PDB Short entry for 1RR8 HEADER ISOMERASE/DNA 08-DEC-03 1RR8 TITLE STRUCTURAL MECHANISMS OF CAMPTOTHECIN RESISTANCE BY MUTATIONS IN HUMAN TITLE 2 TOPOISOMERASE I COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*AP*AP*AP*AP*AP*GP*AP*CP*TP*T*GP*GP*AP*AP*AP*AP*AP*TP* COMPND 3 TP*TP*TP*T)-3'; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(*AP*AP*AP*AP*AP*TP*TP*TP*TP*TP*CP*CP*AP*AP*GP*TP*CP*TP COMPND 8 *TP*TP*TP*T)-3'; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA TOPOISOMERASE I; COMPND 13 CHAIN: C; COMPND 14 EC: 5.99.1.2; COMPND 15 ENGINEERED: YES; COMPND 16 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: TOP1; SOURCE 10 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 11 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 13 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 14 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 15 EXPRESSION_SYSTEM_VECTOR: PFACTBAC1 KEYWDS PROTEIN-DNA COMPLEX, TOPOTECAN, CAMPTOTHECIN, NUCLEIC ACID, HUMAN KEYWDS 2 TOPOISOMERASE I, ISOMERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.E.CHRENCIK,B.L.STAKER,A.B.BURGIN,L.STEWART,M.R.REDINBO REVDAT 5 15-NOV-23 1RR8 1 REMARK REVDAT 4 23-AUG-23 1RR8 1 REMARK REVDAT 3 27-OCT-21 1RR8 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1RR8 1 VERSN REVDAT 1 06-JUL-04 1RR8 0 JRNL AUTH J.E.CHRENCIK,B.L.STAKER,A.B.BURGIN,P.POURQUIER,Y.POMMIER, JRNL AUTH 2 L.STEWART,M.R.REDINBO JRNL TITL MECHANISMS OF CAMPTOTHECIN RESISTANCE BY HUMAN TOPOISOMERASE JRNL TITL 2 I MUTATIONS JRNL REF J.MOL.BIOL. V. 339 773 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 15165849 JRNL DOI 10.1016/J.JMB.2004.03.077 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 10.0 REMARK 3 NUMBER OF REFLECTIONS : 27855 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 SET) : 0.242 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2744 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE : 0.2940 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 2744 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.006 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4124 REMARK 3 NUCLEIC ACID ATOMS : 895 REMARK 3 HETEROGEN ATOMS : 63 REMARK 3 SOLVENT ATOMS : 304 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.53000 REMARK 3 B22 (A**2) : -7.52000 REMARK 3 B33 (A**2) : 5.99000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 5.78000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.38 REMARK 3 ESD FROM SIGMAA (A) : 0.42 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.48 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.53 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.054 REMARK 3 BOND ANGLES (DEGREES) : 2.