HEADER TRANSFERASE/DNA 30-MAR-09 3GV7 TITLE HUMAN DNA POLYMERASE IOTA IN COMPLEX WITH T TEMPLATE DNA AND INCOMING TITLE 2 DTTP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE IOTA; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: RAD30 HOMOLOG B, ETA2; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(P*AP*TP*GP*GP*GP*TP*CP*CP*T)-3'; COMPND 9 CHAIN: T; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: 5'-D(*AP*GP*GP*AP*CP*CP*C)-3'; COMPND 13 CHAIN: P; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: POLI, RAD30B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGST-PARRALLEL1; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES KEYWDS Y-FAMILY POLYMERASE, POLYMERASE IOTA, ERROR PRONE REPLICATION, DNA KEYWDS 2 DAMAGE, DNA REPAIR, DNA REPLICATION, DNA SYNTHESIS, DNA-BINDING, KEYWDS 3 DNA-DIRECTED DNA POLYMERASE, MAGNESIUM, METAL-BINDING, MUTATOR KEYWDS 4 PROTEIN, NUCLEOTIDYLTRANSFERASE, NUCLEUS, SCHIFF BASE, TRANSFERASE, KEYWDS 5 TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.N.KIROUAC,H.LING REVDAT 4 21-FEB-24 3GV7 1 REMARK LINK REVDAT 3 13-JUL-11 3GV7 1 VERSN REVDAT 2 30-JUN-09 3GV7 1 JRNL REVDAT 1 02-JUN-09 3GV7 0 JRNL AUTH K.N.KIROUAC,H.LING JRNL TITL STRUCTURAL BASIS OF ERROR-PRONE REPLICATION AND STALLING AT JRNL TITL 2 A THYMINE BASE BY HUMAN DNA POLYMERASE IOTA JRNL REF EMBO J. V. 28 1644 2009 JRNL REFN ISSN 0261-4189 JRNL PMID 19440206 JRNL DOI 10.1038/EMBOJ.2009.122 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 28762 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.100 REMARK 3 FREE R VALUE TEST SET COUNT : 604 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2068 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2978 REMARK 3 NUCLEIC ACID ATOMS : 322 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 265 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.41000 REMARK 3 B22 (A**2) : -0.41000 REMARK 3 B33 (A**2) : 0.61000 REMARK 3 B12 (A**2) : -0.20000 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): 0.231 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.202 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.155 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.241 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3411 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4669 ; 1.557 ; 2.117 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 374 ; 6.164 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;39.557 ;24.848 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 589 ;19.021 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;21.098 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 540 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2375 ; 0.006 ; 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): 1880 ; 0.653 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3055 ; 1.290 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1531 ; 2.026 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1614 ; 3.155 ; 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 : 5 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 : B 26 B 102 REMARK 3 ORIGIN FOR THE GROUP (A): -1.2860 -16.8250 -21.5630 REMARK 3 T TENSOR REMARK 3 T11: 0.0335 T22: 0.0338 REMARK 3 T33: 0.0188 T12: 0.1981 REMARK 3 T13: -0.0504 T23: -0.0748 REMARK 3 L TENSOR REMARK 3 L11: 3.3796 L22: 3.7047 REMARK 3 L33: 5.7664 L12: 0.0706 REMARK 3 L13: 2.9144 L23: 0.4945 REMARK 3 S TENSOR REMARK 3 S11: -0.1636 S12: -0.0652 S13: 0.4019 REMARK 3 S21: -0.3607 S22: -0.2862 S23: 0.9471 REMARK 3 S31: -0.9014 S32: -0.5426 S33: 0.4498 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 : B 103 B 162 REMARK 3 ORIGIN FOR THE GROUP (A): 19.8160 -17.2210 -6.9270 REMARK 3 T TENSOR REMARK 3 T11: 0.0238 T22: 0.0150 REMARK 3 T33: -0.1687 T12: -0.0477 REMARK 3 T13: 0.0580 T23: 0.0988 REMARK 3 L TENSOR REMARK 3 L11: 1.7502 L22: 2.5710 REMARK 3 L33: 5.6947 L12: 0.2599 REMARK 3 L13: 0.1773 L23: 1.4991 REMARK 3 S TENSOR REMARK 3 S11: 0.0600 S12: 0.0161 S13: 0.0309 REMARK 3 S21: 0.1276 S22: -0.1354 S23: -0.2386 REMARK 3 S31: -0.1335 S32: 0.6242 S33: 0.0754 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 : B 163 B 299 REMARK 3 ORIGIN FOR THE GROUP (A): 7.8100 -25.8380 -0.8700 REMARK 3 T TENSOR REMARK 3 T11: 0.0299 T22: -0.0199 REMARK 3 T33: -0.2029 T12: 0.0298 REMARK 3 T13: 0.0815 T23: -0.0092 REMARK 3 L TENSOR REMARK 3 L11: 1.4306 L22: 0.5201 REMARK 3 L33: 2.1874 L12: -0.1785 REMARK 3 L13: -0.7391 L23: 0.1657 REMARK 3 S TENSOR REMARK 3 S11: -0.0710 S12: 0.0354 S13: -0.1326 REMARK 3 S21: 0.1122 S22: -0.0997 S23: 0.0170 REMARK 3 S31: 0.0559 S32: 0.0863 S33: 0.1708 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 : B 300 B 414 REMARK 3 ORIGIN FOR THE GROUP (A): 5.9940 -41.7260 -34.1690 REMARK 3 T TENSOR REMARK 3 T11: 0.3407 T22: 0.0064 REMARK 3 T33: -0.2498 T12: 0.1880 REMARK 3 T13: -0.1095 T23: -0.2060 REMARK 3 L TENSOR REMARK 3 L11: 0.7190 L22: 9.4463 REMARK 3 L33: 5.4296 L12: -1.6429 REMARK 3 L13: -1.6529 L23: 0.7311 REMARK 3 S TENSOR REMARK 3 S11: 0.5348 S12: 0.0988 S13: -0.3027 REMARK 3 S21: -1.2048 S22: -0.4777 S23: 0.0880 REMARK 3 S31: 0.4134 S32: 0.3069 S33: -0.0571 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : T 839 T 847 REMARK 3 RESIDUE RANGE : P 867 P 973 REMARK 3 ORIGIN FOR THE GROUP (A): 4.6310 -37.9140 -17.2150 REMARK 3 T TENSOR REMARK 3 T11: 0.1037 T22: 0.0409 REMARK 3 T33: -0.0564 T12: 0.1487 REMARK 3 T13: 0.0701 T23: -0.0842 REMARK 3 L TENSOR REMARK 3 L11: 0.1368 L22: 4.2349 REMARK 3 L33: 1.3076 L12: 0.1000 REMARK 3 L13: 0.4229 L23: 0.3711 REMARK 3 S TENSOR REMARK 3 S11: 0.0491 S12: 0.2654 S13: -0.3164 REMARK 3 S21: 0.2607 S22: -0.2887 S23: 0.7266 REMARK 3 S31: 0.3791 S32: 0.1898 S33: 0.2396 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3GV7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000052347. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAR-08 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29366 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 27.040 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 5000MME, 0.2M NH4SO4, 0.1M MES REMARK 280 6.5, 5% GLYCEROL, HANGING DROP, PH 6.