PDB Short entry for 1MW8 HEADER ISOMERASE 27-SEP-02 1MW8 TITLE CRYSTAL STRUCTURE OF A COMPLEX BETWEEN H365R MUTANT OF 67 KDA N- TITLE 2 TERMINAL FRAGMENT OF E. COLI DNA TOPOISOMERASE I AND 5'-ACTTCGGGATG- TITLE 3 3' COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*AP*CP*TP*TP*CP*GP*GP*GP*AP*TP*G)-3'; COMPND 3 CHAIN: Y; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA TOPOISOMERASE I; COMPND 7 CHAIN: X; COMPND 8 FRAGMENT: 67 KDA N-TERMINAL FRAGMENT; COMPND 9 SYNONYM: OMEGA-PROTEIN, RELAXING ENZYME, UNTWISTING ENZYME, COMPND 10 SWIVELASE; COMPND 11 EC: 5.99.1.2; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 5 ORGANISM_TAXID: 562; SOURCE 6 GENE: TOPA; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: DH5ALPHA; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PGEX-4T KEYWDS DNA TOPOISOMERASE, DECATENASE ENZYME, TOPRIM DOMAIN, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.PERRY,A.MONDRAGON REVDAT 6 27-OCT-21 1MW8 1 REMARK SEQADV REVDAT 5 24-JUL-19 1MW8 1 REMARK REVDAT 4 11-OCT-17 1MW8 1 REMARK REVDAT 3 24-FEB-09 1MW8 1 VERSN REVDAT 2 18-NOV-03 1MW8 1 JRNL REVDAT 1 14-OCT-03 1MW8 0 JRNL AUTH K.PERRY,A.MONDRAGON JRNL TITL STRUCTURE OF A COMPLEX BETWEEN E. COLI DNA TOPOISOMERASE I JRNL TITL 2 AND SINGLE-STRANDED DNA. JRNL REF STRUCTURE V. 11 1349 2003 JRNL REFN ISSN 0969-2126 JRNL PMID 14604525 JRNL DOI 10.1016/J.STR.2003.09.013 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.D.LIMA,J.C.WANG,A.MONDRAGON REMARK 1 TITL THREE-DIMENSIONAL STRUCTURE OF THE 67K N-TERMINAL FRAGMENT REMARK 1 TITL 2 OF E. COLI DNA TOPOISOMERASE I REMARK 1 REF NATURE V. 367 138 1994 REMARK 1 REFN ISSN 0028-0836 REMARK 1 DOI 10.1038/367138A0 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 70.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 52986 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) : 0.226 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2846 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3253 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2800 REMARK 3 BIN FREE R VALUE SET COUNT : 176 REMARK 3 BIN FREE R VALUE : 0.3170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4470 REMARK 3 NUCLEIC ACID ATOMS : 126 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 553 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.53000 REMARK 3 B22 (A**2) : 1.16000 REMARK 3 B33 (A**2) : -0.63000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.907 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4895 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 4346 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6676 ; 1.321 ; 1.992 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10127 ; 0.726 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 594 ; 3.751 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 879 ;17.637 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 714 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5351 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 970 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1384 ; 0.279 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4558 ; 0.240 ; 0.300 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): 533 ; 0.242 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): 15 ; 0.305 ; 0.500 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): 22 ; 0.275 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 40 ; 0.235 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 28 ; 0.275 ; 0.500 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): 