HEADER HYDROLASE 29-OCT-13 4CD3 TITLE RNNTPDASE2 X4 VARIANT IN COMPLEX WITH PSB-071 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ECTONUCLEOSIDE TRIPHOSPHATE DIPHOSPHOHYDROLASE 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ECTODOMAIN, RESIDUES 28-462; COMPND 5 SYNONYM: NTPDASE 2, CD39 ANTIGEN-LIKE 1, ECTO-ATP DIPHOSPHOHYDROLASE COMPND 6 2, ECTO-ATPDASE 2, ECTO-ATPASE 2, NTPDASE2; COMPND 7 EC: 3.6.1.-, 3.6.1.5; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, APYRASE, ATPASE, PURINERGIC SIGNALLING, DRUG DESIGN, KEYWDS 2 INHIBITOR, NTPDASE EXPDTA X-RAY DIFFRACTION AUTHOR M.ZEBISCH,P.SCHAEFER,N.STRAETER REVDAT 3 23-OCT-24 4CD3 1 REMARK REVDAT 2 12-MAR-14 4CD3 1 JRNL REVDAT 1 12-FEB-14 4CD3 0 JRNL AUTH M.ZEBISCH,Y.BAQI,P.SCHAFER,C.E.MULLER,N.STRATER JRNL TITL CRYSTAL STRUCTURE OF NTPDASE2 IN COMPLEX WITH THE JRNL TITL 2 SULFOANTHRAQUINONE INHIBITOR PSB-071. JRNL REF J.STRUCT.BIOL. V. 185 336 2014 JRNL REFN ISSN 1047-8477 JRNL PMID 24462745 JRNL DOI 10.1016/J.JSB.2014.01.005 REMARK 2 REMARK 2 RESOLUTION. 2.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 25102 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1046 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) : 2.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1665 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.2090 REMARK 3 BIN FREE R VALUE SET COUNT : 69 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3287 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 199 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : -0.31000 REMARK 3 B33 (A**2) : 0.39000 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): 0.233 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.199 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.128 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.548 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3511 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4798 ; 2.022 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 429 ; 6.595 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 153 ;36.300 ;22.876 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 536 ;15.920 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;21.201 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 515 ; 0.131 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2706 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 36 A 162 REMARK 3 RESIDUE RANGE : A 436 A 461 REMARK 3 ORIGIN FOR THE GROUP (A): 2.2018 13.8956 -23.7933 REMARK 3 T TENSOR REMARK 3 T11: 0.1695 T22: 0.1395 REMARK 3 T33: 0.0676 T12: 0.0079 REMARK 3 T13: 0.0026 T23: 0.0733 REMARK 3 L TENSOR REMARK 3 L11: 2.7252 L22: 3.5726 REMARK 3 L33: 2.8298 L12: -0.9380 REMARK 3 L13: 0.4912 L23: -0.2158 REMARK 3 S TENSOR REMARK 3 S11: 0.0076 S12: 0.2129 S13: 0.3494 REMARK 