HEADER ISOMERASE/DNA 27-JUL-09 3IGC TITLE SMALLPOX VIRUS TOPOISOMERASE-DNA TRANSITION STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA TOPOISOMERASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DNA TOPOISOMERASE I; COMPND 5 EC: 5.99.1.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-D(*GP*TP*GP*TP*CP*GP*CP*CP*CP*TP*T)-3'; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: UPSTREAM DNA CLEAVED STRAND; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: 5'-D(*AP*TP*TP*CP*C)-3'; COMPND 15 CHAIN: C; COMPND 16 ENGINEERED: YES; COMPND 17 OTHER_DETAILS: DOWNSTREAM DNA CLEAVED STRAND; COMPND 18 MOL_ID: 4; COMPND 19 MOLECULE: 5'-D(*CP*GP*GP*AP*AP*TP*AP*AP*GP*GP*GP*CP*GP*AP*CP*A)-3'; COMPND 20 CHAIN: D; COMPND 21 ENGINEERED: YES; COMPND 22 OTHER_DETAILS: UNCLEAVED DNA STRAND SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VARIOLA VIRUS; SOURCE 3 ORGANISM_COMMON: SMALLPOX VIRUS; SOURCE 4 ORGANISM_TAXID: 10255; SOURCE 5 STRAIN: WESTERN RESERVE; SOURCE 6 GENE: H6R, I6R, TOP1; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28; SOURCE 12 MOL_ID: 2; SOURCE 13 SYNTHETIC: YES; SOURCE 14 OTHER_DETAILS: OLIGONUCLEOTIDE SYNTHESIZED BY YALE KECK FACILITY; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 OTHER_DETAILS: OLIGONUCLEOTIDE SYNTHESIZED BY YALE KECK FACILITY; SOURCE 18 MOL_ID: 4; SOURCE 19 SYNTHETIC: YES; SOURCE 20 OTHER_DETAILS: OLIGONUCLEOTIDE SYNTHESIZED BY YALE KECK FACILITY KEYWDS TOPOISOMERASE, PROTEIN-DNA COMPLEX, POXVIRUS, ISOMERASE, ATP-BINDING, KEYWDS 2 DNA-BINDING, LATE PROTEIN, NUCLEOTIDE-BINDING, ISOMERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.PERRY,Y.HWANG,F.D.BUSHMAN,G.D.VAN DUYNE REVDAT 3 06-SEP-23 3IGC 1 REMARK REVDAT 2 13-OCT-21 3IGC 1 REMARK SEQADV LINK REVDAT 1 02-MAR-10 3IGC 0 JRNL AUTH K.PERRY,Y.HWANG,F.D.BUSHMAN,G.D.VAN DUYNE JRNL TITL INSIGHTS FROM THE STRUCTURE OF A SMALLPOX VIRUS JRNL TITL 2 TOPOISOMERASE-DNA TRANSITION STATE MIMIC. JRNL REF STRUCTURE V. 18 127 2010 JRNL REFN ISSN 0969-2126 JRNL PMID 20152159 JRNL DOI 10.1016/J.STR.2009.10.020 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 27692 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) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1490 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2044 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.23 REMARK 3 BIN R VALUE (WORKING SET) : 0.2030 REMARK 3 BIN FREE R VALUE SET COUNT : 121 REMARK 3 BIN FREE R VALUE : 0.2790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2576 REMARK 3 NUCLEIC ACID ATOMS : 647 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 426 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.78 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.05000 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): 0.203 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.192 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.122 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.758 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3371 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4678 ; 1.740 ; 2.205 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 314 ; 5.754 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 120 ;33.809 ;23.667 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 506 ;17.874 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;20.232 