PDB Short entry for 1CYY HEADER ISOMERASE 31-AUG-99 1CYY TITLE CRYSTAL STRUCTURE OF THE 30 KDA FRAGMENT OF E. COLI DNA TOPOISOMERASE TITLE 2 I. HEXAGONAL FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA TOPOISOMERASE I; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: 30 KDA FRAGMENT COMPRISING DOMAINS II AND III; COMPND 5 EC: 5.99.1.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DH5 ALPHA; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS DNA TOPOISOMERASE, DECATENATING ENZYME, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.FEINBERG,C.LIMA,A.MONDRAGON REVDAT 7 07-FEB-24 1CYY 1 REMARK LINK REVDAT 6 14-AUG-19 1CYY 1 REMARK REVDAT 5 24-JUL-19 1CYY 1 REMARK REVDAT 4 13-JUL-11 1CYY 1 VERSN REVDAT 3 24-FEB-09 1CYY 1 VERSN REVDAT 2 01-APR-03 1CYY 1 JRNL REVDAT 1 08-MAR-00 1CYY 0 JRNL AUTH H.FEINBERG,C.D.LIMA,A.MONDRAGON JRNL TITL CONFORMATIONAL CHANGES IN E. COLI DNA TOPOISOMERASE I. JRNL REF NAT.STRUCT.BIOL. V. 6 918 1999 JRNL REFN ISSN 1072-8368 JRNL PMID 10504724 JRNL DOI 10.1038/13283 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 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 : R. A. ENGH AND R. HUBER, ACTA CRYST. SECT. REMARK 3 A., 1991 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 330269769.300 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 88.3 REMARK 3 NUMBER OF REFLECTIONS : 43571 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) : 0.229 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2166 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 81.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3732 REMARK 3 BIN R VALUE (WORKING SET) : 0.2880 REMARK 3 BIN FREE R VALUE : 0.3820 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 178 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.029 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3939 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.93000 REMARK 3 B22 (A**2) : 0.93000 REMARK 3 B33 (A**2) : -1.86000 REMARK 3 B12 (A**2) : 4.37000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM SIGMAA (A) : 0.24 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) : 0.38 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.33 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.880 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.090 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.890 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.160 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.000 ; 3.000 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 : PROTEIN_REP.PA REMARK 3 PARAMETER FILE 2 : WATER_REP.PARA REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 MOST OF THE REFINEMENT DONE WITH REFMAC. SOLVENT CORRECTION WITH REMARK 3 XPLOR. FINAL REMARK 3 REFINEMENT WITH CNS 0.9 REMARK 4 REMARK 4 1CYY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-SEP-99. REMARK 100 THE DEPOSITION ID IS D_1000009628. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-98 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 5ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0020 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 : DENZO REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45125 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 29.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.26100 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: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM SULFATE, 100MM HEPES PH REMARK 280 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 77.95667 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 155.91333 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 116.93500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 194.89167 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 38.97833 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 77.95667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 155.91333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 194.89167 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 116.93500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 38.97833 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 2920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -94.