3 S21: -0.3717 S22: -0.0615 S23: -0.0057 REMARK 3 S31: -0.3758 S32: 0.0084 S33: 0.0539 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 163 A 179 REMARK 3 RESIDUE RANGE : A 427 A 435 REMARK 3 ORIGIN FOR THE GROUP (A): -2.5582 12.5235 -9.9321 REMARK 3 T TENSOR REMARK 3 T11: 0.0881 T22: 0.1196 REMARK 3 T33: 0.0599 T12: -0.0235 REMARK 3 T13: -0.0079 T23: 0.0145 REMARK 3 L TENSOR REMARK 3 L11: 0.2275 L22: 4.2579 REMARK 3 L33: 4.4299 L12: 0.2078 REMARK 3 L13: 0.7982 L23: 0.2456 REMARK 3 S TENSOR REMARK 3 S11: -0.0609 S12: 0.0083 S13: 0.0599 REMARK 3 S21: 0.0022 S22: -0.0387 S23: 0.4648 REMARK 3 S31: -0.1422 S32: -0.3976 S33: 0.0995 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 180 A 195 REMARK 3 ORIGIN FOR THE GROUP (A): -3.5258 24.8098 6.6115 REMARK 3 T TENSOR REMARK 3 T11: 0.1325 T22: 0.1142 REMARK 3 T33: 0.1575 T12: -0.0145 REMARK 3 T13: 0.0394 T23: 0.0030 REMARK 3 L TENSOR REMARK 3 L11: 4.4810 L22: 6.0557 REMARK 3 L33: 6.9026 L12: -4.4475 REMARK 3 L13: -3.3571 L23: 6.0122 REMARK 3 S TENSOR REMARK 3 S11: -0.0089 S12: -0.3950 S13: 0.2776 REMARK 3 S21: 0.0435 S22: 0.4804 S23: -0.4585 REMARK 3 S31: 0.0675 S32: 0.4586 S33: -0.4715 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 196 A 426 REMARK 3 ORIGIN FOR THE GROUP (A): -1.7298 -8.2140 -7.8860 REMARK 3 T TENSOR REMARK 3 T11: 0.0419 T22: 0.0618 REMARK 3 T33: 0.0149 T12: -0.0024 REMARK 3 T13: 0.0057 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 1.7697 L22: 3.8237 REMARK 3 L33: 1.3076 L12: 0.8211 REMARK 3 L13: 0.2791 L23: 0.7652 REMARK 3 S TENSOR REMARK 3 S11: -0.0161 S12: 0.0672 S13: -0.0557 REMARK 3 S21: 0.0366 S22: 0.0266 S23: 0.1104 REMARK 3 S31: 0.1124 S32: -0.0886 S33: -0.0105 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 USED IF PRESENT IN REMARK 3 THE INPUT. U VALUES WITH TLS ADDED REMARK 4 REMARK 4 4CD3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-OCT-13. REMARK 100 THE DEPOSITION ID IS D_1290058844. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-FEB-09 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 : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26244 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 43.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 20.61500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.03500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.00500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.03500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.61500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.00500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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 6 REMARK 465 ALA A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 HIS A 12 REMARK 465 HIS A 13 REMARK 465 VAL A 14 REMARK 465 GLY A 15 REMARK 465 THR A 16 REMARK 