HEADER HYDROLASE/HYDROLASE INHIBITOR 15-MAR-19 6OA0 TITLE STRUCTURE OF HUMAN PARG COMPLEXED WITH JA2-9 COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLY(ADP-RIBOSE) GLYCOHYDROLASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.143; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PARG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.A.STEGEMAN,D.E.JONES,T.ELLENBERGER,I.K.KIM,J.A.TAINER REVDAT 2 13-MAR-24 6OA0 1 REMARK REVDAT 1 25-DEC-19 6OA0 0 JRNL AUTH J.H.HOUL,Z.YE,C.A.BROSEY,L.P.F.BALAPITI-MODARAGE,S.NAMJOSHI, JRNL AUTH 2 A.BACOLLA,D.LAVERTY,B.L.WALKER,Y.POURFARJAM,L.S.WARDEN, JRNL AUTH 3 N.BABU CHINNAM,D.MOIANI,R.A.STEGEMAN,M.K.CHEN,M.C.HUNG, JRNL AUTH 4 Z.D.NAGEL,T.ELLENBERGER,I.K.KIM,D.E.JONES,Z.AHMED,J.A.TAINER JRNL TITL SELECTIVE SMALL MOLECULE PARG INHIBITOR CAUSES REPLICATION JRNL TITL 2 FORK STALLING AND CANCER CELL DEATH. JRNL REF NAT COMMUN V. 10 5654 2019 JRNL REFN ESSN 2041-1723 JRNL PMID 31827085 JRNL DOI 10.1038/S41467-019-13508-4 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0222 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 32976 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1741 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2218 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE SET COUNT : 115 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4008 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 19 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.24000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.180 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.160 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.111 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.956 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4126 ; 0.016 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 3635 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5598 ; 1.748 ; 1.665 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8515 ; 1.091 ; 1.631 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 498 ; 7.404 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 228 ;34.703 ;21.316 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 685 ;14.585 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;17.216 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 532 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4636 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 791 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2002 ; 2.127 ; 2.614 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2000 ; 2.127 ; 2.611 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2496 ; 3.216 ; 3.902 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2497 ; 3.216 ; 3.905 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2124 ; 2.456 ; 2.830 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2123 ; 2.455 ; 2.829 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3102 ; 3.779 ; 4.151 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4638 ; 5.255 ;29.557 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4612 ; 5.219 ;29.474 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 963 REMARK 3 ORIGIN FOR THE GROUP (A): 6.4770 -0.1604 20.0767 REMARK 3 T TENSOR REMARK 3 T11: 0.0178 T22: 0.0091 REMARK 3 T33: 0.0241 T12: 0.0008 REMARK 3 T13: -0.0081 T23: 0.0096 REMARK 3 L TENSOR