B 354 VAL ASP ARG ASP SER GLU GLU ALA GLU ILE ILE ARG LYS SEQRES 13 B 354 TYR VAL LYS ASN THR HIS ALA THR THR HIS ASN ALA TYR SEQRES 14 B 354 ASP LEU GLU VAL ILE ASP ILE PHE LYS ILE GLU ARG GLU SEQRES 15 B 354 GLY GLU CYS GLN ARG TYR LYS PRO PHE LYS GLN LEU HIS SEQRES 16 B 354 ASN ARG ARG LEU LEU TRP HIS GLY SER ARG THR THR ASN SEQRES 17 B 354 PHE ALA GLY ILE LEU SER GLN GLY LEU ARG ILE ALA PRO SEQRES 18 B 354 PRO GLU ALA PRO VAL THR GLY TYR MET PHE GLY LYS GLY SEQRES 19 B 354 ILE TYR PHE ALA ASP MET VAL SER LYS SER ALA ASN TYR SEQRES 20 B 354 CYS HIS THR SER GLN GLY ASP PRO ILE GLY LEU ILE LEU SEQRES 21 B 354 LEU GLY GLU VAL ALA LEU GLY ASN MET TYR GLU LEU LYS SEQRES 22 B 354 HIS ALA SER HIS ILE SER LYS LEU PRO LYS GLY LYS HIS SEQRES 23 B 354 SER VAL LYS GLY LEU GLY LYS THR THR PRO ASP PRO SER SEQRES 24 B 354 ALA ASN ILE SER LEU ASP GLY VAL ASP VAL PRO LEU GLY SEQRES 25 B 354 THR GLY ILE SER SER GLY VAL ASN ASP THR SER LEU LEU SEQRES 26 B 354 TYR ASN GLU TYR ILE VAL TYR ASP ILE ALA GLN VAL ASN SEQRES 27 B 354 LEU LYS TYR LEU LEU LYS LEU LYS PHE ASN PHE LYS THR SEQRES 28 B 354 SER LEU TRP HET NI A1101 1 HET NI A1102 1 HET NI A1103 1 HET NI A1104 1 HET EDO A1105 4 HET EDO A1106 4 HET EDO A1107 4 HET EDO A1108 4 HET EDO A1109 4 HET EDO A1110 4 HET O3H A1111 26 HET NI B1101 1 HET NI B1102 1 HET EDO B1103 4 HET EDO B1104 4 HET O3H B1105 26 HETNAM NI NICKEL (II) ION HETNAM EDO 1,2-ETHANEDIOL HETNAM O3H 2-[2-(4-PYRIDIN-2-YLPIPERAZIN-1-YL)ETHYLSULFANYL]- HETNAM 2 O3H 3~{H}-QUINAZOLIN-4-ONE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NI 6(NI 2+) FORMUL 7 EDO 8(C2 H6 O2) FORMUL 13 O3H 2(C19 H21 N5 O S) FORMUL 19 HOH *352(H2 O) HELIX 1 AA1 PRO A 666 PHE A 677 1 12 HELIX 2 AA2 ASP A 678 TYR A 689 1 12 HELIX 3 AA3 SER A 702 GLY A 723 1 22 HELIX 4 AA4 SER A 727 ILE A 740 1 14 HELIX 5 AA5 ASP A 756 ARG A 779 1 24 HELIX 6 AA6 ASP A 788 LEU A 797 1 10 HELIX 7 AA7 SER A 808 THR A 821 1 14 HELIX 8 AA8 HIS A 822 HIS A 826 5 5 HELIX 9 AA9 GLY A 843 LYS A 849 1 7 HELIX 10 AB1 PRO A 850 LEU A 854 5 5 HELIX 11 AB2 ARG A 865 THR A 867 5 3 HELIX 12 AB3 ASN A 868 GLY A 876 1 9 HELIX 13 AB4 PRO A 885 TYR A 889 5 5 HELIX 14 AB5 MET A 900 ALA A 905 1 6 HELIX 15 AB6 ASN A 906 HIS A 909 5 4 HELIX 16 AB7 PRO A 958 ASN A 961 5 4 HELIX 17 AB8 ASP A 993 ALA A 995 5 3 HELIX 18 AB9 PRO B 666 PHE B 677 1 12 HELIX 19 AC1 ASP B 678 TYR B 689 1 12 HELIX 20 AC2 PRO B 697 LEU B 701 5 5 HELIX 21 AC3 SER B 702 GLN B 722 1 21 HELIX 22 AC4 GLN