465 GLY A 17 REMARK 465 SER A 18 REMARK 465 ASN A 19 REMARK 465 ASP A 20 REMARK 465 ASP A 21 REMARK 465 ASP A 22 REMARK 465 ASP A 23 REMARK 465 LYS A 24 REMARK 465 SER A 25 REMARK 465 PRO A 26 REMARK 465 ASP A 27 REMARK 465 PRO A 28 REMARK 465 THR A 29 REMARK 465 GLN A 30 REMARK 465 ASP A 31 REMARK 465 VAL A 32 REMARK 465 ARG A 33 REMARK 465 GLU A 34 REMARK 465 PRO A 35 REMARK 465 ARG A 291 REMARK 465 ALA A 292 REMARK 465 PHE A 293 REMARK 465 ASN A 294 REMARK 465 GLY A 295 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASP A 431 CB CG OD1 OD2 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 NH2 ARG A 109 OE1 GLN A 281 3554 2.12 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 431 CA ASP A 431 CB 0.230 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 LEU A 176 CB - CG - CD1 ANGL. DEV. = -10.5 DEGREES REMARK 500 LEU A 197 CB - CG - CD2 ANGL. DEV. = -13.8 DEGREES REMARK 500 ARG A 411 CG - CD - NE ANGL. DEV. = -13.1 DEGREES REMARK 500 ARG A 411 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 411 NE - CZ - NH2 ANGL. DEV. = -7.5 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 TRP A 58 145.20 -170.26 REMARK 500 ASP A 88 71.55 -155.32 REMARK 500 THR A 122 -136.09 -113.61 REMARK 500 ARG A 188 71.73 -154.87 REMARK 500 SER A 329 -83.38 -82.39 REMARK 500 PHE A 345 -157.70 -124.92 REMARK 500 SER A 346 -122.99 35.52 REMARK 500 ASP A 416 -169.04 -124.52 REMARK 500 ALA A 430 -119.39 51.68 REMARK 500 PRO A 453 120.20 -37.56 REMARK 500 LYS A 457 18.99 49.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 1-AMINO-4-(3-METHYLPHENYL)AMINO-9,10-DIOXO-9, REMARK 600 10-DIHYDROANTHRACENE-2-SULFONATE (071): PSB-071 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 8E9 A 1462 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 8E9 A 1463 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1464 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CD1 RELATED DB: PDB REMARK 900 RNNTPDASE2 IN COMPLEX WITH PSB-071 DBREF 4CD3 A 28 461 UNP O35795 ENTP2_RAT 28 461 SEQADV 4CD3 MET A 6 UNP O35795 EXPRESSION TAG SEQADV 4CD3 ALA A 7 UNP O35795 EXPRESSION TAG SEQADV 4CD3 HIS A 8 UNP O35795 EXPRESSION TAG SEQADV 4CD3 HIS A 9 UNP O35795 EXPRESSION TAG SEQADV 4CD3 HIS A 10 UNP O35795 EXPRESSION TAG SEQADV 4CD3 HIS A 11 UNP O35795 EXPRESSION TAG SEQADV 4CD3 HIS A 12 UNP O35795 EXPRESSION TAG SEQADV 4CD3 HIS A 13 UNP O35795 EXPRESSION TAG SEQADV 4CD3 VAL A 14 UNP O35795 EXPRESSION TAG SEQADV 4CD3 GLY A 15 UNP O35795 EXPRESSION TAG SEQADV 4CD3 THR A 16 UNP O35795 EXPRESSION TAG SEQADV 4CD3 GLY A 17 UNP O35795 EXPRESSION TAG SEQADV 4CD3 SER A 18 UNP O35795 EXPRESSION TAG SEQADV 4CD3 ASN A 19 UNP O35795 EXPRESSION TAG SEQADV 4CD3 ASP A 20 UNP O35795 EXPRESSION TAG SEQADV 4CD3 ASP A 21 UNP O35795 EXPRESSION TAG SEQADV 4CD3 ASP A 22 UNP O35795 