HEADER DNA BINDING PROTEIN 23-MAR-22 7ZBG TITLE HUMAN TOPOISOMERASE II BETA ATPASE ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA TOPOISOMERASE 2-BETA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DNA TOPOISOMERASE II,BETA ISOZYME; COMPND 5 EC: 5.6.2.2; COMPND 6 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: TOP2B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DNA TOPOISOMERASE II BETA, HUMAN, ATPASE DOMAIN, TOP2B, DNA BINDING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.M.LING,A.BASLE,I.G.COWELL,T.R.BLOWER,C.A.AUSTIN REVDAT 3 31-JAN-24 7ZBG 1 REMARK REVDAT 2 30-NOV-22 7ZBG 1 JRNL REVDAT 1 25-MAY-22 7ZBG 0 JRNL AUTH E.M.LING,A.BASLE,I.G.COWELL,B.VAN DEN BERG,T.R.BLOWER, JRNL AUTH 2 C.A.AUSTIN JRNL TITL A COMPREHENSIVE STRUCTURAL ANALYSIS OF THE ATPASE DOMAIN OF JRNL TITL 2 HUMAN DNA TOPOISOMERASE II BETA BOUND TO AMPPNP, ADP, AND JRNL TITL 3 THE BISDIOXOPIPERAZINE, ICRF193. JRNL REF STRUCTURE V. 30 1129 2022 JRNL REFN ISSN 0969-2126 JRNL PMID 35660158 JRNL DOI 10.1016/J.STR.2022.05.009 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0326 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 53.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 18661 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.268 REMARK 3 FREE R VALUE TEST SET COUNT : 983 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1304 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2520 REMARK 3 BIN FREE R VALUE SET COUNT : 60 REMARK 3 BIN FREE R VALUE : 0.2450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2909 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 68 REMARK 3 SOLVENT ATOMS : 50 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.45600 REMARK 3 B22 (A**2) : 0.45600 REMARK 3 B33 (A**2) : -1.47900 REMARK 3 B12 (A**2) : 0.22800 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): 0.342 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.252 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.202 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.481 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.912 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3046 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 2880 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4111 ; 1.820 ; 1.638 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6656 ; 0.587 ; 1.573 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 363 ; 8.326 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 33 ;43.198 ;22.727 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 557 ;17.170 ;10.189 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 457 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3437 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 684 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 527 ; 0.231 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 104 ; 0.192 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1443 ; 0.186 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 87 ; 0.184 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.063 ; 0.200 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): 1452 ; 4.542 ; 4.079 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1451 ; 4.527 ; 4.076 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1812 ; 6.393 ; 6.106 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1813 ; 6.392 ; 6.108 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1594 ; 5.763 ; 4.599 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1595 ; 5.761 ; 4.599 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2298 ; 8.108 ; 6.639 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2299 ; 8.106 ; 6.639 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 7ZBG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-APR-22. REMARK 100 THE DEPOSITION ID IS D_1292121957. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-FEB-22 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 : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99987 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2, XDS REMARK 200 DATA SCALING SOFTWARE : POINTLESS, AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18666 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 53.714 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 19.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 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 : 1.500 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: 7QFO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULPHATE, 0.1 M BIS REMARK 280 TRIS (PH 5.5), 25 % W/V PEG 3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -140.0 KCAL/MOL 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 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 649 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ILE A 354 REMARK 465 GLU A 355 REMARK 465 VAL A 356 REMARK 465 VAL A 357 REMARK 465 LYS A 358 REMARK 465 LYS A 359 REMARK 465 LYS A 360 REMARK 465 ASN A 361 REMARK 465 LYS A 362 REMARK 465 ALA A 363 REMARK 465 GLY A 364 REMARK 465 VAL A 365 REMARK 465 SER A 366 REMARK 465 VAL A 367 REMARK 465 LYS A 368 REMARK 465 ILE A 423 REMARK 465 VAL A 424 REMARK 465 GLU A 425 REMARK 465 SER A 426 REMARK 465 ILE A 427 REMARK 465 LEU A 428 REMARK 465 ASN A 429 REMARK 465 TRP A 430 REMARK 465 VAL A 431 REMARK 465 LYS A 432 REMARK 465 PHE A 433 REMARK 465 LYS A 434 REMARK 465 ALA A 435 REMARK 465 GLN A 436 REMARK 465 THR A 437 REMARK 465 GLN A 438 REMARK 465 LEU A 439 REMARK 465 ASN A 440 REMARK 465 LYS A 441 REMARK 465 LYS A 442 REMARK 465 CYS A 443 REMARK 465 SER A 444 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 H LEU A 162 O HOH A 605 1.56 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 137 -166.30 -105.80 REMARK 500 GLU A 171 -55.14 -22.53 REMARK 500 LYS A 173 92.02 61.65 REMARK 500 ARG A 178 -42.74 -171.16 REMARK 500 PHE A 189 30.29 -96.42 REMARK 500 ALA A 220 131.16 -36.41 REMARK 500 LYS A 322 13.55 -170.29 REMARK 500 LYS A 373 -37.24 -36.12 REMARK 500 SER A 403 44.68 -106.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP A 170 GLU A 171 -148.36 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 48 0.23 SIDE CHAIN REMARK 500 ARG A 114 0.12 SIDE CHAIN REMARK 500 ARG A 284 0.16 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 506 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 107 OD1 REMARK 620 2 ADP A 501 O1B 92.7 REMARK 620 3 ADP A 501 O1A 88.8 85.6 REMARK 620 4 HOH A 611 O 170.6 92.4 99.5 REMARK 620 5 HOH A 613 O 87.7 176.1 90.5 87.8 REMARK 620 6 HOH A 627 O 83.4 95.9 172.1 88.2 88.1 REMARK 620 N 1 2 3 4 5 DBREF 7ZBG A 45 444 UNP Q02880 TOP2B_HUMAN 50 449 SEQRES 1 A 400 SER VAL GLU ARG VAL TYR GLN LYS LYS THR GLN LEU GLU SEQRES 2 A 400 HIS ILE LEU LEU ARG PRO ASP THR TYR ILE GLY SER VAL SEQRES 3 A 400 GLU PRO LEU THR GLN PHE MET TRP VAL TYR ASP GLU ASP SEQRES 4 A 400 VAL GLY MET ASN CYS ARG GLU VAL THR PHE VAL PRO GLY SEQRES 5 A 400 LEU TYR LYS ILE PHE ASP GLU ILE LEU VAL ASN ALA ALA SEQRES 6 A 400 ASP ASN LYS GLN ARG ASP LYS ASN MET THR CYS ILE LYS SEQRES 7 A 400 VAL SER ILE ASP PRO GLU SER ASN ILE ILE SER ILE TRP SEQRES 8 A 400 ASN ASN GLY LYS GLY ILE PRO VAL VAL GLU HIS LYS VAL SEQRES 9 A 400 GLU LYS VAL TYR VAL PRO ALA LEU ILE PHE GLY GLN LEU SEQRES 10 A 400 LEU THR SER SER ASN TYR ASP ASP ASP GLU LYS LYS VAL SEQRES 11 A 400 THR GLY GLY ARG ASN GLY TYR GLY ALA LYS LEU CYS ASN SEQRES 12 A 400 ILE PHE SER THR LYS PHE THR VAL GLU THR ALA CYS LYS SEQRES 13 A 400 GLU TYR LYS HIS SER PHE LYS GLN THR TRP MET ASN ASN SEQRES 