B 728 ILE B 740 1 13 HELIX 23 AC5 ASP B 756 GLY B 780 1 25 HELIX 24 AC6 ASP B 788 LEU B 797 1 10 HELIX 25 AC7 SER B 808 THR B 821 1 14 HELIX 26 AC8 HIS B 822 HIS B 826 5 5 HELIX 27 AC9 GLY B 843 LYS B 849 1 7 HELIX 28 AD1 PRO B 850 LEU B 854 5 5 HELIX 29 AD2 ARG B 865 THR B 867 5 3 HELIX 30 AD3 ASN B 868 GLY B 876 1 9 HELIX 31 AD4 PRO B 885 TYR B 889 5 5 HELIX 32 AD5 MET B 900 ASN B 906 1 7 HELIX 33 AD6 TYR B 907 HIS B 909 5 3 HELIX 34 AD7 PRO B 958 ASN B 961 5 4 HELIX 35 AD8 ASP B 993 ALA B 995 5 3 SHEET 1 AA1 7 THR A 799 VAL A 803 0 SHEET 2 AA1 7 TYR A 829 ARG A 841 -1 O LYS A 838 N LYS A 802 SHEET 3 AA1 7 VAL A 997 PHE A1009 -1 O LYS A1004 N ASP A 835 SHEET 4 AA1 7 ILE A 916 ALA A 925 -1 N ILE A 919 O LEU A1003 SHEET 5 AA1 7 ARG A 857 SER A 864 -1 N ARG A 858 O VAL A 924 SHEET 6 AA1 7 VAL A 967 VAL A 969 1 O ASP A 968 N ARG A 857 SHEET 7 AA1 7 ILE A 962 LEU A 964 -1 N LEU A 964 O VAL A 967 SHEET 1 AA2 4 ILE A 895 PHE A 897 0 SHEET 2 AA2 4 GLU A 988 VAL A 991 -1 O VAL A 991 N ILE A 895 SHEET 3 AA2 4 SER A 947 GLY A 950 -1 N VAL A 948 O ILE A 990 SHEET 4 AA2 4 MET A 929 LEU A 932 1 N TYR A 930 O SER A 947 SHEET 1 AA3 3 GLY A 974 SER A 976 0 SHEET 2 AA3 3 GLY A 952 PRO A 956 -1 N THR A 955 O ILE A 975 SHEET 3 AA3 3 LEU A 984 TYR A 986 1 O LEU A 985 N THR A 954 SHEET 1 AA4 7 THR B 799 VAL B 803 0 SHEET 2 AA4 7 TYR B 829 ARG B 841 -1 O LYS B 838 N LYS B 802 SHEET 3 AA4 7 VAL B 997 PHE B1009 -1 O LYS B1004 N ILE B 834 SHEET 4 AA4 7 ILE B 916 ALA B 925 -1 N GLY B 917 O LEU B1005 SHEET 5 AA4 7 ARG B 857 SER B 864 -1 N ARG B 858 O VAL B 924 SHEET 6 AA4 7 VAL B 967 VAL B 969 1 O ASP B 968 N ARG B 857 SHEET 7 AA4 7 ILE B 962 LEU B 964 -1 N ILE B 962 O VAL B 969 SHEET 1 AA5 4 ILE B 895 PHE B 897 0 SHEET 2 AA5 4 GLU B 988 VAL B 991 -1 O VAL B 991 N ILE B 895 SHEET 3 AA5 4 SER B 947 GLY B 950 -1 N GLY B 950 O GLU B 988 SHEET 4 AA5 4 MET B 929 LEU B 932 1 N TYR B 930 O SER B 947 SHEET 1 AA6 3 GLY B 974 SER B 976 0 SHEET 2 AA6 3 GLY B 952 PRO B 956 -1 N THR B 955 O ILE B 975 SHEET 3 AA6 3 LEU B 984 TYR B 986 1 O LEU B 985 N THR B 954 LINK NE2 HIS A 822 NI NI A1104 1555 1555 2.14 LINK NE2 HIS A 826 NI NI A1104 1555 1555 2.08 LINK OD1 ASP A 830 NI NI A1104 1555 1555 2.15 LINK NE2 HIS A 909 NI NI A1103 1555 1555 1.95 LINK NE2 HIS A 934 NI NI A1101 1555 1555 2.07 LINK NE2 HIS A 937 NI NI A1102 1555 1555 2.03 LINK NI NI A1101 NE2 HIS B 937 1555 1555 2.04 LINK NI NI A1101 O HOH B1251 1555 1555 2.01 LINK NI NI A1101 O HOH B1254 