REMARK 3 L11: 0.0876 L22: 0.2868 REMARK 3 L33: 0.4330 L12: 0.0172 REMARK 3 L13: 0.0488 L23: -0.2267 REMARK 3 S TENSOR REMARK 3 S11: -0.0191 S12: -0.0180 S13: -0.0046 REMARK 3 S21: 0.0075 S22: -0.0304 S23: -0.0068 REMARK 3 S31: -0.0038 S32: 0.0317 S33: 0.0495 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 214 REMARK 3 ORIGIN FOR THE GROUP (A): 6.7944 2.2090 19.2924 REMARK 3 T TENSOR REMARK 3 T11: 0.0093 T22: 0.0131 REMARK 3 T33: 0.0236 T12: 0.0018 REMARK 3 T13: -0.0076 T23: 0.0095 REMARK 3 L TENSOR REMARK 3 L11: 0.0636 L22: 0.4413 REMARK 3 L33: 0.4365 L12: 0.0720 REMARK 3 L13: 0.0081 L23: -0.1613 REMARK 3 S TENSOR REMARK 3 S11: -0.0092 S12: -0.0192 S13: -0.0021 REMARK 3 S21: 0.0309 S22: -0.0122 S23: 0.0038 REMARK 3 S31: -0.0187 S32: 0.0375 S33: 0.0214 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6OA0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1000240287. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-AUG-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32976 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.5000 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) : 2.05 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.05 M PCTP PH 7.5, 0.1 REMARK 280 M NACL, 0.15 M MGCL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 33.08350 REMARK 290 SMTRY3 2 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: 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 GLY A 444 REMARK 465 PRO A 445 REMARK 465 HIS A 446 REMARK 465 MET A 447 REMARK 465 SER A 448 REMARK 465 PRO A 449 REMARK 465 GLU A 524 REMARK 465 ASP A 525 REMARK 465 GLU A 526 REMARK 465 ASN A 527 REMARK 465 GLY A 528 REMARK 465 GLU A 529 REMARK 465 ARG A 530 REMARK 465 LYS A 648 REMARK 465 MET A 649 REMARK 465 LYS A 650 REMARK 465 SER A 651 REMARK 465 GLU A 652 REMARK 465 TYR A 653 REMARK 465 ALA A 964 REMARK 465 GLU A 965 REMARK 465 THR A 966 REMARK 465 ALA A 967 REMARK 465 ASP A 968 REMARK 465 HIS A 969 REMARK 465 SER A 970 REMARK 465 GLY A 971 REMARK 465 GLN A 972 REMARK 465 ARG A 973 REMARK 465 THR A 974 REMARK 465 GLY A 975 REMARK 465 THR A 976 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 ASP A 450 CG OD1 OD2 REMARK 470 LYS A 451 CG CD CE NZ REMARK 470 ILE A 469 CG1 CG2 CD1 REMARK 470 ARG A 470 CG CD NE CZ NH1 NH2 REMARK 470 THR A 531 OG1 CG2 REMARK 470 ARG A 710 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 731 CG CD OE1 NE2 REMARK 470 ARG A 800 NE CZ NH1 NH2 REMARK 470 ARG A 830 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 831 CD NE CZ NH1 NH2 REMARK 470 GLU A 839 CD OE1 OE2 REMARK 470 LYS A 951 CD CE NZ 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 1277 O HOH A 1301 2.02 REMARK 500 O HOH A 1256 O HOH A 1307 2.16 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 ASP A 507 C ASP A 507 O 0.115 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 463 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 463 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG A 668 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 685 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 717 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 803 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 854 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 CYS A 872 CB - CA - C ANGL. DEV. = 9.7 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 