EXPRESSION TAG SEQADV 4CD3 ASP A 23 UNP O35795 EXPRESSION TAG SEQADV 4CD3 LYS A 24 UNP O35795 EXPRESSION TAG SEQADV 4CD3 SER A 25 UNP O35795 EXPRESSION TAG SEQADV 4CD3 PRO A 26 UNP O35795 EXPRESSION TAG SEQADV 4CD3 ASP A 27 UNP O35795 EXPRESSION TAG SEQADV 4CD3 LEU A 127 UNP O35795 PRO 127 VARIANT SEQADV 4CD3 LEU A 128 UNP O35795 PHE 128 VARIANT SEQADV 4CD3 GLU A 153 UNP O35795 GLU 153 ENGINEERED MUTATION SEQADV 4CD3 SER A 426 UNP O35795 SER 426 ENGINEERED MUTATION SEQRES 1 A 456 MET ALA HIS HIS HIS HIS HIS HIS VAL GLY THR GLY SER SEQRES 2 A 456 ASN ASP ASP ASP ASP LYS SER PRO ASP PRO THR GLN ASP SEQRES 3 A 456 VAL ARG GLU PRO PRO ALA LEU LYS TYR GLY ILE VAL LEU SEQRES 4 A 456 ASP ALA GLY SER SER HIS THR SER MET PHE VAL TYR LYS SEQRES 5 A 456 TRP PRO ALA ASP LYS GLU ASN ASP THR GLY ILE VAL GLY SEQRES 6 A 456 GLN HIS SER SER CYS ASP VAL GLN GLY GLY GLY ILE SER SEQRES 7 A 456 SER TYR ALA ASN ASP PRO SER LYS ALA GLY GLN SER LEU SEQRES 8 A 456 VAL ARG CYS LEU GLU GLN ALA LEU ARG ASP VAL PRO ARG SEQRES 9 A 456 ASP ARG HIS ALA SER THR PRO LEU TYR LEU GLY ALA THR SEQRES 10 A 456 ALA GLY MET ARG LEU LEU ASN LEU THR SER PRO GLU ALA SEQRES 11 A 456 THR ALA ARG VAL LEU GLU ALA VAL THR GLN THR LEU THR SEQRES 12 A 456 GLN TYR PRO PHE GLU PHE ARG GLY ALA ARG ILE LEU SER SEQRES 13 A 456 GLY GLN ASP GLU GLY VAL PHE GLY TRP VAL THR ALA ASN SEQRES 14 A 456 TYR LEU LEU GLU ASN PHE ILE LYS TYR GLY TRP VAL GLY SEQRES 15 A 456 ARG TRP ILE ARG PRO ARG LYS GLY THR LEU GLY ALA MET SEQRES 16 A 456 ASP LEU GLY GLY ALA SER THR GLN ILE THR PHE GLU THR SEQRES 17 A 456 THR SER PRO SER GLU ASP PRO GLY ASN GLU VAL HIS LEU SEQRES 18 A 456 ARG LEU TYR GLY GLN HIS TYR ARG VAL TYR THR HIS SER SEQRES 19 A 456 PHE LEU CYS TYR GLY ARG ASP GLN ILE LEU LEU ARG LEU SEQRES 20 A 456 LEU ALA SER ALA LEU GLN ILE HIS ARG PHE HIS PRO CYS SEQRES 21 A 456 TRP PRO LYS GLY TYR SER THR GLN VAL LEU LEU GLN GLU SEQRES 22 A 456 VAL TYR GLN SER PRO CYS THR MET GLY GLN ARG PRO ARG SEQRES 23 A 456 ALA PHE ASN GLY SER ALA ILE VAL SER LEU SER GLY THR SEQRES 24 A 456 SER ASN ALA THR LEU CYS ARG ASP LEU VAL SER ARG LEU SEQRES 25 A 456 PHE ASN ILE SER SER CYS PRO PHE SER GLN CYS SER PHE SEQRES 26 A 456 ASN GLY VAL PHE GLN PRO PRO VAL ALA GLY ASN PHE ILE SEQRES 27 A 456 ALA PHE SER ALA PHE TYR TYR THR VAL ASP PHE LEU THR SEQRES 28 A 456 THR VAL MET GLY LEU PRO VAL GLY THR LEU LYS GLN LEU SEQRES 29 A 456 GLU GLU ALA THR GLU ILE THR CYS ASN GLN THR TRP THR SEQRES 30 A 456 GLU LEU GLN ALA ARG VAL PRO GLY GLN LYS THR ARG LEU SEQRES 31 A 456 ALA ASP TYR CYS ALA VAL ALA MET PHE ILE HIS GLN LEU SEQRES 32 A 456 LEU SER ARG GLY TYR HIS PHE ASP GLU ARG SER PHE ARG SEQRES 33 A 456 GLU VAL VAL PHE SER LYS LYS ALA ALA ASP THR ALA VAL SEQRES 34 A 456 GLY TRP ALA LEU GLY TYR MET LEU ASN LEU THR ASN LEU SEQRES 35 A 456 ILE PRO ALA