1555 1555 2.36 LINK NI NI A1101 O HOH B1269 1555 1555 2.23 LINK NI NI A1101 O HOH B1306 1555 1555 2.15 LINK NI NI A1102 O HOH A1261 1555 1555 2.13 LINK NI NI A1102 O HOH A1264 1555 1555 2.42 LINK NI NI A1102 O HOH A1341 1555 1555 2.40 LINK NI NI A1102 NE2 HIS B 934 1555 1555 2.03 LINK NI NI A1102 O HOH B1237 1555 1555 2.14 LINK NI NI A1103 O HOH A1322 1555 1555 2.64 LINK NI NI A1103 O HOH A1339 1555 1555 2.47 LINK NI NI A1103 O HOH B1202 1555 1555 1.86 LINK NI NI A1103 O HOH B1326 1555 1555 2.75 LINK NI NI A1104 O HOH A1222 1555 1555 2.11 LINK NI NI A1104 O HOH A1317 1555 1555 2.33 LINK NI NI A1104 O HOH A1356 1555 1555 2.18 LINK O HOH A1207 NI NI B1101 1555 1555 2.04 LINK NE2 HIS B 822 NI NI B1102 1555 1555 2.12 LINK NE2 HIS B 826 NI NI B1102 1555 1555 2.28 LINK OD1 ASP B 830 NI NI B1102 1555 1555 2.36 LINK NE2 HIS B 909 NI NI B1101 1555 1555 2.00 LINK NI NI B1101 O HOH B1289 1555 1555 2.43 LINK NI NI B1101 O HOH B1299 1555 1555 2.72 LINK NI NI B1101 O HOH B1320 1555 1555 2.39 LINK NI NI B1102 O HOH B1217 1555 1555 2.32 LINK NI NI B1102 O HOH B1222 1555 1555 2.13 LINK NI NI B1102 O HOH B1305 1555 1555 2.20 SITE 1 AC1 6 HIS A 934 HIS B 937 HOH B1251 HOH B1254 SITE 2 AC1 6 HOH B1269 HOH B1306 SITE 1 AC2 6 HIS A 937 HOH A1261 HOH A1264 HOH A1341 SITE 2 AC2 6 HIS B 934 HOH B1237 SITE 1 AC3 7 HIS A 909 HOH A1322 HOH A1339 HOH A1350 SITE 2 AC3 7 ASP B 981 HOH B1202 HOH B1326 SITE 1 AC4 6 HIS A 822 HIS A 826 ASP A 830 HOH A1222 SITE 2 AC4 6 HOH A1317 HOH A1356 SITE 1 AC5 1 PRO A 668 SITE 1 AC6 2 LYS A 674 ASN A 793 SITE 1 AC7 3 TYR A 737 PRO A 741 HIS A 742 SITE 1 AC8 1 HIS A 855 SITE 1 AC9 1 LEU A 665 SITE 1 AD1 2 SER A 711 GLU A 883 SITE 1 AD2 12 ASP A 766 ASP A 770 HIS A 862 GLY A 863 SITE 2 AD2 12 ARG A 878 ILE A 879 TYR A 896 SER A 904 SITE 3 AD2 12 TYR A 907 GLU A 988 HOH A1228 HOH A1313 SITE 1 AD3 7 HOH A1207 HOH A1298 HIS B 909 HOH B1268 SITE 2 AD3 7 HOH B1289 HOH B1299 HOH B1320 SITE 1 AD4 6 HIS B 822 HIS B 826 ASP B 830 HOH B1217 SITE 2 AD4 6 HOH B1222 HOH B1305 SITE 1 AD5 3 GLU B 688 ASP B 807 HOH B1271 SITE 1 AD6 13 ASP B 766 ASN B 767 LEU B 769 ASP B 770 SITE 2 AD6 13 HIS B 862 GLY B 863 ASN B 868 ARG B 878 SITE 3 AD6 13 TYR B 896 SER B 904 TYR B 907 GLU B 988 SITE 4 AD6 13 HOH B1297 CRYST1 68.172 86.727 127.635 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 0.014669 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011530 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007835 0.00000