HEADER TRANSFERASE/TRANSFERASE INHIBITOR 23-JAN-19 6NRH TITLE CRYSTAL STRUCTURE OF HUMAN PARP-1 ART DOMAIN BOUND INHIBITOR UTT63 COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLY [ADP-RIBOSE] POLYMERASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ADP-RIBOSYLTRANSFERASE (ART) DOMAIN; COMPND 5 SYNONYM: PARP-1,ADP-RIBOSYLTRANSFERASE DIPHTHERIA TOXIN-LIKE 1,ARTD1, COMPND 6 NAD(+) ADP-RIBOSYLTRANSFERASE 1,ADPRT 1,POLY[ADP-RIBOSE] SYNTHASE 1; COMPND 7 EC: 2.4.2.30,2.4.2.-; COMPND 8 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; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS PARP-1, POLY(ADP-RIBOSE) POLYMERASE, PARP INHIBITOR, PARP1, ARTD1, KEYWDS 2 TRANSFERASE, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.F.LANGELIER,J.M.PASCAL REVDAT 3 11-OCT-23 6NRH 1 REMARK REVDAT 2 08-JAN-20 6NRH 1 REMARK REVDAT 1 14-AUG-19 6NRH 0 JRNL AUTH U.K.VELAGAPUDI,M.F.LANGELIER,C.DELGADO-MARTIN,M.E.DIOLAITI, JRNL AUTH 2 S.BAKKER,A.ASHWORTH,B.A.PATEL,X.SHAO,J.M.PASCAL,T.T.TALELE JRNL TITL DESIGN AND SYNTHESIS OF POLY(ADP-RIBOSE) POLYMERASE JRNL TITL 2 INHIBITORS: IMPACT OF ADENOSINE POCKET-BINDING MOTIF JRNL TITL 3 APPENDAGE TO THE 3-OXO-2,3-DIHYDROBENZOFURAN-7-CARBOXAMIDE JRNL TITL 4 ON POTENCY AND SELECTIVITY. JRNL REF J.MED.CHEM. V. 62 5330 2019 JRNL REFN ISSN 0022-2623 JRNL PMID 31042381 JRNL DOI 10.1021/ACS.JMEDCHEM.8B01709 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 46561 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.131 REMARK 3 R VALUE (WORKING SET) : 0.129 REMARK 3 FREE R VALUE : 0.158 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2495 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1895 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 67 REMARK 3 SOLVENT ATOMS : 211 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.92000 REMARK 3 B22 (A**2) : 0.92000 REMARK 3 B33 (A**2) : -1.84000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.058 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.053 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.032 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6NRH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1000239284. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-FEB-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : ACCEL/BRUKER DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR (DCM), SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49081 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 47.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 24.10 REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 36.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 14.70 REMARK 200 R MERGE FOR SHELL (I) : 1.36000 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: PDBID 6BHV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ~20% PEG 3350, 0.2 M AMMONIUM SULFATE REMARK 280 OR SODIUM CITRATE, 100 MM HEPES PH 7.5, EVAPORATION, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 46.75150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 46.75150 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.97400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 