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 134.62667 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 67.31333 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 100.97000 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 33.65667 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 168.28333 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 134.62667 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 67.31333 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 33.65667 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 100.97000 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 168.28333 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, T, P 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 MET B 1 REMARK 465 GLU B 2 REMARK 465 LEU B 3 REMARK 465 ALA B 4 REMARK 465 ASP B 5 REMARK 465 VAL B 6 REMARK 465 GLY B 7 REMARK 465 ALA B 8 REMARK 465 ALA B 9 REMARK 465 ALA B 10 REMARK 465 SER B 11 REMARK 465 SER B 12 REMARK 465 GLN B 13 REMARK 465 GLY B 14 REMARK 465 VAL B 15 REMARK 465 HIS B 16 REMARK 465 ASP B 17 REMARK 465 GLN B 18 REMARK 465 VAL B 19 REMARK 465 LEU B 20 REMARK 465 PRO B 21 REMARK 465 THR B 22 REMARK 465 PRO B 23 REMARK 465 ASN B 24 REMARK 465 ALA B 25 REMARK 465 SER B 350 REMARK 465 SER B 351 REMARK 465 GLU B 352 REMARK 465 LYS B 353 REMARK 465 HIS B 354 REMARK 465 TYR B 355 REMARK 465 LEU B 372 REMARK 465 GLY B 373 REMARK 465 THR B 374 REMARK 465 GLY B 375 REMARK 465 ASN B 376 REMARK 465 TYR B 377 REMARK 465 ALA B 415 REMARK 465 LEU B 416 REMARK 465 ASN B 417 REMARK 465 THR B 418 REMARK 465 ALA B 419 REMARK 465 LYS B 420 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 DC P 873 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 O2A TTP B 421 O HOH B 496 1.78 REMARK 500 O HOH B 426 O HOH B 609 2.04 REMARK 500 O1A TTP B 421 O HOH B 661 2.08 REMARK 500 O THR B 381 OD2 ASP B 385 2.10 REMARK 500 SG CYS B 226 O HOH B 616 2.12 REMARK 500 O ILE B 242 O HOH B 425 2.15 REMARK 500 OE2 GLU B 304 O HOH B 486 2.15 REMARK 500 O HOH B 486 O HOH B 606 2.19 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 O3' DT T 847 O5' DA P 867 12544 1.83 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 P 869 O3' DG P 869 C3' -0.041 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 B 103 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 103 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG B 184 NE - CZ - NH1 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG B 184 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG T 841 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT T 844 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC T 845 O4' - C1' - N1 ANGL. DEV. = 4.1 DEGREES REMARK 500 DT T 847 O4' - C1' - N1 ANGL. DEV. = -4.5 DEGREES REMARK 500 DA P 867 O4' - C4' - C3' ANGL. DEV. = -5.5 DEGREES REMARK 500 DA P 867 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG P 868 O4' - C1' - C2' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG P 868 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG P 869 O4' - C1' - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 