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.550 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1RR8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000020981. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-FEB-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : YALE MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : TRUNCATE, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : CCP4 (TRUNCATE) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27855 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 20.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.8 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1K4T REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, 200MM LITHIUM SULFATE, 100MM REMARK 280 MES, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K 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 57.79250 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 PRO C 637 REMARK 465 LYS C 638 REMARK 465 THR C 639 REMARK 465 PHE C 640 REMARK 465 GLU C 641 REMARK 465 LYS C 642 REMARK 465 SER C 643 REMARK 465 MET C 644 REMARK 465 MET C 645 REMARK 465 ASN C 646 REMARK 465 LEU C 647 REMARK 465 GLN C 648 REMARK 465 THR C 649 REMARK 465 LYS C 650 REMARK 465 ILE C 651 REMARK 465 ASP C 652 REMARK 465 ALA C 653 REMARK 465 LYS C 654 REMARK 465 LYS C 655 REMARK 465 GLU C 656 REMARK 465 GLN C 657 REMARK 465 LEU C 658 REMARK 465 ALA C 659 REMARK 465 ASP C 660 REMARK 465 ALA C 661 REMARK 465 ARG C 662 REMARK 465 ARG C 663 REMARK 465 ASP C 664 REMARK 465 LEU C 665 REMARK 465 LYS C 666 REMARK 465 SER C 667 REMARK 465 ALA C 668 REMARK 465 LYS C 669 REMARK 465 ALA C 670 REMARK 465 ASP C 671 REMARK 465 ALA C 672 REMARK 465 LYS C 673 REMARK 465 VAL C 674 REMARK 465 MET C 675 REMARK 465 LYS C 676 REMARK 465 ASP C 677 REMARK 465 ALA C 678 REMARK 465 LYS C 679 REMARK 465 THR C 680 REMARK 465 LYS C 681 REMARK 465 LYS C 682 REMARK 465 VAL C 683 REMARK 465 VAL C 684 REMARK 465 GLU C 685 REMARK 465 SER C 686 REMARK 465 LYS C 687 REMARK 465 LYS C 688 REMARK 465 LYS C 689 REMARK 465 ALA C 690 REMARK 465 VAL C 691 REMARK 465 GLN C 692 REMARK 465 ARG C 693 REMARK 465 LEU C 694 REMARK 465 GLU C 695 REMARK 465 GLU C 696 REMARK 465 GLN C 697 REMARK 465 LEU C 698 REMARK 465 MET C 699 REMARK 465 LYS C 700 REMARK 465 LEU C 701 REMARK 465 GLU C 702 REMARK 465 VAL C 703 REMARK 465 GLN C 704 REMARK 465 ALA C 705 REMARK 465 THR C 706 REMARK 465 ASP C 707 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 DT A 10 O3' 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 OP1 DG A 11 O HOH A 886 1.67 REMARK 500 P DG A 11 O HOH A 886 2.19 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 DG A 11 P DG A 11 O5' 1.590 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 DG A 11 O5' - P - OP2 ANGL. DEV. = -13.1 DEGREES REMARK 