46.75150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 34.48700 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 46.75150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 103.46100 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 46.75150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 103.46100 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.75150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 34.48700 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 46.75150 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 46.75150 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 68.97400 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 46.75150 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 46.75150 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 68.97400 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 46.75150 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 103.46100 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 46.75150 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 34.48700 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 46.75150 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 34.48700 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 46.75150 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 103.46100 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 46.75150 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 46.75150 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 68.97400 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 742 REMARK 465 GLY A 743 REMARK 465 SER A 744 REMARK 465 SER A 745 REMARK 465 HIS A 746 REMARK 465 HIS A 747 REMARK 465 HIS A 748 REMARK 465 HIS A 749 REMARK 465 HIS A 750 REMARK 465 HIS A 751 REMARK 465 SER A 752 REMARK 465 SER A 753 REMARK 465 GLY A 754 REMARK 465 LEU A 755 REMARK 465 VAL A 756 REMARK 465 PRO A 757 REMARK 465 ARG A 758 REMARK 465 GLY A 759 REMARK 465 SER A 760 REMARK 465 HIS A 761 REMARK 465 MET A 762 REMARK 465 THR A 763 REMARK 465 SER A 781 REMARK 465 GLY A 782 REMARK 465 SER A 783 REMARK 465 GLY A 784 REMARK 465 SER A 785 REMARK 465 GLY A 786 REMARK 465 GLY A 787 REMARK 465 THR A 1011 REMARK 465 SER A 1012 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 O HOH A 1384 O HOH A 1401 1.55 REMARK 500 O HOH A 1390 O HOH A 1398 1.66 REMARK 500 OE2 GLU A 844 O HOH A 1201 1.82 REMARK 500 O HOH A 1229 O HOH A 1384 1.83 REMARK 500 O HOH A 1381 O HOH A 1393 1.92 REMARK 500 O HOH A 1207 O HOH A 1372 1.95 REMARK 500 O HOH A 1375 O HOH A 1387 1.99 REMARK 500 O HOH A 1374 O HOH A 1405 2.02 REMARK 500 O HOH A 1211 O HOH A 1213 2.11 REMARK 500 O HOH A 1371 O HOH A 1373 2.16 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 1399 O HOH A 1399 7545 2.05 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 ASN A 856 60.32 63.73 REMARK 500 SER A 936 114.81 -164.65 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 858 0.15 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue KYP A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 1106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 