LEU A 544 58.45 -90.29 REMARK 500 SER A 592 -64.57 -123.76 REMARK 500 CYS A 608 73.38 -103.16 REMARK 500 ALA A 618 -1.77 73.77 REMARK 500 THR A 716 -169.10 -106.99 REMARK 500 SER A 749 -122.30 -134.31 REMARK 500 LEU A 752 59.44 -149.25 REMARK 500 VAL A 753 -150.28 -114.64 REMARK 500 ASN A 762 72.36 -117.75 REMARK 500 TYR A 795 143.82 -172.90 REMARK 500 ALA A 796 -125.12 49.90 REMARK 500 ASP A 812 -166.57 -77.22 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 490 0.17 SIDE CHAIN REMARK 500 ARG A 535 0.18 SIDE CHAIN REMARK 500 ARG A 644 0.10 SIDE CHAIN REMARK 500 ARG A 684 0.10 SIDE CHAIN REMARK 500 ARG A 803 0.17 SIDE CHAIN REMARK 500 ARG A 921 0.14 SIDE CHAIN REMARK 500 ARG A 934 0.08 SIDE CHAIN REMARK 500 ARG A 941 0.13 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 M1D A 1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6O9X RELATED DB: PDB REMARK 900 JA2-4 REMARK 900 RELATED ID: 6O9Y RELATED DB: PDB REMARK 900 JA2-8 DBREF 6OA0 A 448 976 UNP Q86W56 PARG_HUMAN 448 976 SEQADV 6OA0 GLY A 444 UNP Q86W56 EXPRESSION TAG SEQADV 6OA0 PRO A 445 UNP Q86W56 EXPRESSION TAG SEQADV 6OA0 HIS A 446 UNP Q86W56 EXPRESSION TAG SEQADV 6OA0 MET A 447 UNP Q86W56 EXPRESSION TAG SEQADV 6OA0 ALA A 616 UNP Q86W56 LYS 616 ENGINEERED MUTATION SEQADV 6OA0 ALA A 617 UNP Q86W56 GLN 617 ENGINEERED MUTATION SEQADV 6OA0 ALA A 618 UNP Q86W56 LYS 618 ENGINEERED MUTATION SEQADV 6OA0 ALA A 688 UNP Q86W56 GLU 688 ENGINEERED MUTATION SEQADV 6OA0 ALA A 689 UNP Q86W56 LYS 689 ENGINEERED MUTATION SEQADV 6OA0 ALA A 690 UNP Q86W56 LYS 690 ENGINEERED MUTATION SEQRES 1 A 533 GLY PRO HIS MET SER PRO ASP LYS LYS TRP LEU GLY THR SEQRES 2 A 533 PRO ILE GLU GLU MET ARG ARG MET PRO ARG CYS GLY ILE SEQRES 3 A 533 ARG LEU PRO LEU LEU ARG PRO SER ALA ASN HIS THR VAL SEQRES 4 A 533 THR ILE ARG VAL ASP LEU LEU ARG ALA GLY GLU VAL PRO SEQRES 5 A 533 LYS PRO PHE PRO THR HIS TYR LYS ASP LEU TRP ASP ASN SEQRES 6 A 533 LYS HIS VAL LYS MET PRO CYS SER GLU GLN ASN LEU TYR SEQRES 7 A 533 PRO VAL GLU ASP GLU ASN GLY GLU ARG THR ALA GLY SER SEQRES 8 A 533 ARG TRP GLU LEU ILE GLN THR ALA LEU LEU ASN LYS PHE SEQRES 9 A 533 THR ARG PRO GLN ASN LEU LYS ASP ALA ILE LEU LYS TYR SEQRES 10 A 533 ASN VAL ALA TYR SER LYS LYS TRP ASP PHE THR ALA LEU SEQRES 11 A 533 ILE ASP PHE TRP ASP LYS VAL LEU GLU GLU ALA GLU ALA SEQRES 12 A 533 GLN HIS LEU TYR GLN SER ILE LEU PRO ASP MET VAL LYS SEQRES 13 A 533 ILE ALA LEU CYS LEU PRO ASN ILE CYS THR GLN PRO ILE SEQRES 14 A 533 PRO LEU LEU ALA ALA ALA MET ASN HIS SER ILE THR MET SEQRES 15 A 533 SER GLN GLU GLN ILE ALA SER LEU LEU ALA ASN ALA PHE SEQRES 16 A 533 PHE CYS THR PHE PRO ARG ARG ASN ALA LYS MET LYS SER SEQRES 17 A 533 GLU TYR SER SER TYR PRO ASP ILE ASN PHE ASN ARG LEU SEQRES 18 A 533 PHE GLU GLY ARG SER SER ARG LYS PRO GLU LYS LEU LYS SEQRES 19 A 533 THR LEU PHE CYS TYR PHE ARG ARG VAL THR ALA ALA ALA SEQRES 20 A 533 PRO THR GLY LEU VAL THR PHE THR ARG GLN SER LEU GLU SEQRES 21 A 533 ASP PHE PRO GLU TRP GLU ARG CYS GLU LYS PRO LEU THR SEQRES 22 A 533 ARG LEU HIS VAL THR TYR GLU GLY THR ILE GLU GLU ASN SEQRES 23 A 533 GLY GLN GLY MET LEU GLN VAL ASP PHE ALA ASN ARG PHE SEQRES 24 A 533 VAL GLY GLY GLY VAL THR SER ALA GLY LEU VAL GLN GLU SEQRES 25 A 533 GLU ILE ARG PHE LEU ILE ASN PRO GLU LEU ILE ILE SER SEQRES 26 A 533 ARG LEU PHE THR GLU VAL LEU ASP HIS ASN