500 DG A 11 P - O5' - C5' ANGL. DEV. = -86.9 DEGREES REMARK 500 LEU C 335 CA - CB - CG ANGL. DEV. = 13.9 DEGREES REMARK 500 ASN C 722 CA - C - N ANGL. DEV. = -21.1 DEGREES REMARK 500 ASN C 722 O - C - N ANGL. DEV. = 16.9 DEGREES REMARK 500 PTR C 723 C - N - CA ANGL. DEV. = -18.1 DEGREES REMARK 500 PTR C 723 CA - C - N ANGL. DEV. = 38.0 DEGREES REMARK 500 PTR C 723 O - C - N ANGL. DEV. = -37.6 DEGREES REMARK 500 LEU C 724 C - N - CA ANGL. DEV. = 23.3 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 THR C 303 -38.73 -39.83 REMARK 500 ASP C 344 89.33 47.48 REMARK 500 ASN C 345 -2.31 59.44 REMARK 500 ALA C 351 -83.43 -66.51 REMARK 500 ASN C 352 78.58 -117.93 REMARK 500 CYS C 453 -15.38 -145.46 REMARK 500 ASN C 711 30.91 -83.71 REMARK 500 ALA C 759 136.69 170.65 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 PTR C 723 LEU C 724 -131.63 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 DA A 1 0.05 SIDE CHAIN REMARK 500 DT A 9 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 PTR C 723 47.61 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 TTG A 1991 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TTC A 100 DBREF 1RR8 C 203 765 UNP P11387 TOP1_HUMAN 203 765 DBREF 1RR8 A 1 22 PDB 1RR8 1RR8 1 22 DBREF 1RR8 B 101 122 PDB 1RR8 1RR8 101 122 SEQADV 1RR8 ALA C 201 UNP P11387 CLONING ARTIFACT SEQADV 1RR8 ALA C 202 UNP P11387 CLONING ARTIFACT SEQADV 1RR8 SER C 361 UNP P11387 PHE 361 ENGINEERED MUTATION SEQADV 1RR8 GLN C 634 UNP P11387 ARG 634 ENGINEERED MUTATION SEQADV 1RR8 PTR C 723 UNP P11387 TYR 723 MODIFIED RESIDUE SEQRES 1 A 22 DA DA DA DA DA DG DA DC DT DT DG DG DA SEQRES 2 A 22 DA DA DA DA DT DT DT DT DT SEQRES 1 B 22 DA DA DA DA DA DT DT DT DT DT DC DC DA SEQRES 2 B 22 DA DG DT DC DT DT DT DT DT SEQRES 1 C 565 ALA ALA TRP LYS TRP TRP GLU GLU GLU ARG TYR PRO GLU SEQRES 2 C 565 GLY ILE LYS TRP LYS PHE LEU GLU HIS LYS GLY PRO VAL SEQRES 3 C 565 PHE ALA PRO PRO TYR GLU PRO LEU PRO GLU ASN VAL LYS SEQRES 4 C 565 PHE TYR TYR ASP GLY LYS VAL MET LYS LEU SER PRO LYS SEQRES 5 C 565 ALA GLU GLU VAL ALA THR PHE PHE ALA LYS MET LEU ASP SEQRES 6 C 565 HIS GLU TYR THR THR LYS GLU ILE PHE ARG LYS ASN PHE SEQRES 7 C 565 PHE LYS ASP TRP ARG LYS GLU MET THR ASN GLU GLU LYS SEQRES 8 C 565 ASN ILE ILE THR ASN LEU SER LYS CYS ASP PHE THR GLN SEQRES 9 C 565 MET SER GLN TYR PHE LYS ALA GLN THR GLU ALA ARG LYS SEQRES 10 C 565 GLN MET SER LYS GLU GLU LYS LEU LYS ILE LYS GLU GLU SEQRES 11 C 565 ASN GLU LYS LEU LEU LYS GLU TYR GLY PHE CYS ILE MET SEQRES 12 C 565 ASP ASN HIS LYS GLU ARG ILE ALA ASN PHE LYS ILE GLU SEQRES 13 C 565 PRO PRO GLY LEU SER ARG GLY ARG GLY ASN HIS PRO LYS SEQRES 14 C 565 MET GLY MET LEU LYS ARG ARG ILE MET PRO GLU ASP ILE SEQRES 15 C 565 ILE ILE ASN CYS SER LYS ASP ALA