2897 ; 0.751 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4701 ; 1.411 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1998 ; 1.956 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1975 ; 3.329 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1MW8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-OCT-02. REMARK 100 THE DEPOSITION ID IS D_1000017242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-01; 16-FEB-02 REMARK 200 TEMPERATURE (KELVIN) : 103; 103 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : APS; APS REMARK 200 BEAMLINE : 5ID-B; 5ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.95; 0.95 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH; MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53723 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : 0.06100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.7000 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; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: H365R MUTANT, APO FORM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, SODIUM ACETATE, PH REMARK 280 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 287K 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 31.69600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.89900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.57400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.89900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.69600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.57400 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: Y, X 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 DA Y 701 REMARK 465 DA Y 709 REMARK 465 DT Y 710 REMARK 465 DG Y 711 REMARK 465 MET X 1 REMARK 465 SER X 42 REMARK 465 ALA X 43 REMARK 465 ALA X 44 REMARK 465 LYS X 45 REMARK 465 LYS X 46 REMARK 465 SER X 47 REMARK 465 ALA X 48 REMARK 465 ASP X 49 REMARK 465 SER X 50 REMARK 465 THR X 51 REMARK 465 SER X 52 REMARK 465 THR X 53 REMARK 465 LYS X 54 REMARK 465 THR X 55 REMARK 465 ALA X 56 REMARK 465 LYS X 57 REMARK 465 LYS X 58 REMARK 465 PRO X 59 REMARK 465 LYS X 60 REMARK 465 LYS X 61 REMARK 465 LYS X 358 REMARK 465 GLU X 359 REMARK 465 ASN X 360 REMARK 465 SER X 361 REMARK 465 GLN X 362 REMARK 465 LEU X 441 REMARK 465 ARG X 442 REMARK 465 LYS X 443 REMARK 465 GLY X 444 REMARK 465 ASP X 445 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 DG Y 708 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DG Y 708 N9 C8 N7 C5 C6 O6 N1 REMARK 470 DG Y 708 C2 N2 N3 C4 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ILE X 504 N GLY X 508 0.89 REMARK 500 N SER X 502 O HOH X 1470 2.03 REMARK 500 OE1 GLU X 115 NE2 GLN X 165 2.08 REMARK 500 O ILE X 504 CA GLY X 508 2.08 REMARK 500 NZ LYS X 521 O HOH X 1232 2.09 REMARK 500 CD LYS X 521 O HOH X 1313 2.10 REMARK 500 C ILE X 504 N GLY X 508 2.11 REMARK 500 OD2 ASP X 323 O HOH X 1279 2.16 REMARK 500 O VAL X 512 O HOH X 1529 2.16 REMARK 500 N ARG X 493 OH TYR X 497 2.16 REMARK 500 O HOH X 1284 O HOH X 1478 2.17 REMARK 500 O THR X 496 O HOH X 1469 2.18 REMARK 500 OD2 ASP X 581 O HOH X 1239 2.18 REMARK 500 O HOH X 1369 O HOH X 1402 2.18 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 DC Y 705 C3' - C2' - C1' ANGL. DEV. = -6.8 DEGREES REMARK 500 DC Y 705 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DG Y 706 C4' - C3' - C2' ANGL. DEV. = -4.5 DEGREES REMARK 500 DG Y 706 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG Y 707 C3' - O3' - P ANGL. DEV. = 8.4 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 SER X 40 -3.73 85.88 