1107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 1108 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NRF RELATED DB: PDB REMARK 900 RELATED ID: 6NRG RELATED DB: PDB DBREF 6NRH A 788 1012 UNP P09874 PARP1_HUMAN 788 1012 SEQADV 6NRH MET A 742 UNP P09874 INITIATING METHIONINE SEQADV 6NRH GLY A 743 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 744 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 745 UNP P09874 EXPRESSION TAG SEQADV 6NRH HIS A 746 UNP P09874 EXPRESSION TAG SEQADV 6NRH HIS A 747 UNP P09874 EXPRESSION TAG SEQADV 6NRH HIS A 748 UNP P09874 EXPRESSION TAG SEQADV 6NRH HIS A 749 UNP P09874 EXPRESSION TAG SEQADV 6NRH HIS A 750 UNP P09874 EXPRESSION TAG SEQADV 6NRH HIS A 751 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 752 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 753 UNP P09874 EXPRESSION TAG SEQADV 6NRH GLY A 754 UNP P09874 EXPRESSION TAG SEQADV 6NRH LEU A 755 UNP P09874 EXPRESSION TAG SEQADV 6NRH VAL A 756 UNP P09874 EXPRESSION TAG SEQADV 6NRH PRO A 757 UNP P09874 EXPRESSION TAG SEQADV 6NRH ARG A 758 UNP P09874 EXPRESSION TAG SEQADV 6NRH GLY A 759 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 760 UNP P09874 EXPRESSION TAG SEQADV 6NRH HIS A 761 UNP P09874 EXPRESSION TAG SEQADV 6NRH MET A 762 UNP P09874 EXPRESSION TAG SEQADV 6NRH THR A 763 UNP P09874 EXPRESSION TAG SEQADV 6NRH LYS A 764 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 765 UNP P09874 EXPRESSION TAG SEQADV 6NRH LYS A 766 UNP P09874 EXPRESSION TAG SEQADV 6NRH LEU A 767 UNP P09874 EXPRESSION TAG SEQADV 6NRH PRO A 768 UNP P09874 EXPRESSION TAG SEQADV 6NRH LYS A 769 UNP P09874 EXPRESSION TAG SEQADV 6NRH PRO A 770 UNP P09874 EXPRESSION TAG SEQADV 6NRH VAL A 771 UNP P09874 EXPRESSION TAG SEQADV 6NRH GLN A 772 UNP P09874 EXPRESSION TAG SEQADV 6NRH ASP A 773 UNP P09874 EXPRESSION TAG SEQADV 6NRH LEU A 774 UNP P09874 EXPRESSION TAG SEQADV 6NRH ILE A 775 UNP P09874 EXPRESSION TAG SEQADV 6NRH LYS A 776 UNP P09874 EXPRESSION TAG SEQADV 6NRH MET A 777 UNP P09874 EXPRESSION TAG SEQADV 6NRH ILE A 778 UNP P09874 EXPRESSION TAG SEQADV 6NRH PHE A 779 UNP P09874 EXPRESSION TAG SEQADV 6NRH GLY A 780 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 781 UNP P09874 EXPRESSION TAG SEQADV 6NRH GLY A 782 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 783 UNP P09874 EXPRESSION TAG SEQADV 6NRH GLY A 784 UNP P09874 EXPRESSION TAG SEQADV 6NRH SER A 785 UNP P09874 EXPRESSION TAG SEQADV 6NRH GLY A 786 UNP P09874 EXPRESSION TAG SEQADV 6NRH GLY A 787 UNP P09874 EXPRESSION TAG SEQRES 1 A 271 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 271 LEU VAL PRO ARG GLY SER HIS MET THR LYS SER LYS LEU SEQRES 3 A 271 PRO LYS PRO VAL GLN ASP LEU ILE LYS MET ILE PHE GLY SEQRES 4 A 271 SER GLY SER GLY SER GLY GLY ASP PRO ILE ASP VAL ASN SEQRES 5 A 271 TYR GLU LYS LEU LYS THR ASP ILE LYS VAL VAL ASP ARG SEQRES 6 A 271 ASP SER GLU GLU ALA GLU ILE ILE ARG LYS TYR VAL LYS SEQRES 7 A 271 ASN THR HIS ALA THR THR HIS ASN ALA TYR ASP LEU GLU SEQRES 8 A 271 VAL ILE ASP ILE PHE LYS ILE GLU ARG GLU GLY GLU CYS SEQRES 9 A 271 GLN ARG TYR LYS PRO PHE LYS GLN LEU