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 170.77500 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 98.59699 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 155.91333 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 170.77500 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 98.59699 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 155.91333 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 PHE A 214 REMARK 465 VAL A 215 REMARK 465 PRO A 216 REMARK 465 GLU A 217 REMARK 465 ARG A 442 REMARK 465 LYS A 443 REMARK 465 GLY A 444 REMARK 465 ASP A 445 REMARK 465 GLU A 446 REMARK 465 PRO A 473 REMARK 465 PRO A 474 REMARK 465 ALA A 475 REMARK 465 ARG A 476 REMARK 465 PHE A 477 REMARK 465 LYS B 358 REMARK 465 GLU B 359 REMARK 465 ASN B 360 REMARK 465 SER B 361 REMARK 465 GLN B 362 REMARK 465 ARG B 442 REMARK 465 LYS B 443 REMARK 465 GLY B 444 REMARK 465 ASP B 445 REMARK 465 GLU B 446 REMARK 465 ALA B 475 REMARK 465 ARG B 476 REMARK 465 PHE B 477 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1145 O HOH A 1145 10665 2.06 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 ARG A 247 66.13 -160.79 REMARK 500 ALA A 356 128.92 71.78 REMARK 500 LYS A 358 135.42 117.04 REMARK 500 SER A 361 80.46 -164.23 REMARK 500 GLN A 362 -108.64 58.33 REMARK 500 GLU A 363 9.88 -64.54 REMARK 500 ASP B 243 -10.09 76.28 REMARK 500 ALA B 364 -71.49 -23.86 REMARK 500 HIS B 365 -4.19 96.83 REMARK 500 LEU B 380 -106.03 -66.75 REMARK 500 LYS B 381 -116.54 178.53 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 ZN A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 365 NE2 REMARK 620 2 HIS A 469 ND1 130.8 REMARK 620 3 GLU B 463 OE1 106.6 110.9 REMARK 620 4 GLU B 463 OE2 80.8 95.8 54.7 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CY0 RELATED DB: PDB REMARK 900 COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH 3'-5'-ADENOSINE REMARK 900 DIPHOSPHATE REMARK 900 RELATED ID: 1CY1 RELATED DB: PDB REMARK 900 COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH 5'PTPTPT REMARK 900 RELATED ID: 1CY2 RELATED DB: PDB REMARK 900 COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH TPTPTP3' REMARK 900 RELATED ID: 1CY4 RELATED DB: PDB REMARK 900 COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH 5'PTPTPTP3' REMARK 900 RELATED ID: 1CY7 RELATED DB: PDB REMARK 900 COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH 5'-THYMIDINE REMARK 900 MONOPHOSPHATE REMARK 900 RELATED ID: 1CY6 RELATED DB: PDB REMARK 900 COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH 3'-THYMIDINE REMARK 900 MONOPHOSPHATE REMARK 900 RELATED ID: 1CY8 RELATED DB: PDB REMARK 900 COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH 5'-THYMIDINE REMARK 900 MONOPHOSPHATE AND 3'- THYMIDINE MONOPHOSPHATE REMARK 900 RELATED ID: 1CY9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE 30 KDA FRAGMENT OF E. COLI DNA REMARK 900 TOPOISOMERASE I. MONOCLINIC FORM DBREF 1CYY A 214 477 UNP P06612 TOP1_ECOLI 214 477 DBREF 1CYY B 214 477 UNP P06612 TOP1_ECOLI 214 477 SEQRES 1 A 264 PHE VAL PRO GLU GLU PHE TRP GLU VAL ASP ALA SER THR SEQRES 2 A 264 THR THR PRO SER GLY GLU ALA LEU ALA LEU GLN VAL THR SEQRES 3 A 264 HIS GLN ASN ASP LYS PRO PHE ARG PRO VAL ASN LYS GLU SEQRES 4 A 264 GLN THR GLN ALA ALA VAL SER LEU LEU GLU LYS ALA ARG SEQRES 5 A 264 TYR SER VAL LEU GLU ARG GLU ASP LYS PRO THR THR SER SEQRES 6 A 264 LYS PRO GLY ALA PRO PHE ILE THR SER THR LEU GLN GLN SEQRES 7 A 264 ALA ALA SER THR ARG LEU GLY PHE GLY VAL LYS LYS THR SEQRES 8 A 264 MET MET MET ALA GLN ARG LEU TYR GLU ALA GLY TYR ILE SEQRES 9 A 264 THR TYR MET ARG THR ASP SER THR ASN LEU SER GLN ASP SEQRES 10 A 264 ALA VAL ASN MET VAL ARG GLY TYR ILE SER ASP ASN PHE SEQRES 11 A 264 GLY LYS LYS TYR LEU PRO GLU SER PRO ASN GLN TYR ALA SEQRES 12 A 264 SER LYS GLU ASN