GLU CYS LEU SEQRES 27 A 533 ILE ILE THR GLY THR GLU GLN TYR SER GLU TYR THR GLY SEQRES 28 A 533 TYR ALA GLU THR TYR ARG TRP SER ARG SER HIS GLU ASP SEQRES 29 A 533 GLY SER GLU ARG ASP ASP TRP GLN ARG ARG CYS THR GLU SEQRES 30 A 533 ILE VAL ALA ILE ASP ALA LEU HIS PHE ARG ARG TYR LEU SEQRES 31 A 533 ASP GLN PHE VAL PRO GLU LYS MET ARG ARG GLU LEU ASN SEQRES 32 A 533 LYS ALA TYR CYS GLY PHE LEU ARG PRO GLY VAL SER SER SEQRES 33 A 533 GLU ASN LEU SER ALA VAL ALA THR GLY ASN TRP GLY CYS SEQRES 34 A 533 GLY ALA PHE GLY GLY ASP ALA ARG LEU LYS ALA LEU ILE SEQRES 35 A 533 GLN ILE LEU ALA ALA ALA ALA ALA GLU ARG ASP VAL VAL SEQRES 36 A 533 TYR PHE THR PHE GLY ASP SER GLU LEU MET ARG ASP ILE SEQRES 37 A 533 TYR SER MET HIS ILE PHE LEU THR GLU ARG LYS LEU THR SEQRES 38 A 533 VAL GLY ASP VAL TYR LYS LEU LEU LEU ARG TYR TYR ASN SEQRES 39 A 533 GLU GLU CYS ARG ASN CYS SER THR PRO GLY PRO ASP ILE SEQRES 40 A 533 LYS LEU TYR PRO PHE ILE TYR HIS ALA VAL GLU SER CYS SEQRES 41 A 533 ALA GLU THR ALA ASP HIS SER GLY GLN ARG THR GLY THR HET M1D A1001 19 HETNAM M1D 4-(1,3-DIMETHYL-2,6-DIOXO-1,2,3,6-TETRAHYDRO-7H-PURIN- HETNAM 2 M1D 7-YL)BUTANOIC ACID FORMUL 2 M1D C11 H14 N4 O4 FORMUL 3 HOH *212(H2 O) HELIX 1 AA1 PRO A 457 MET A 461 5 5 HELIX 2 AA2 ARG A 485 LEU A 489 5 5 HELIX 3 AA3 ARG A 535 LEU A 544 1 10 HELIX 4 AA4 ARG A 549 TYR A 560 1 12 HELIX 5 AA5 ASN A 561 SER A 565 5 5 HELIX 6 AA6 PHE A 570 VAL A 580 1 11 HELIX 7 AA7 GLU A 582 SER A 592 1 11 HELIX 8 AA8 SER A 592 CYS A 603 1 12 HELIX 9 AA9 CYS A 603 CYS A 608 1 6 HELIX 10 AB1 GLN A 627 PHE A 639 1 13 HELIX 11 AB2 PHE A 661 GLU A 666 5 6 HELIX 12 AB3 SER A 670 ALA A 689 1 20 HELIX 13 AB4 GLU A 707 CYS A 711 5 5 HELIX 14 AB5 THR A 725 GLY A 730 1 6 HELIX 15 AB6 VAL A 753 ASN A 762 1 10 HELIX 16 AB7 PRO A 763 ILE A 766 5 4 HELIX 17 AB8 ILE A 767 THR A 772 1 6 HELIX 18 AB9 TYR A 795 TYR A 799 5 5 HELIX 19 AC1 ARG A 831 PHE A 836 5 6 HELIX 20 AC2 VAL A 837 LEU A 853 1 17 HELIX 21 AC3 SER A 858 LEU A 862 5 5 HELIX 22 AC4 CYS A 872 GLY A 876 5 5 HELIX 23 AC5 ASP A 878 ALA A 893 1 16 HELIX 24 AC6 ASP A 904 ARG A 921 1 18 HELIX 25 AC7 THR A 924 CYS A 940 1 17 HELIX 26 AC8 LYS A 951 CYS A 963 1 13 SHEET 1 AA110 TRP A 453 GLY A 455 0 SHEET 2 AA110 LEU A 718 THR A 721 -1 O VAL A 720 N LEU A 454 SHEET 3 AA110 VAL A 897 PHE A 900 1 O TYR A 899 N HIS A 719 SHEET 4 AA110 VAL A 865 GLY A 868 1 N VAL A 865 O VAL A 898 SHEET 5 AA110 LEU A 734 PHE A 738 1 N LEU A 734 O ALA A 866 SHEET 6 AA110 GLU A 820 ILE A 824 1 O VAL A 822 N GLN A 735 SHEET 7 AA110 GLU A 779 THR A 784 -1 N LEU A 781 O ALA A 823 SHEET 8 AA110 LEU A 694 SER A 701 -1 N THR A 698 O ILE A 782 SHEET 9 AA110 HIS A 621 SER A 626 -1 N ILE A 623 O PHE A 697 SHEET 10 AA110 HIS A 480 VAL A 482 1 N THR A 481 O SER A 622 SHEET 1 AA2 2 LEU A 520 TYR A 521 0 SHEET 2 AA2 2 GLY A 533 SER A 534 -1 O GLY A 533 N TYR A 521 SHEET 1 AA3 2 SER A 790 THR A 793 0 SHEET 2 AA3 2 ARG A 800 SER A 804 -1 O ARG A 803 N GLU A 791 CISPEP 1 MET A 464 PRO A 465 0 3.06 CISPEP 2 PHE A 498 PRO A 499 0 6.79 SITE 1 AC1 5 TYR A 792 TYR A 795 PHE A 902 HOH A1170 SITE 2 AC1 5 HOH A1184 CRYST1 44.697 66.167 88.864 90.00 95.58 90.00 P 1 21 1 2 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 0.022373 0.000000 0.002187 0.00000 SCALE2 0.000000 0.015113 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011307 0.00000