REMARK 500 HIS X 77 52.52 -117.34 REMARK 500 LYS X 102 28.28 -72.35 REMARK 500 ALA X 109 46.61 -107.08 REMARK 500 ILE X 187 -63.33 -121.57 REMARK 500 ALA X 188 147.99 -170.61 REMARK 500 ARG X 247 79.09 -156.84 REMARK 500 ALA X 356 -170.08 -56.28 REMARK 500 PRO X 494 -57.27 -23.49 REMARK 500 SER X 495 -123.42 -177.00 REMARK 500 TYR X 497 -8.21 -59.06 REMARK 500 ALA X 498 -35.86 52.14 REMARK 500 ILE X 501 63.88 -102.89 REMARK 500 SER X 502 -75.03 -141.59 REMARK 500 THR X 503 -15.04 -40.32 REMARK 500 ILE X 504 -49.86 -14.32 REMARK 500 ARG X 507 -16.41 -31.97 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 SO4 X 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 X 2004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 X 2005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 X 2007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 X 2008 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TMP X 600 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AUTHOR'S SEQUENCE HAS ASN AT POSITION REMARK 999 549, WHICH HAS BEEN CONFIRMED BY SEQUENCING REMARK 999 THE GENE. DBREF 1MW8 X 1 592 UNP P06612 TOP1_ECOLI 1 592 DBREF 1MW8 Y 701 711 PDB 1MW8 1MW8 701 711 SEQADV 1MW8 ARG X 365 UNP P06612 HIS 365 ENGINEERED MUTATION SEQADV 1MW8 ASN X 549 UNP P06612 SER 549 SEE REMARK 999 SEQRES 1 Y 11 DA DC DT DT DC DG DG DG DA DT DG SEQRES 1 X 592 MET GLY LYS ALA LEU VAL ILE VAL GLU SER PRO ALA LYS SEQRES 2 X 592 ALA LYS THR ILE ASN LYS TYR LEU GLY SER ASP TYR VAL SEQRES 3 X 592 VAL LYS SER SER VAL GLY HIS ILE ARG ASP LEU PRO THR SEQRES 4 X 592 SER GLY SER ALA ALA LYS LYS SER ALA ASP SER THR SER SEQRES 5 X 592 THR LYS THR ALA LYS LYS PRO LYS LYS ASP GLU ARG GLY SEQRES 6 X 592 ALA LEU VAL ASN ARG MET GLY VAL ASP PRO TRP HIS ASN SEQRES 7 X 592 TRP GLU ALA HIS TYR GLU VAL LEU PRO GLY LYS GLU LYS SEQRES 8 X 592 VAL VAL SER GLU LEU LYS GLN LEU ALA GLU LYS ALA ASP SEQRES 9 X 592 HIS ILE TYR LEU ALA THR ASP LEU ASP ARG GLU GLY GLU SEQRES 10 X 592 ALA ILE ALA TRP HIS LEU ARG GLU VAL ILE GLY GLY ASP SEQRES 11 X 592 ASP ALA ARG TYR SER ARG VAL VAL PHE ASN GLU ILE THR SEQRES 12 X 592 LYS ASN ALA ILE ARG GLN ALA PHE ASN LYS PRO GLY GLU SEQRES 13 X 592 LEU ASN ILE ASP ARG VAL ASN ALA GLN GLN ALA ARG ARG SEQRES 14 X 592 PHE MET ASP ARG VAL VAL GLY TYR MET VAL SER PRO LEU SEQRES 15 X 592 LEU TRP LYS LYS ILE ALA ARG GLY LEU SER ALA GLY ARG SEQRES 16 X 592 VAL GLN SER VAL ALA VAL ARG LEU VAL VAL GLU ARG GLU SEQRES 17 X 592 ARG GLU ILE LYS ALA PHE VAL PRO GLU GLU PHE TRP GLU SEQRES 18 X 592 VAL ASP ALA SER THR THR THR PRO SER GLY GLU ALA LEU SEQRES 19 X 592 ALA LEU GLN VAL THR HIS GLN ASN ASP LYS PRO PHE ARG SEQRES 20 X 592 PRO VAL ASN LYS GLU GLN THR GLN ALA ALA VAL SER LEU SEQRES 21 X 592 LEU GLU LYS ALA ARG TYR SER VAL LEU GLU ARG GLU ASP SEQRES 22 X 592 LYS PRO THR THR SER LYS PRO GLY ALA PRO PHE ILE THR SEQRES 23 X 592 SER THR LEU GLN GLN ALA ALA SER THR ARG LEU GLY PHE SEQRES 24 X 592 GLY VAL LYS LYS THR MET MET MET ALA GLN ARG LEU TYR SEQRES 25 X 592 GLU ALA GLY TYR ILE THR TYR MET ARG THR ASP SER THR SEQRES 26 X 592 ASN LEU SER GLN ASP ALA VAL ASN MET VAL ARG GLY TYR SEQRES 27 X 592 ILE SER ASP ASN PHE GLY LYS LYS TYR LEU PRO GLU SER SEQRES 28 X 592 PRO ASN GLN TYR ALA SER LYS GLU ASN SER GLN GLU ALA SEQRES 29 X 592 ARG GLU ALA ILE ARG PRO SER ASP VAL ASN VAL MET ALA SEQRES 30 X 592 GLU SER LEU LYS ASP MET GLU ALA ASP ALA GLN LYS LEU SEQRES 31 X 592 TYR GLN LEU ILE TRP ARG GLN PHE VAL ALA CYS GLN MET SEQRES 32 X 592 THR PRO ALA LYS TYR ASP SER THR THR LEU THR VAL GLY SEQRES 33 X 592 ALA GLY ASP PHE