SER GLN GLU ALA HIS GLU ALA ILE ARG SEQRES 13 A 264 PRO SER ASP VAL ASN VAL MET ALA GLU SER LEU LYS ASP SEQRES 14 A 264 MET GLU ALA ASP ALA GLN LYS LEU TYR GLN LEU ILE TRP SEQRES 15 A 264 ARG GLN PHE VAL ALA CYS GLN MET THR PRO ALA LYS TYR SEQRES 16 A 264 ASP SER THR THR LEU THR VAL GLY ALA GLY ASP PHE ARG SEQRES 17 A 264 LEU LYS ALA ARG GLY ARG ILE LEU ARG PHE ASP GLY TRP SEQRES 18 A 264 THR LYS VAL MET PRO ALA LEU ARG LYS GLY ASP GLU ASP SEQRES 19 A 264 ARG ILE LEU PRO ALA VAL ASN LYS GLY ASP ALA LEU THR SEQRES 20 A 264 LEU VAL GLU LEU THR PRO ALA GLN HIS PHE THR LYS PRO SEQRES 21 A 264 PRO ALA ARG PHE SEQRES 1 B 264 PHE VAL PRO GLU GLU PHE TRP GLU VAL ASP ALA SER THR SEQRES 2 B 264 THR THR PRO SER GLY GLU ALA LEU ALA LEU GLN VAL THR SEQRES 3 B 264 HIS GLN ASN ASP LYS PRO PHE ARG PRO VAL ASN LYS GLU SEQRES 4 B 264 GLN THR GLN ALA ALA VAL SER LEU LEU GLU LYS ALA ARG SEQRES 5 B 264 TYR SER VAL LEU GLU ARG GLU ASP LYS PRO THR THR SER SEQRES 6 B 264 LYS PRO GLY ALA PRO PHE ILE THR SER THR LEU GLN GLN SEQRES 7 B 264 ALA ALA SER THR ARG LEU GLY PHE GLY VAL LYS LYS THR SEQRES 8 B 264 MET MET MET ALA GLN ARG LEU TYR GLU ALA GLY TYR ILE SEQRES 9 B 264 THR TYR MET ARG THR ASP SER THR ASN LEU SER GLN ASP SEQRES 10 B 264 ALA VAL ASN MET VAL ARG GLY TYR ILE SER ASP ASN PHE SEQRES 11 B 264 GLY LYS LYS TYR LEU PRO GLU SER PRO ASN GLN TYR ALA SEQRES 12 B 264 SER LYS GLU ASN SER GLN GLU ALA HIS GLU ALA ILE ARG SEQRES 13 B 264 PRO SER ASP VAL ASN VAL MET ALA GLU SER LEU LYS ASP SEQRES 14 B 264 MET GLU ALA ASP ALA GLN LYS LEU TYR GLN LEU ILE TRP SEQRES 15 B 264 ARG GLN PHE VAL ALA CYS GLN MET THR PRO ALA LYS TYR SEQRES 16 B 264 ASP SER THR THR LEU THR VAL GLY ALA GLY ASP PHE ARG SEQRES 17 B 264 LEU LYS ALA ARG GLY ARG ILE LEU ARG PHE ASP GLY TRP SEQRES 18 B 264 THR LYS VAL MET PRO ALA LEU ARG LYS GLY ASP GLU ASP SEQRES 19 B 264 ARG ILE LEU PRO ALA VAL ASN LYS GLY ASP ALA LEU THR SEQRES 20 B 264 LEU VAL GLU LEU THR PRO ALA GLN HIS PHE THR LYS PRO SEQRES 21 B 264 PRO ALA ARG PHE HET ZN A1001 1 HETNAM ZN ZINC ION FORMUL 3 ZN ZN 2+ FORMUL 4 HOH *380(H2 O) HELIX 1 1 ASN A 250 ALA A 264 1 15 HELIX 2 2 ILE A 285 GLY A 298 1 14 HELIX 3 3 GLY A 300 ALA A 314 1 15 HELIX 4 4 SER A 328 PHE A 343 1 16 HELIX 5 5 GLY A 344 LEU A 348 5 5 HELIX 6 6 MET A 376 LEU A 380 5 5 HELIX 7 7 GLU A 384 GLN A 402 1 19 HELIX 8 8 ASP A 432 VAL A 437 5 6 HELIX 9 9 ASN B 250 LYS B 263 1 14 HELIX 10 10 ILE B 285 GLY B 298 1 14 HELIX 11 11 GLY B 300 ALA B 314 1 15 HELIX 12 12 SER B 328 PHE B 343 1 16 HELIX 13 13 GLY B 344 LEU B 348 5 5 HELIX 14 14 MET B 376 LEU B 380 5 5 HELIX 15 15 GLU B 384 CYS B 401 1 18 HELIX 16 16 ASP B 432 VAL B 437 5 6 SHEET 1 A 8 LYS A 244 PRO A 245 0 SHEET 2 A 8 ALA A 233 GLN A 241 -1 N GLN A 241 O LYS A 244 SHEET 3 A 8 GLU A 218 THR A 227 -1 O VAL A 222 N VAL A 238 SHEET 4 A 8 ALA A 458 PHE A 470 -1 N THR A 460 O THR A 227 SHEET 5 A 8 TYR A 266 SER A 278 -1 O TYR A 266 N LEU A 459 SHEET 6 A 8 ALA A 406 ALA A 417 -1 N ALA A 406 O SER A 278 SHEET 7 A 8 PHE A 420 PHE A 431 -1 O PHE A 420 N ALA A 417 SHEET 8 A 8 ALA A 233 GLN A 241 -1 N GLN A 237 O LYS A 423 SHEET 1 B 8 LYS B 244 PRO B 245 0 SHEET 2 B 8 ALA B 233 GLN B 241 -1 N GLN B 241 O LYS B 244 SHEET 3 B 8 GLU B 218 THR B 227 -1 O VAL B 222 N VAL B 238 SHEET 4 B 8 ALA B 458 PHE B 470 -1 N THR B 460 O THR B 227 SHEET 5 B 8 TYR B 266 SER B 278 -1 O TYR B 266 N LEU B 459 SHEET 6 B 8 ALA B 406 ALA B 417 -1 N ALA B 406 O SER B 278 SHEET 7 B 8 PHE B 420 PHE B 431 -1 N PHE B 420 O ALA B 417 SHEET 8 B 8 ALA B 233 GLN B 241 -1 O GLN B 237 N LYS B 423 LINK NE2 HIS A 365 ZN ZN A1001 1555 1555 2.09 LINK ND1 HIS A 469 ZN ZN A1001 9765 1555 2.20 LINK ZN ZN A1001 OE1 GLU B 463 1555 9765 2.04 LINK ZN ZN A1001 OE2 GLU B 463 1555 9765 2.61 SITE 1 AC1 3 HIS A 365 HIS A 469 GLU B 463 CRYST1 113.850 113.850 233.870 90.00 90.00 120.00 P 61 2 2 24 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 0.008783 0.005071 0.000000 0.00000 SCALE2 0.000000 0.010142 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004276 0.00000