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 525 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2277 ; 0.009 ; 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): 1569 ; 0.715 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2570 ; 1.261 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1802 ; 2.103 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2108 ; 2.917 ; 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 75 REMARK 3 ORIGIN FOR THE GROUP (A): 8.3383 -13.3679 11.4861 REMARK 3 T TENSOR REMARK 3 T11: 0.1558 T22: 0.0287 REMARK 3 T33: 0.1101 T12: -0.0125 REMARK 3 T13: 0.0075 T23: 0.0179 REMARK 3 L TENSOR REMARK 3 L11: 4.6842 L22: 1.4197 REMARK 3 L33: 3.8655 L12: 0.9130 REMARK 3 L13: 1.7746 L23: 0.0503 REMARK 3 S TENSOR REMARK 3 S11: -0.1875 S12: -0.0096 S13: 0.1715 REMARK 3 S21: 0.0179 S22: 0.1368 S23: 0.2210 REMARK 3 S31: 0.0191 S32: -0.2265 S33: 0.0507 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 75 A 219 REMARK 3 ORIGIN FOR THE GROUP (A): 36.9491 -16.4111 35.3506 REMARK 3 T TENSOR REMARK 3 T11: 0.1899 T22: 0.0682 REMARK 3 T33: 0.0467 T12: 0.0103 REMARK 3 T13: 0.0126 T23: 0.0348 REMARK 3 L TENSOR REMARK 3 L11: 4.1410 L22: 2.3162 REMARK 3 L33: 3.0408 L12: -1.6597 REMARK 3 L13: 1.1234 L23: -0.4870 REMARK 3 S TENSOR REMARK 3 S11: -0.2663 S12: -0.2381 S13: 0.0325 REMARK 3 S21: 0.2431 S22: 0.0355 S23: -0.1924 REMARK 3 S31: -0.0713 S32: 0.3152 S33: 0.2308 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 219 A 314 REMARK 3 ORIGIN FOR THE GROUP (A): 26.4073 4.0291 41.3075 REMARK 3 T TENSOR REMARK 3 T11: 0.5876 T22: 0.2789 REMARK 3 T33: 0.3814 T12: 0.2189 REMARK 3 T13: -0.2394 T23: -0.2484 REMARK 3 L TENSOR REMARK 3 L11: 2.7747 L22: 5.3890 REMARK 3 L33: 4.8227 L12: 0.3319 REMARK 3 L13: 0.4602 L23: 0.8385 REMARK 3 S TENSOR REMARK 3 S11: -0.5186 S12: -0.8072 S13: 0.9269 REMARK 3 S21: 0.7937 S22: 0.1059 S23: 0.0805 REMARK 3 S31: -1.0400 S32: -0.3331 S33: 0.4126 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 501 A 532 REMARK 3 ORIGIN FOR THE GROUP (A): 24.1357 -14.6395 21.5881 REMARK 3 T TENSOR REMARK 3 T11: 0.1147 T22: 0.0135 REMARK 3 T33: 0.0411 T12: 0.0126 REMARK 3 T13: 0.0027 T23: -0.0120 REMARK 3 L TENSOR REMARK 3 L11: 5.2003 L22: 4.4763 REMARK 3 L33: 4.1492 L12: 0.4169 REMARK 3 L13: 1.0161 L23: -0.4278 REMARK 3 S TENSOR REMARK 3 S11: 0.1252 S12: -0.0078 S13: -0.1870 REMARK 3 S21: -0.2550 S22: -0.2310 S23: 0.2843 REMARK 3 S31: 0.0713 S32: 0.1027 S33: 0.1057 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3IGC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000054375. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUL-07 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : KOHZU REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27692 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 200 DATA REDUNDANCY : 8.900 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 8.80 REMARK 200 R MERGE FOR SHELL (I) : 0.52300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.300 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 2H7G EXCLUDING DNA DOWNSTREAM OF REMARK 200 CLEAVAGE SITE AND AMINO ACID RESIDUES 240-314 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.4, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 294.