ARG LEU LYS ALA ARG GLY ARG ILE LEU SEQRES 34 X 592 ARG PHE ASP GLY TRP THR LYS VAL MET PRO ALA LEU ARG SEQRES 35 X 592 LYS GLY ASP GLU ASP ARG ILE LEU PRO ALA VAL ASN LYS SEQRES 36 X 592 GLY ASP ALA LEU THR LEU VAL GLU LEU THR PRO ALA GLN SEQRES 37 X 592 HIS PHE THR LYS PRO PRO ALA ARG PHE SER GLU ALA SER SEQRES 38 X 592 LEU VAL LYS GLU LEU GLU LYS ARG GLY ILE GLY ARG PRO SEQRES 39 X 592 SER THR TYR ALA SER ILE ILE SER THR ILE GLN ASP ARG SEQRES 40 X 592 GLY TYR VAL ARG VAL GLU ASN ARG ARG PHE TYR ALA GLU SEQRES 41 X 592 LYS MET GLY GLU ILE VAL THR ASP ARG LEU GLU GLU ASN SEQRES 42 X 592 PHE ARG GLU LEU MET ASN TYR ASP PHE THR ALA GLN MET SEQRES 43 X 592 GLU ASN ASN LEU ASP GLN VAL ALA ASN HIS GLU ALA GLU SEQRES 44 X 592 TRP LYS ALA VAL LEU ASP HIS PHE PHE SER ASP PHE THR SEQRES 45 X 592 GLN GLN LEU ASP LYS ALA GLU LYS ASP PRO GLU GLU GLY SEQRES 46 X 592 GLY MET ARG PRO ASN GLN MET HET SO4 X2002 5 HET SO4 X2004 5 HET SO4 X2005 5 HET SO4 X2007 5 HET SO4 X2008 5 HET TMP X 600 21 HETNAM SO4 SULFATE ION HETNAM TMP THYMIDINE-5'-PHOSPHATE FORMUL 3 SO4 5(O4 S 2-) FORMUL 8 TMP C10 H15 N2 O8 P FORMUL 9 HOH *553(H2 O) HELIX 1 1 SER X 10 LYS X 19 1 10 HELIX 2 2 ASP X 62 GLY X 72 1 11 HELIX 3 3 LYS X 89 LYS X 102 1 14 HELIX 4 4 ASP X 113 GLY X 128 1 16 HELIX 5 5 ASP X 130 ALA X 132 5 3 HELIX 6 6 THR X 143 LYS X 153 1 11 HELIX 7 7 ASN X 158 ILE X 187 1 30 HELIX 8 8 GLY X 194 PHE X 214 1 21 HELIX 9 9 ASN X 250 ALA X 264 1 15 HELIX 10 10 ILE X 285 GLY X 298 1 14 HELIX 11 11 GLY X 300 ALA X 314 1 15 HELIX 12 12 SER X 328 PHE X 343 1 16 HELIX 13 13 GLY X 344 LEU X 348 5 5 HELIX 14 14 MET X 376 LEU X 380 5 5 HELIX 15 15 GLU X 384 GLN X 402 1 19 HELIX 16 16 ASP X 432 MET X 438 5 7 HELIX 17 17 SER X 478 ARG X 489 1 12 HELIX 18 18 SER X 502 ARG X 507 1 6 HELIX 19 19 GLU X 520 PHE X 534 1 15 HELIX 20 20 PHE X 534 ASN X 539 1 6 HELIX 21 21 ASN X 539 ASN X 555 1 17 HELIX 22 22 GLU X 559 GLU X 579 1 21 HELIX 23 23 ASP X 581 GLY X 585 5 5 SHEET 1 A 4 TYR X 25 SER X 29 0 SHEET 2 A 4 ALA X 4 VAL X 8 1 O ALA X 4 N VAL X 26 SHEET 3 A 4 ILE X 106 LEU X 108 1 N TYR X 107 O LEU X 5 SHEET 4 A 4 TYR X 134 ARG X 136 1 O SER X 135 N LEU X 108 SHEET 1 B 2 ARG X 35 ASP X 36 0 SHEET 2 B 2 GLU X 84 VAL X 85 -1 N GLU X 84 O ASP X 36 SHEET 1 C 8 LYS X 244 PRO X 245 0 SHEET 2 C 8 ALA X 233 GLN X 241 -1 N GLN X 241 O LYS X 244 SHEET 3 C 8 GLU X 218 THR X 227 -1 O VAL X 222 N VAL X 238 SHEET 4 C 8 ALA X 458 PHE X 470 -1 N THR X 460 O THR X 227 SHEET 5 C 8 TYR X 266 SER X 278 -1 O TYR X 266 N LEU X 459 SHEET 6 C 8 ALA X 406 ALA X 417 -1 N ALA X 406 O SER X 278 SHEET 7 C 8 PHE X 420 PHE X 431 -1 N PHE X 420 O ALA X 417 SHEET 8 C 8 ALA X 233 GLN X 241 -1 O GLN X 237 N LYS X 423 SHEET 1 D 2 VAL X 510 GLU X 513 0 SHEET 2 D 2 ARG X 516 ALA X 519 -1 O ARG X 516 N GLU X 513 SITE 1 AC1 4 LYS X 28 SER X 29 LYS X 251 HOH X1338 SITE 1 AC2 5 TRP X 560 LYS X 561 HOH X1041 HOH X1138 SITE 2 AC2 5 HOH X1231 SITE 1 AC3 3 ARG X 515 ARG X 516 HOH X1257 SITE 1 AC4 7 ARG X 202 ALA X 458 ARG X 535 ASN X 539 SITE 2 AC4 7 HOH X1043 HOH X1252 HOH X1429 SITE 1 AC5 3 HIS X 469 LYS X 472 HOH X1512 SITE 1 AC6 17 ASP X 113 ARG X 114 GLU X 115 ARG X 161 SITE 2 AC6 17 GLN X 165 ARG X 168 ARG X 365 SER X 495 SITE 3 AC6 17 ALA X 554 HOH X1092 HOH X1139 HOH X1271 SITE 4 AC6 17 HOH X1345 HOH X1373 HOH X1405 HOH X1433 SITE 5 AC6 17 HOH X1477 CRYST1 63.392 79.148 141.798 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 0.015775 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012635 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007052 0.00000