DA P 870 C5' - C4' - C3' ANGL. DEV. = -11.5 DEGREES REMARK 500 DA P 870 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC P 872 O4' - C4' - C3' ANGL. DEV. = -3.3 DEGREES REMARK 500 DC P 873 O4' - C1' - N1 ANGL. DEV. = 3.3 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 CYS B 37 60.74 18.69 REMARK 500 PRO B 48 8.32 -56.60 REMARK 500 LYS B 60 -119.31 53.64 REMARK 500 CYS B 88 87.00 -155.84 REMARK 500 ALA B 150 -64.22 120.62 REMARK 500 CYS B 333 -83.97 140.16 REMARK 500 GLN B 370 80.98 -60.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 871 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 34 OD1 REMARK 620 2 LEU B 35 O 93.8 REMARK 620 3 ASP B 126 OD1 89.4 86.3 REMARK 620 4 TTP B 421 O2A 98.1 166.5 87.5 REMARK 620 5 TTP B 421 O1B 176.0 87.1 86.8 80.6 REMARK 620 6 TTP B 421 O1G 102.1 96.4 168.0 87.4 81.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 871 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TTP B 421 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 422 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GV5 RELATED DB: PDB REMARK 900 RELATED ID: 3GV8 RELATED DB: PDB DBREF 3GV7 B 1 420 UNP Q9UNA4 POLI_HUMAN 1 420 DBREF 3GV7 T 839 847 PDB 3GV7 3GV7 839 847 DBREF 3GV7 P 867 873 PDB 3GV7 3GV7 867 873 SEQRES 1 B 420 MET GLU LEU ALA ASP VAL GLY ALA ALA ALA SER SER GLN SEQRES 2 B 420 GLY VAL HIS ASP GLN VAL LEU PRO THR PRO ASN ALA SER SEQRES 3 B 420 SER ARG VAL ILE VAL HIS VAL ASP LEU ASP CYS PHE TYR SEQRES 4 B 420 ALA GLN VAL GLU MET ILE SER ASN PRO GLU LEU LYS ASP SEQRES 5 B 420 LYS PRO LEU GLY VAL GLN GLN LYS TYR LEU VAL VAL THR SEQRES 6 B 420 CYS ASN TYR GLU ALA ARG LYS LEU GLY VAL LYS LYS LEU SEQRES 7 B 420 MET ASN VAL ARG ASP ALA LYS GLU LYS CYS PRO GLN LEU SEQRES 8 B 420 VAL LEU VAL ASN GLY GLU ASP LEU THR ARG TYR ARG GLU SEQRES 9 B 420 MET SER TYR LYS VAL THR GLU LEU LEU GLU GLU PHE SER SEQRES 10 B 420 PRO VAL VAL GLU ARG LEU GLY PHE ASP GLU ASN PHE VAL SEQRES 11 B 420 ASP LEU THR GLU MET VAL GLU LYS ARG LEU GLN GLN LEU SEQRES 12 B 420 GLN SER ASP GLU LEU SER ALA VAL THR VAL SER GLY HIS SEQRES 13 B 420 VAL TYR ASN ASN GLN SER ILE ASN LEU LEU ASP VAL LEU SEQRES 14 B 420 HIS ILE ARG LEU LEU VAL GLY SER GLN ILE ALA ALA GLU SEQRES 15 B 420 MET ARG GLU ALA MET TYR ASN GLN LEU GLY LEU THR GLY SEQRES 16 B 420 CYS ALA GLY VAL ALA SER ASN LYS LEU LEU ALA LYS LEU SEQRES 17 B 420 VAL SER GLY VAL PHE LYS PRO ASN GLN GLN THR VAL LEU SEQRES 18 B 420 LEU PRO GLU SER CYS GLN HIS LEU ILE HIS SER LEU ASN SEQRES 19 B 420 HIS ILE LYS GLU ILE PRO GLY ILE GLY TYR LYS THR ALA SEQRES 20 B 420 LYS CYS LEU GLU ALA LEU GLY ILE ASN SER VAL ARG ASP SEQRES 21 B 420 LEU GLN THR PHE SER PRO LYS ILE LEU GLU LYS GLU LEU SEQRES 22 B 420 GLY ILE SER VAL ALA GLN ARG ILE GLN LYS LEU SER PHE SEQRES 23 B 420 GLY GLU ASP ASN SER PRO VAL ILE LEU SER GLY PRO PRO SEQRES 24 B 420 GLN SER PHE SER GLU GLU ASP SER PHE LYS LYS CYS SER SEQRES 25 B 420 SER GLU VAL GLU ALA LYS ASN LYS ILE GLU GLU LEU LEU SEQRES 26 B 420 ALA SER LEU LEU ASN ARG VAL CYS GLN ASP GLY ARG LYS SEQRES 27 B 420 PRO HIS THR VAL ARG LEU ILE ILE ARG