ASP LEU PRO GLY LEU ARG LYS GLY THR HIS SEQRES 36 A 456 PHE HET 8E9 A1462 29 HET 8E9 A1463 58 HET GOL A1464 6 HETNAM 8E9 1-AMINO-4-(3-METHYLPHENYL)AMINO-9,10-DIOXO-9,10- HETNAM 2 8E9 DIHYDROANTHRACENE-2-SULFONATE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 8E9 2(C21 H16 N2 O5 S) FORMUL 4 GOL C3 H8 O3 FORMUL 5 HOH *199(H2 O) HELIX 1 1 ASP A 61 GLU A 63 5 3 HELIX 2 2 GLY A 81 ALA A 86 5 6 HELIX 3 3 ASP A 88 SER A 95 1 8 HELIX 4 4 LEU A 96 VAL A 107 1 12 HELIX 5 5 PRO A 108 SER A 114 5 7 HELIX 6 6 THR A 122 SER A 132 1 11 HELIX 7 7 SER A 132 THR A 148 1 17 HELIX 8 8 SER A 161 LEU A 177 1 17 HELIX 9 9 ASP A 219 GLY A 221 5 3 HELIX 10 10 GLY A 244 HIS A 260 1 17 HELIX 11 11 LEU A 276 TYR A 280 1 5 HELIX 12 12 THR A 285 ARG A 289 5 5 HELIX 13 13 ASN A 306 ARG A 316 1 11 HELIX 14 14 ALA A 347 VAL A 358 1 12 HELIX 15 15 THR A 365 GLN A 379 1 15 HELIX 16 16 THR A 380 VAL A 388 1 9 HELIX 17 17 ARG A 394 ALA A 396 5 3 HELIX 18 18 ASP A 397 GLY A 412 1 16 HELIX 19 19 ASP A 416 ARG A 421 1 6 HELIX 20 20 TRP A 436 THR A 445 1 10 HELIX 21 21 LEU A 452 THR A 459 5 8 SHEET 1 AA 5 GLY A 70 ASP A 76 0 SHEET 2 AA 5 THR A 51 PRO A 59 -1 O MET A 53 N CYS A 75 SHEET 3 AA 5 LEU A 38 ALA A 46 -1 O LYS A 39 N TRP A 58 SHEET 4 AA 5 PRO A 116 ALA A 121 1 O PRO A 116 N ILE A 42 SHEET 5 AA 5 GLU A 153 ILE A 159 1 O GLU A 153 N LEU A 117 SHEET 1 AB 2 GLY A 184 TRP A 185 0 SHEET 2 AB 2 ARG A 188 TRP A 189 -1 O ARG A 188 N TRP A 185 SHEET 1 AC 6 GLU A 223 LEU A 228 0 SHEET 2 AC 6 GLN A 231 LEU A 241 -1 O GLN A 231 N LEU A 228 SHEET 3 AC 6 SER A 206 GLU A 212 -1 O THR A 207 N PHE A 240 SHEET 4 AC 6 GLY A 198 LEU A 202 -1 O ALA A 199 N THR A 210 SHEET 5 AC 6 PHE A 342 SER A 346 1 O ILE A 343 N MET A 200 SHEET 6 AC 6 VAL A 423 PHE A 425 1 O VAL A 424 N ALA A 344 SHEET 1 AD 2 SER A 271 LEU A 275 0 SHEET 2 AD 2 ILE A 298 SER A 302 -1 O VAL A 299 N VAL A 274 SHEET 1 AE 2 LYS A 428 ALA A 429 0 SHEET 2 AE 2 THR A 432 ALA A 433 -1 O THR A 432 N ALA A 429 SSBOND 1 CYS A 75 CYS A 99 1555 1555 2.05 SSBOND 2 CYS A 242 CYS A 284 1555 1555 2.09 SSBOND 3 CYS A 265 CYS A 310 1555 1555 2.11 SSBOND 4 CYS A 323 CYS A 328 1555 1555 2.03 SSBOND 5 CYS A 377 CYS A 399 1555 1555 2.05 CISPEP 1 ARG A 191 PRO A 192 0 -7.56 SITE 1 AC1 9 HIS A 50 ARG A 245 ASP A 246 LEU A 249 SITE 2 AC1 9 LYS A 392 THR A 393 ARG A 394 TYR A 398 SITE 3 AC1 9 8E9 A1463 SITE 1 AC2 9 HIS A 50 ASP A 76 ARG A 245 SER A 346 SITE 2 AC2 9 ALA A 347 TYR A 350 TYR A 398 8E9 A1462 SITE 3 AC2 9 HOH A2024 SITE 1 AC3 5 TRP A 185 LEU A 226 ASN A 443 HOH A2193 SITE 2 AC3 5 HOH A2195 CRYST1 41.230 86.010 140.070 90.00 90.00 90.00 P 21 21 21 4 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 0.024254 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011627 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007139 0.00000