LYS VAL PRO SER PRO SEQRES 16 C 565 PRO PRO GLY HIS LYS TRP LYS GLU VAL ARG HIS ASP ASN SEQRES 17 C 565 LYS VAL THR TRP LEU VAL SER TRP THR GLU ASN ILE GLN SEQRES 18 C 565 GLY SER ILE LYS TYR ILE MET LEU ASN PRO SER SER ARG SEQRES 19 C 565 ILE LYS GLY GLU LYS ASP TRP GLN LYS TYR GLU THR ALA SEQRES 20 C 565 ARG ARG LEU LYS LYS CYS VAL ASP LYS ILE ARG ASN GLN SEQRES 21 C 565 TYR ARG GLU ASP TRP LYS SER LYS GLU MET LYS VAL ARG SEQRES 22 C 565 GLN ARG ALA VAL ALA LEU TYR PHE ILE ASP LYS LEU ALA SEQRES 23 C 565 LEU ARG ALA GLY ASN GLU LYS GLU GLU GLY GLU THR ALA SEQRES 24 C 565 ASP THR VAL GLY CYS CYS SER LEU ARG VAL GLU HIS ILE SEQRES 25 C 565 ASN LEU HIS PRO GLU LEU ASP GLY GLN GLU TYR VAL VAL SEQRES 26 C 565 GLU PHE ASP PHE LEU GLY LYS ASP SER ILE ARG TYR TYR SEQRES 27 C 565 ASN LYS VAL PRO VAL GLU LYS ARG VAL PHE LYS ASN LEU SEQRES 28 C 565 GLN LEU PHE MET GLU ASN LYS GLN PRO GLU ASP ASP LEU SEQRES 29 C 565 PHE ASP ARG LEU ASN THR GLY ILE LEU ASN LYS HIS LEU SEQRES 30 C 565 GLN ASP LEU MET GLU GLY LEU THR ALA LYS VAL PHE ARG SEQRES 31 C 565 THR TYR ASN ALA SER ILE THR LEU GLN GLN GLN LEU LYS SEQRES 32 C 565 GLU LEU THR ALA PRO ASP GLU ASN ILE PRO ALA LYS ILE SEQRES 33 C 565 LEU SER TYR ASN ARG ALA ASN ARG ALA VAL ALA ILE LEU SEQRES 34 C 565 CYS ASN HIS GLN GLN ALA PRO PRO LYS THR PHE GLU LYS SEQRES 35 C 565 SER MET MET ASN LEU GLN THR LYS ILE ASP ALA LYS LYS SEQRES 36 C 565 GLU GLN LEU ALA ASP ALA ARG ARG ASP LEU LYS SER ALA SEQRES 37 C 565 LYS ALA ASP ALA LYS VAL MET LYS ASP ALA LYS THR LYS SEQRES 38 C 565 LYS VAL VAL GLU SER LYS LYS LYS ALA VAL GLN ARG LEU SEQRES 39 C 565 GLU GLU GLN LEU MET LYS LEU GLU VAL GLN ALA THR ASP SEQRES 40 C 565 ARG GLU GLU ASN LYS GLN ILE ALA LEU GLY THR SER LYS SEQRES 41 C 565 LEU ASN PTR LEU ASP PRO ARG ILE THR VAL ALA TRP CYS SEQRES 42 C 565 LYS LYS TRP GLY VAL PRO ILE GLU LYS ILE TYR ASN LYS SEQRES 43 C 565 THR GLN ARG GLU LYS PHE ALA TRP ALA ILE ASP MET ALA SEQRES 44 C 565 ASP GLU ASP TYR GLU PHE MODRES 1RR8 PTR C 723 TYR O-PHOSPHOTYROSINE HET PTR C 723 16 HET TTG A1991 32 HET TTC A 100 31 HETNAM PTR O-PHOSPHOTYROSINE HETNAM TTG 2-(1-DIMETHYLAMINOMETHYL-2-HYDROXY-8-HYDROXYMETHYL-9- HETNAM 2 TTG OXO-9,11-DIHYDRO-INDOLIZINO[1,2-B]QUINOLIN-7-YL)-2- HETNAM 3 TTG HYDROXY-BUTYRIC ACID HETNAM TTC (S)-10-[(DIMETHYLAMINO)METHYL]-4-ETHYL-4,9-DIHYDROXY- HETNAM 2 TTC 1H-PYRANO[3',4':6,7]INOLIZINO[1,2-B]-QUINOLINE-3, HETNAM 3 TTC 14(4H,12H)-DIONE HETSYN PTR PHOSPHONOTYROSINE HETSYN TTG HYDROLYZED PRODUCT OF TOPOTECAN HETSYN TTC TOPOTECAN, HYCAMTIN FORMUL 3 PTR C9 H12 N O6 P FORMUL 4 TTG C23 H25 N3 O6 FORMUL 5 TTC C23 H23 N3 O5 FORMUL 6 HOH *304(H2 O) HELIX 1 1 SER C 250 LEU C 264 1 15 HELIX 2 2 HIS C 266 THR C 270 5 5 HELIX 3 3 LYS C 271 GLU C 285 1 15 HELIX 4 4 THR