HIS ASN ARG ARG SEQRES 10 A 271 LEU LEU TRP HIS GLY SER ARG THR THR ASN PHE ALA GLY SEQRES 11 A 271 ILE LEU SER GLN GLY LEU ARG ILE ALA PRO PRO GLU ALA SEQRES 12 A 271 PRO VAL THR GLY TYR MET PHE GLY LYS GLY ILE TYR PHE SEQRES 13 A 271 ALA ASP MET VAL SER LYS SER ALA ASN TYR CYS HIS THR SEQRES 14 A 271 SER GLN GLY ASP PRO ILE GLY LEU ILE LEU LEU GLY GLU SEQRES 15 A 271 VAL ALA LEU GLY ASN MET TYR GLU LEU LYS HIS ALA SER SEQRES 16 A 271 HIS ILE SER LYS LEU PRO LYS GLY LYS HIS SER VAL LYS SEQRES 17 A 271 GLY LEU GLY LYS THR THR PRO ASP PRO SER ALA ASN ILE SEQRES 18 A 271 SER LEU ASP GLY VAL ASP VAL PRO LEU GLY THR GLY ILE SEQRES 19 A 271 SER SER GLY VAL ASN ASP THR SER LEU LEU TYR ASN GLU SEQRES 20 A 271 TYR ILE VAL TYR ASP ILE ALA GLN VAL ASN LEU LYS TYR SEQRES 21 A 271 LEU LEU LYS LEU LYS PHE ASN PHE LYS THR SER HET KYP A1101 34 HET SO4 A1102 5 HET SO4 A1103 5 HET SO4 A1104 5 HET SO4 A1105 5 HET SO4 A1106 5 HET DMS A1107 4 HET DMS A1108 4 HETNAM KYP 3-HYDROXY-2-({4-[4-(PYRIMIDIN-2-YL)PIPERAZINE-1- HETNAM 2 KYP CARBONYL]PHENYL}METHYL)-1-BENZOFURAN-7-CARBOXAMIDE HETNAM SO4 SULFATE ION HETNAM DMS DIMETHYL SULFOXIDE FORMUL 2 KYP C25 H23 N5 O4 FORMUL 3 SO4 5(O4 S 2-) FORMUL 8 DMS 2(C2 H6 O S) FORMUL 10 HOH *211(H2 O) HELIX 1 AA1 PRO A 768 GLY A 780 1 13 HELIX 2 AA2 PRO A 789 LEU A 797 1 9 HELIX 3 AA3 SER A 808 THR A 821 1 14 HELIX 4 AA4 GLY A 843 LYS A 849 1 7 HELIX 5 AA5 PRO A 850 LYS A 852 5 3 HELIX 6 AA6 ARG A 865 THR A 867 5 3 HELIX 7 AA7 ASN A 868 GLY A 876 1 9 HELIX 8 AA8 MET A 900 ASN A 906 1 7 HELIX 9 AA9 TYR A 907 HIS A 909 5 3 HELIX 10 AB1 PRO A 958 ASN A 961 5 4 HELIX 11 AB2 ASP A 993 ALA A 995 5 3 SHEET 1 AA1 5 THR A 799 VAL A 803 0 SHEET 2 AA1 5 TYR A 829 ARG A 841 -1 O GLU A 840 N ASP A 800 SHEET 3 AA1 5 VAL A 997 PHE A1009 -1 O LYS A1004 N ILE A 834 SHEET 4 AA1 5 ILE A 916 ALA A 925 -1 N ILE A 919 O LEU A1003 SHEET 5 AA1 5 ARG A 857 GLY A 863 -1 N HIS A 862 O LEU A 920 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 2 ILE A 962 LEU A 964 0 SHEET 2 AA4 2 VAL A 967 VAL A 969 -1 O VAL A 969 N ILE A 962 SSBOND 1 CYS A 845 CYS A 845 1555 7545 2.05 SITE 1 AC1 14 HIS A 862 GLY A 863 ASN A 868 GLY A 888 SITE 2 AC1 14 TYR A 889 TYR A 896 PHE A 897 SER A 904 SITE 3 AC1 14 TYR A 907 DMS A1107 HOH A1215 HOH A1264 SITE 4 AC1 14 HOH A1348 HOH A1356 SITE 1 AC2 7 LYS A 766 LYS A 903 LEU A 984 LEU A 985 SITE 2 AC2 7 TYR A 986 HOH A1233 HOH A1268 SITE 1 AC3 6 ARG A 806 LYS A 953 ASN A 980 ASP A 981 SITE 2 AC3 6 THR A 982 HOH A1363 SITE 1 AC4 5 LYS A 849 ASN A 998 LYS A1000 HOH A1222 SITE 2 AC4 5 HOH A1235 SITE 1 AC5 6 ARG A 858 MET A 929 LYS A 949 HOH A1202 SITE 2 AC5 6 HOH A1261 HOH A1366 SITE 1 AC6 2 ASN A 906 TYR A 907 SITE 1 AC7 7 HIS A 862 ARG A 878 TYR A 889 GLY A 894 SITE 2 AC7 7 ILE A 895 TYR A 896 KYP A1101 SITE 1 AC8 8 LYS A 798 THR A 799 GLU A 883 ALA A 884 SITE 2 AC8 8 PRO A 885 HOH A1239 HOH A1255 HOH A1270 CRYST1 93.503 93.503 137.948 90.00 90.00 90.00 I 41 2 2 16 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 0.010695 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010695 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007249 0.00000