14 A 400 MET MET LYS THR SER GLU ALA LYS ILE LYS HIS PHE ASP SEQRES 15 A 400 GLY GLU ASP TYR THR CYS ILE THR PHE GLN PRO ASP LEU SEQRES 16 A 400 SER LYS PHE LYS MET GLU LYS LEU ASP LYS ASP ILE VAL SEQRES 17 A 400 ALA LEU MET THR ARG ARG ALA TYR ASP LEU ALA GLY SER SEQRES 18 A 400 CYS ARG GLY VAL LYS VAL MET PHE ASN GLY LYS LYS LEU SEQRES 19 A 400 PRO VAL ASN GLY PHE ARG SER TYR VAL ASP LEU TYR VAL SEQRES 20 A 400 LYS ASP LYS LEU ASP GLU THR GLY VAL ALA LEU LYS VAL SEQRES 21 A 400 ILE HIS GLU LEU ALA ASN GLU ARG TRP ASP VAL CYS LEU SEQRES 22 A 400 THR LEU SER GLU LYS GLY PHE GLN GLN ILE SER PHE VAL SEQRES 23 A 400 ASN SER ILE ALA THR THR LYS GLY GLY ARG HIS VAL ASP SEQRES 24 A 400 TYR VAL VAL ASP GLN VAL VAL GLY LYS LEU ILE GLU VAL SEQRES 25 A 400 VAL LYS LYS LYS ASN LYS ALA GLY VAL SER VAL LYS PRO SEQRES 26 A 400 PHE GLN VAL LYS ASN HIS ILE TRP VAL PHE ILE ASN CYS SEQRES 27 A 400 LEU ILE GLU ASN PRO THR PHE ASP SER GLN THR LYS GLU SEQRES 28 A 400 ASN MET THR LEU GLN PRO LYS SER PHE GLY SER LYS CYS SEQRES 29 A 400 GLN LEU SER GLU LYS PHE PHE LYS ALA ALA SER ASN CYS SEQRES 30 A 400 GLY ILE VAL GLU SER ILE LEU ASN TRP VAL LYS PHE LYS SEQRES 31 A 400 ALA GLN THR GLN LEU ASN LYS LYS CYS SER HET ADP A 501 37 HET SO4 A 502 5 HET SO4 A 503 5 HET SO4 A 504 5 HET SO4 A 505 5 HET MG A 506 1 HET ITH A 507 38 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM SO4 SULFATE ION HETNAM MG MAGNESIUM ION HETNAM ITH 4-[(2S,3R)-3-[3,5-BIS(OXIDANYLIDENE)PIPERAZIN-1-IUM-1- HETNAM 2 ITH YL]BUTAN-2-YL]PIPERAZIN-4-IUM-2,6-DIONE FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 MG MG 2+ FORMUL 8 ITH C12 H20 N4 O4 2+ FORMUL 9 HOH *50(H2 O) HELIX 1 AA1 SER A 45 TYR A 50 1 6 HELIX 2 AA2 THR A 54 ARG A 62 1 9 HELIX 3 AA3 ARG A 62 GLY A 68 1 7 HELIX 4 AA4 VAL A 94 ASP A 115 1 22 HELIX 5 AA5 TYR A 152 GLN A 160 1 9 HELIX 6 AA6 TYR A 181 PHE A 189 1 9 HELIX 7 AA7 LYS A 200 TYR A 202 5 3 HELIX 8 AA8 LEU A 239 LYS A 243 5 5 HELIX 9 AA9 ASP A 248 CYS A 266 1 19 HELIX 10 AB1 GLY A 282 LYS A 292 1 11 HELIX 11 AB2 ARG A 340 LEU A 353 1 14 HELIX 12 AB3 VAL A 372 ASN A 374 5 3 HELIX 13 AB4 GLN A 400 PHE A 404 5 5 HELIX 14 AB5 SER A 411 ASN A 420 1 10 SHEET 1 AA1 2 LEU A 73 ASP A 81 0 SHEET 2 AA1 2 GLY A 85 PHE A 93 -1 O ARG A 89 N MET A 77 SHEET 1 AA2 3 LYS A 216 THR A 217 0 SHEET 2 AA2 3 HIS A 204 MET A 211 -1 N MET A 211 O LYS A 216 SHEET 3 AA2 3 LYS A 221 HIS A 224 -1 O LYS A 221 N LYS A 207 SHEET 1 AA3 8 LYS A 216 THR A 217 0 SHEET 2 AA3 8 HIS A 204 MET A 211 -1 N MET A 211 O LYS A 216 SHEET 3 AA3 8 SER A 190 CYS A 199 -1 N PHE A 193 O TRP A 210 SHEET 4 AA3 8 TYR A 230 PRO A 237 -1 O THR A 234 N THR A 194 SHEET 5 AA3 8 ILE A 131 ASN A 137 -1 N ILE A 132 O PHE A 235 SHEET 6 AA3 8 CYS A 120 ASP A 126 -1 N ASP A 126 O ILE A 131 SHEET 7 AA3 8 LYS A 270 PHE A 273 1 O MET A 272 N VAL A 123 SHEET 8 AA3 8 LYS A 276 LYS A 277 -1 O LYS A 276 N PHE A 273 SHEET 1 AA4 5 ILE A 305 ASN A 310 0 SHEET 2 AA4 5 TRP A 313 LEU A 319 -1 O LEU A 317 N ILE A 305 SHEET 3 AA4 5 ILE A 376 CYS A 382 -1 O ASN A 381 N ASP A 314 SHEET 4 AA4 5 GLN A 325 VAL A 330 1 N PHE A 329 O CYS A 382 SHEET 5 AA4 5 ILE A 333 ALA A 334 -1 O ILE A 333 N VAL A 330 SHEET 1 AA5 2 GLY A 338 GLY A 339 0 SHEET 2 AA5 2 ASN A 396 MET A 397 1 O MET A 397 N GLY A 338 LINK OD1 ASN A 107 MG MG A 506 1555 1555 2.07 LINK O1B ADP A 501 MG MG A 506 1555 1555 1.97 LINK O1A ADP A 501 MG MG A 506 1555 1555 1.95 LINK MG MG A 506 O HOH A 611 1555 1555 2.26 LINK MG MG A 506 O HOH A 613 1555 1555 1.93 LINK MG MG A 506 O HOH A 627 1555 1555 2.04 CRYST1 103.400 103.400 67.020 90.00 90.00 120.00 P 3 2 1 6 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 0.009671 0.005584 0.000000 0.00000 SCALE2 0.000000 0.011167 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014921 0.00000