C 287 ASN C 292 1 6 HELIX 5 5 PHE C 302 LYS C 317 1 16 HELIX 6 6 SER C 320 TYR C 338 1 19 HELIX 7 7 MET C 378 ASP C 381 5 4 HELIX 8 8 SER C 433 LYS C 452 1 20 HELIX 9 9 CYS C 453 ASP C 464 1 12 HELIX 10 10 GLU C 469 LEU C 485 1 17 HELIX 11 11 ARG C 508 GLU C 510 5 3 HELIX 12 12 LYS C 532 SER C 534 5 3 HELIX 13 13 GLU C 544 GLU C 556 1 13 HELIX 14 14 ASN C 569 MET C 581 1 13 HELIX 15 15 LYS C 587 THR C 606 1 20 HELIX 16 16 ASN C 611 CYS C 630 1 20 HELIX 17 17 LEU C 716 PTR C 723 1 8 HELIX 18 18 ASP C 725 GLY C 737 1 13 HELIX 19 19 PRO C 739 ILE C 743 5 5 HELIX 20 20 ASN C 745 PHE C 752 1 8 HELIX 21 21 PHE C 752 MET C 758 1 7 SHEET 1 A 3 LEU C 220 GLU C 221 0 SHEET 2 A 3 PHE C 340 MET C 343 -1 O ILE C 342 N GLU C 221 SHEET 3 A 3 HIS C 346 ARG C 349 -1 O GLU C 348 N CYS C 341 SHEET 1 B 3 LYS C 245 VAL C 246 0 SHEET 2 B 3 TYR C 241 TYR C 242 -1 N TYR C 242 O LYS C 245 SHEET 3 B 3 CYS C 300 ASP C 301 -1 O ASP C 301 N TYR C 241 SHEET 1 C 2 GLY C 359 LEU C 360 0 SHEET 2 C 2 LEU C 373 LYS C 374 -1 O LYS C 374 N GLY C 359 SHEET 1 D 4 GLU C 403 ARG C 405 0 SHEET 2 D 4 ILE C 383 ASN C 385 1 N ILE C 384 O ARG C 405 SHEET 3 D 4 VAL C 414 THR C 417 -1 O SER C 415 N ILE C 383 SHEET 4 D 4 ILE C 424 ILE C 427 -1 O LYS C 425 N TRP C 416 SHEET 1 E 3 ILE C 512 LEU C 518 0 SHEET 2 E 3 GLN C 521 LEU C 530 -1 O VAL C 524 N HIS C 515 SHEET 3 E 3 ARG C 536 PRO C 542 -1 O TYR C 537 N PHE C 529 LINK C21 TTC A 100 C25 TTG A1991 1555 1555 1.86 LINK O26 TTC A 100 C2 TTG A1991 1555 1555 1.42 LINK C30 TTC A 100 N28 TTG A1991 1555 1555 1.61 LINK C29 TTC A 100 N28 TTG A1991 1555 1555 1.39 LINK C31 TTC A 100 C25 TTG A1991 1555 1555 1.49 LINK C25 TTC A 100 C31 TTG A1991 1555 1555 1.67 LINK O24 TTC A 100 C21 TTG A1991 1555 1555 1.65 LINK C16 TTC A 100 C21 TTG A1991 1555 1555 1.51 LINK C25 TTC A 100 C21 TTG A1991 1555 1555 1.32 LINK C20 TTC A 100 C21 TTG A1991 1555 1555 1.76 LINK C21 TTC A 100 O24 TTG A1991 1555 1555 1.26 LINK C21 TTC A 100 C16 TTG A1991 1555 1555 1.71 LINK C15 TTC A 100 C16 TTG A1991 1555 1555 1.24 LINK C17 TTC A 100 C16 TTG A1991 1555 1555 1.48 LINK C21 TTC A 100 C20 TTG A1991 1555 1555 1.47 LINK O23 TTC A 100 C20 TTG A1991 1555 1555 1.23 LINK O22 TTC A 100 C20 TTG A1991 1555 1555 1.53 LINK C16 TTC A 100 C15 TTG A1991 1555 1555 1.61 LINK C14 TTC A 100 C15 TTG A1991 1555 1555 1.41 LINK C19 TTC A 100 C15 TTG A1991 1555 1555 1.58 LINK C16 TTC A 100 C17 TTG A1991 1555 1555 1.43 LINK C13 TTC A 100 C17 TTG A1991 1555 1555 1.31 LINK O22 TTC A 100 O23 TTG A1991 1555 1555 1.84 LINK C20 TTC A 100 O22 TTG A1991 1555 1555 1.41 LINK O23 TTC A 100 O22 TTG A1991 1555 1555 1.63 LINK O22 TTC A 100 O22 TTG A1991 1555 1555 1.76 LINK C15 TTC A 100 C14 TTG A1991 1555 1555 1.80 LINK N12 TTC A 100 C14 TTG A1991 1555 1555 1.36 