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 51.99950 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 51.99950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 46.50500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 51.99950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 51.99950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 46.50500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 51.99950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 51.99950 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 46.50500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 51.99950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 51.99950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 46.50500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 GLY A 314 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 OP2 DC C 516 O HOH C 332 1.91 REMARK 500 OH TYR A 274 V VO4 A 600 2.00 REMARK 500 O HOH A 528 O HOH A 632 2.06 REMARK 500 REMARK 500 REMARK: NULL 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 326 O HOH A 582 8555 0.77 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 DC D 517 C2 DC D 517 O2 0.058 REMARK 500 DC D 517 N1 DC D 517 C6 0.070 REMARK 500 DC D 528 O3' DC D 528 C3' -0.054 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 ARG A 2 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 2 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 67 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 DG B 501 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 DT B 502 O4' - C4' - C3' ANGL. DEV. = 3.9 DEGREES REMARK 500 DT B 502 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT B 504 O4' - C1' - N1 ANGL. DEV. = -4.8 DEGREES REMARK 500 DC B 505 O4' - C1' - N1 ANGL. DEV. = -8.1 DEGREES REMARK 500 DC B 507 C1' - O4' - C4' ANGL. DEV. = -6.4 DEGREES REMARK 500 DC B 509 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT B 511 C3' - C2' - C1' ANGL. DEV. = -7.2 DEGREES REMARK 500 DC D 517 O4' - C1' - N1 ANGL. DEV. = 5.8 DEGREES REMARK 500 DG D 519 O5' - C5' - C4' ANGL. DEV. = -5.4 DEGREES REMARK 500 DG D 519 O4' - C1' - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 DG D 519 C3' - O3' - P ANGL. DEV. = 8.5 DEGREES REMARK 500 DA D 520 O4' - C1' - N9 ANGL. DEV. = -5.2 DEGREES REMARK 500 DT D 522 O4' - C1' - C2' ANGL. DEV. = -4.9 DEGREES REMARK 500 DT D 522 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DT D 522 C3' - O3' - P ANGL. DEV. = 8.1 DEGREES REMARK 500 DA D 523 O3' - P - O5' ANGL. DEV. = -12.6 DEGREES REMARK 500 DA D 523 O4' - C1' - N9 ANGL. DEV. = -4.6 DEGREES REMARK 500 DG D 527 O4' - C1' - N9 ANGL. DEV. = -4.4 DEGREES REMARK 500 DC D 531 O4' - C1' - N1 ANGL. DEV. = -6.7 DEGREES REMARK 500 DA D 532 O4' - C1' - N9 ANGL. DEV. = -5.0 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 A 243 -71.45 -52.62 REMARK 500 LEU A 289 -39.78 -36.73 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 VO4 A 600 V REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT B 511 O3' REMARK 620 2 VO4 A 600 O1 127.8 REMARK 620 3 VO4 A 600 O2 123.6 108.5 REMARK 620 4 DA C 512 O5' 89.7 94.0 86.3 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 VO4 A 600 DBREF 3IGC A 1 314 UNP P32989 TOP1_VARV 1 314 DBREF 3IGC B 501 511 PDB 3IGC 3IGC 501 511 DBREF 3IGC C 512 516 PDB 3IGC 3IGC 512 516 DBREF 3IGC D 517 532 PDB 3IGC 3IGC 517 532 SEQADV 3IGC SER A 100 UNP P32989 CYS 100 ENGINEERED MUTATION