ARG TYR SER SER SEQRES 28 B 420 GLU LYS HIS TYR GLY ARG GLU SER ARG GLN CYS PRO ILE SEQRES 29 B 420 PRO SER HIS VAL ILE GLN LYS LEU GLY THR GLY ASN TYR SEQRES 30 B 420 ASP VAL MET THR PRO MET VAL ASP ILE LEU MET LYS LEU SEQRES 31 B 420 PHE ARG ASN MET VAL ASN VAL LYS MET PRO PHE HIS LEU SEQRES 32 B 420 THR LEU LEU SER VAL CYS PHE CYS ASN LEU LYS ALA LEU SEQRES 33 B 420 ASN THR ALA LYS SEQRES 1 T 9 DA DT DG DG DG DT DC DC DT SEQRES 1 P 7 DA DG DG DA DC DC DC HET MG B 871 1 HET TTP B 421 29 HET MG B 422 1 HETNAM MG MAGNESIUM ION HETNAM TTP THYMIDINE-5'-TRIPHOSPHATE FORMUL 4 MG 2(MG 2+) FORMUL 5 TTP C10 H17 N2 O14 P3 FORMUL 7 HOH *265(H2 O) HELIX 1 1 CYS B 37 ASN B 47 1 11 HELIX 2 2 ASN B 67 LEU B 73 1 7 HELIX 3 3 VAL B 81 CYS B 88 1 8 HELIX 4 4 LEU B 99 GLU B 115 1 17 HELIX 5 5 LEU B 132 LEU B 143 1 12 HELIX 6 6 SER B 145 SER B 149 5 5 HELIX 7 7 ASN B 159 GLN B 161 5 3 HELIX 8 8 ASP B 167 GLY B 192 1 26 HELIX 9 9 ASN B 202 GLY B 211 1 10 HELIX 10 10 LEU B 222 GLU B 224 5 3 HELIX 11 11 SER B 225 SER B 232 1 8 HELIX 12 12 HIS B 235 ILE B 239 5 5 HELIX 13 13 GLY B 243 LEU B 253 1 11 HELIX 14 14 SER B 257 PHE B 264 1 8 HELIX 15 15 SER B 265 GLY B 274 1 10 HELIX 16 16 GLY B 274 PHE B 286 1 13 HELIX 17 17 SER B 313 VAL B 332 1 20 HELIX 18 18 PRO B 365 GLN B 370 1 6 HELIX 19 19 VAL B 379 VAL B 395 1 17 SHEET 1 A 6 VAL B 120 LEU B 123 0 SHEET 2 A 6 GLU B 127 ASP B 131 -1 O GLU B 127 N LEU B 123 SHEET 3 A 6 ILE B 30 LEU B 35 -1 N VAL B 33 O ASN B 128 SHEET 4 A 6 GLY B 195 ALA B 200 -1 O ALA B 200 N ILE B 30 SHEET 5 A 6 GLN B 218 VAL B 220 1 O THR B 219 N ALA B 197 SHEET 6 A 6 HIS B 156 VAL B 157 1 N HIS B 156 O GLN B 218 SHEET 1 B 4 MET B 79 ASN B 80 0 SHEET 2 B 4 LEU B 62 CYS B 66 -1 N VAL B 63 O MET B 79 SHEET 3 B 4 LEU B 55 GLN B 59 -1 N VAL B 57 O THR B 65 SHEET 4 B 4 VAL B 92 ASN B 95 1 O VAL B 94 N GLN B 58 SHEET 1 C 4 SER B 301 CYS B 311 0 SHEET 2 C 4 LEU B 403 LEU B 413 -1 O LEU B 403 N CYS B 311 SHEET 3 C 4 PRO B 339 ARG B 348 -1 N ARG B 347 O THR B 404 SHEET 4 C 4 GLU B 358 PRO B 363 -1 O GLU B 358 N ILE B 346 LINK OD1 ASP B 34 MG MG B 871 1555 1555 2.29 LINK O LEU B 35 MG MG B 871 1555 1555 2.21 LINK OD1 ASP B 126 MG MG B 871 1555 1555 2.04 LINK O2A TTP B 421 MG MG B 871 1555 1555 2.27 LINK O1B TTP B 421 MG MG B 871 1555 1555 2.33 LINK O1G TTP B 421 MG MG B 871 1555 1555 2.24 CISPEP 1 SER B 149 ALA B 150 0 -3.97 CISPEP 2 LYS B 214 PRO B 215 0 -9.23 CISPEP 3 VAL B 332 CYS B 333 0 -5.25 SITE 1 AC1 5 ASP B 34 LEU B 35 ASP B 126 TTP B 421 SITE 2 AC1 5 HOH B 496 SITE 1 AC2 22 ASP B 34 LEU B 35 ASP B 36 CYS B 37 SITE 2 AC2 22 PHE B 38 TYR B 39 THR B 65 TYR B 68 SITE 3 AC2 22 ARG B 71 LYS B 77 LEU B 78 ASP B 126 SITE 4 AC2 22 LYS B 214 MG B 422 HOH B 472 HOH B 496 SITE 5 AC2 22 HOH B 640 HOH B 661 MG B 871 DC P 873 SITE 6 AC2 22 DT T 840 DG T 841 SITE 1 AC3 3 ASP B 34 TTP B 421 HOH B 662 CRYST1 97.190 97.190 201.940 90.00 90.00 120.00 P 65 2 2 12 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 0.010289 0.005940 0.000000 0.00000 SCALE2 0.000000 0.011881 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004952 0.00000