LINK O18 TTC A 100 C14 TTG A1991 1555 1555 1.16 LINK C15 TTC A 100 C19 TTG A1991 1555 1555 1.66 LINK C17 TTC A 100 C13 TTG A1991 1555 1555 1.55 LINK N12 TTC A 100 C13 TTG A1991 1555 1555 1.26 LINK C9 TTC A 100 C13 TTG A1991 1555 1555 1.40 LINK C14 TTC A 100 O18 TTG A1991 1555 1555 1.46 LINK C14 TTC A 100 N12 TTG A1991 1555 1555 1.47 LINK C13 TTC A 100 N12 TTG A1991 1555 1555 1.48 LINK C11 TTC A 100 N12 TTG A1991 1555 1555 1.37 LINK C13 TTC A 100 C9 TTG A1991 1555 1555 1.43 LINK C8 TTC A 100 C9 TTG A1991 1555 1555 1.41 LINK N10 TTC A 100 C9 TTG A1991 1555 1555 1.40 LINK N12 TTC A 100 C11 TTG A1991 1555 1555 1.69 LINK C8 TTC A 100 C11 TTG A1991 1555 1555 1.50 LINK C7 TTC A 100 C8 TTG A1991 1555 1555 1.31 LINK C9 TTC A 100 C8 TTG A1991 1555 1555 1.56 LINK C11 TTC A 100 C8 TTG A1991 1555 1555 1.56 LINK C5 TTC A 100 N10 TTG A1991 1555 1555 1.44 LINK C9 TTC A 100 N10 TTG A1991 1555 1555 1.30 LINK C6 TTC A 100 C7 TTG A1991 1555 1555 1.45 LINK C8 TTC A 100 C7 TTG A1991 1555 1555 1.43 LINK C6 TTC A 100 C5 TTG A1991 1555 1555 1.44 LINK C4 TTC A 100 C5 TTG A1991 1555 1555 1.42 LINK N10 TTC A 100 C5 TTG A1991 1555 1555 1.39 LINK C7 TTC A 100 C6 TTG A1991 1555 1555 1.47 LINK C5 TTC A 100 C6 TTG A1991 1555 1555 1.44 LINK C1 TTC A 100 C6 TTG A1991 1555 1555 1.45 LINK C5 TTC A 100 C4 TTG A1991 1555 1555 1.33 LINK C3 TTC A 100 C4 TTG A1991 1555 1555 1.48 LINK C6 TTC A 100 C1 TTG A1991 1555 1555 1.45 LINK C2 TTC A 100 C1 TTG A1991 1555 1555 1.41 LINK C27 TTC A 100 C1 TTG A1991 1555 1555 1.58 LINK C4 TTC A 100 C3 TTG A1991 1555 1555 1.35 LINK C2 TTC A 100 C3 TTG A1991 1555 1555 1.44 LINK C1 TTC A 100 C2 TTG A1991 1555 1555 1.44 LINK C3 TTC A 100 C2 TTG A1991 1555 1555 1.36 LINK C1 TTC A 100 C27 TTG A1991 1555 1555 1.52 LINK N28 TTC A 100 C27 TTG A1991 1555 1555 1.60 LINK C27 TTC A 100 N28 TTG A1991 1555 1555 1.36 LINK N28 TTC A 100 C29 TTG A1991 1555 1555 1.67 LINK N28 TTC A 100 C30 TTG A1991 1555 1555 1.47 LINK C2 TTC A 100 O26 TTG A1991 1555 1555 1.35 LINK C19 TTC A 100 O19 TTG A1991 1555 1555 1.47 LINK C ASN C 722 N PTR C 723 1555 1555 1.33 LINK C PTR C 723 N LEU C 724 1555 1555 1.34 LINK O PTR C 723 N LEU C 724 1555 1555 1.80 SITE 1 AC1 13 DT A 10 DG A 11 DG A 12 TTC A 100 SITE 2 AC1 13 HOH A 886 DC B 112 DA B 113 GLU C 356 SITE 3 AC1 13 ARG C 364 LYS C 532 ASP C 533 THR C 718 SITE 4 AC1 13 ASN C 722 SITE 1 AC2 14 DT A 10 DG A 11 DG A 12 HOH A 886 SITE 2 AC2 14 TTG A1991 DC B 112 DA B 113 HOH B 878 SITE 3 AC2 14 GLU C 356 ARG C 364 LYS C 532 ASP C 533 SITE 4 AC2 14 THR C 718 PTR C 723 CRYST1 57.590 115.585 75.010 90.00 96.29 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 0.017364 0.000000 0.001914 0.00000 SCALE2 0.000000 0.008652 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013412 0.00000