SEQADV 3IGC SER A 211 UNP P32989 CYS 211 ENGINEERED MUTATION SEQRES 1 A 314 MET ARG ALA LEU PHE TYR LYS ASP GLY LYS LEU PHE THR SEQRES 2 A 314 ASP ASN ASN PHE LEU ASN PRO VAL SER ASP ASN ASN PRO SEQRES 3 A 314 ALA TYR GLU VAL LEU GLN HIS VAL LYS ILE PRO THR HIS SEQRES 4 A 314 LEU THR ASP VAL VAL VAL TYR GLY GLN THR TRP GLU GLU SEQRES 5 A 314 ALA LEU THR ARG LEU ILE PHE VAL GLY SER ASP SER LYS SEQRES 6 A 314 GLY ARG ARG GLN TYR PHE TYR GLY LYS MET HIS VAL GLN SEQRES 7 A 314 ASN ARG ASN ALA LYS ARG ASP ARG ILE PHE VAL ARG VAL SEQRES 8 A 314 TYR ASN VAL MET LYS ARG ILE ASN SER PHE ILE ASN LYS SEQRES 9 A 314 ASN ILE LYS LYS SER SER THR ASP SER ASN TYR GLN LEU SEQRES 10 A 314 ALA VAL PHE MET LEU MET GLU THR MET PHE PHE ILE ARG SEQRES 11 A 314 PHE GLY LYS MET LYS TYR LEU LYS GLU ASN GLU THR VAL SEQRES 12 A 314 GLY LEU LEU THR LEU LYS ASN LYS HIS ILE GLU ILE SER SEQRES 13 A 314 PRO ASP LYS ILE VAL ILE LYS PHE VAL GLY LYS ASP LYS SEQRES 14 A 314 VAL SER HIS GLU PHE VAL VAL HIS LYS SER ASN ARG LEU SEQRES 15 A 314 TYR LYS PRO LEU LEU LYS LEU THR ASP ASP SER SER PRO SEQRES 16 A 314 GLU GLU PHE LEU PHE ASN LYS LEU SER GLU ARG LYS VAL SEQRES 17 A 314 TYR GLU SER ILE LYS GLN PHE GLY ILE ARG ILE LYS ASP SEQRES 18 A 314 LEU ARG THR TYR GLY VAL ASN TYR THR PHE LEU TYR ASN SEQRES 19 A 314 PHE TRP THR ASN VAL LYS SER ILE SER PRO LEU PRO SER SEQRES 20 A 314 PRO LYS LYS LEU ILE ALA LEU THR ILE LYS GLN THR ALA SEQRES 21 A 314 GLU VAL VAL GLY HIS THR PRO SER ILE SER LYS ARG ALA SEQRES 22 A 314 TYR MET ALA THR THR ILE LEU GLU MET VAL LYS ASP LYS SEQRES 23 A 314 ASN PHE LEU ASP VAL VAL SER LYS THR THR PHE ASP GLU SEQRES 24 A 314 PHE LEU SER ILE VAL VAL ASP HIS VAL LYS SER SER THR SEQRES 25 A 314 ASP GLY SEQRES 1 B 11 DG DT DG DT DC DG DC DC DC DT DT SEQRES 1 C 5 DA DT DT DC DC SEQRES 1 D 16 DC DG DG DA DA DT DA DA DG DG DG DC DG SEQRES 2 D 16 DA DC DA HET VO4 A 600 3 HETNAM VO4 VANADATE ION FORMUL 5 VO4 O4 V 3- FORMUL 6 HOH *426(H2 O) HELIX 1 1 PRO A 26 VAL A 34 1 9 HELIX 2 2 THR A 49 LEU A 54 1 6 HELIX 3 3 GLY A 73 ILE A 106 1 34 HELIX 4 4 ASP A 112 PHE A 128 1 17 HELIX 5 5 LYS A 133 GLU A 141 1 9 HELIX 6 6 LYS A 149 LYS A 151 5 3 HELIX 7 7 LYS A 167 LYS A 169 5 3 HELIX 8 8 LEU A 182 THR A 190 1 9 HELIX 9 9 SER A 204 LYS A 213 1 10 HELIX 10 10 GLN A 214 GLY A 216 5 3 HELIX 11 11 ARG A 218 ILE A 242 1 25 HELIX 12 12 SER A 247 GLY A 264 1 18 HELIX 13 13 THR A 266 TYR A 274 1 9 HELIX 14 14 ALA A 276 VAL A 283 1 8 HELIX 15 15 ASN A 287 LYS A 294 1 8 HELIX 16 16 THR A 296 ASP A 313 1 18 SHEET 1 A 5 LYS A 10 PHE A 12 0 SHEET 2 A 5 ALA A 3 LYS A 7 -1 N PHE A 5 O PHE A 12 SHEET 3 A 5 THR A 41 TYR A 46 -1 O VAL A 45 N LEU A 4 SHEET 4 A 5 LEU A 57 SER A 62 -1 O SER A 62 N THR A 41 SHEET 5 A 5 ARG A 68 TYR A 72 -1 O GLN A 69 N GLY A 61 SHEET 1 B 3 ILE A 153 ILE A 155 0 SHEET 2 B 3 LYS A 159 VAL A 165 -1 O VAL A 161 N GLU A 154 SHEET 3 B 3 SER A 171 HIS A 177 -1 O VAL A 176 N ILE A 160 LINK V VO4 A 600 O3' DT B 511 1555 1555 1.79 LINK V VO4 A 600 O5' DA C 512 1555 1555 1.85 SITE 1 AC1 7 ARG A 130 ARG A 223 HIS A 265 TYR A 274 SITE 2 AC1 7 HOH A 404 DT B 511 DA C 512 CRYST1 103.999 103.999 93.010 90.00 90.00 90.00 P 42 21 2 8 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 0.009615 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009615 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010752 0.00000