PDB Short entry for 1TK8 HEADER TRANSFERASE/ELECTRON TRANSPORT/DNA 08-JUN-04 1TK8 TITLE T7 DNA POLYMERASE TERNARY COMPLEX WITH 8 OXO GUANOSINE AND DAMP AT THE TITLE 2 ELONGATION SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*GP*AP*AP*AP*AP*CP*GP*AP*CP*GP*GP*CP*CP*AP*GP*TP*GP COMPND 3 *CP*CP*AP*(2DA))-3'; COMPND 4 CHAIN: P; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: PRIMER STRAND; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*CP*CP*CP*AP*(8OG) COMPND 9 P*TP*GP*GP*CP*AP*CP*TP*GP*GP*CP*CP*GP*TP*CP*GP*TP*TP*TP*TP*CP*G)-3'; COMPND 10 CHAIN: T; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: TEMPLATE STRAND; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA POLYMERASE; COMPND 15 CHAIN: A; COMPND 16 SYNONYM: T7 DNA POLYMERASE; COMPND 17 EC: 2.7.7.7; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 4; COMPND 20 MOLECULE: THIOREDOXIN 1; COMPND 21 CHAIN: B; COMPND 22 SYNONYM: TRX1, TRX; COMPND 23 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE T7; SOURCE 7 ORGANISM_TAXID: 10760; SOURCE 8 GENE: 5; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 11 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PGP5; SOURCE 13 MOL_ID: 4; SOURCE 14 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 15 ORGANISM_TAXID: 562; SOURCE 16 GENE: TRXA, TSNC, FIPA, B3781, C4701, Z5291, ECS4714, STM3915, SOURCE 17 STMD1.75, STY3639, T3381, SF3854, S3905; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 19 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 20 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 21 EXPRESSION_SYSTEM_PLASMID: PTRX-3 KEYWDS 8-OXOGUANOSINE DNA POLYMERASE, TRANSFERASE-ELECTRON TRANSPORT-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.G.BRIEBA,B.F.EICHMAN,R.J.KOKOSKA,S.DOUBLIE,T.A.KUNKEL,T.ELLENBERGER REVDAT 4 23-AUG-23 1TK8 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 1TK8 1 VERSN REVDAT 2 21-SEP-04 1TK8 1 JRNL REVDAT 1 31-AUG-04 1TK8 0 JRNL AUTH L.G.BRIEBA,B.F.EICHMAN,R.J.KOKOSKA,S.DOUBLIE,T.A.KUNKEL, JRNL AUTH 2 T.ELLENBERGER JRNL TITL STRUCTURAL BASIS FOR THE DUAL CODING POTENTIAL OF JRNL TITL 2 8-OXOGUANOSINE BY A HIGH-FIDELITY DNA POLYMERASE. JRNL REF EMBO J. V. 23 3452 2004 JRNL REFN ISSN 0261-4189 JRNL PMID 15297882 JRNL DOI 10.1038/SJ.EMBOJ.7600354 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2139911.090 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 42315 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) : 0.206 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2057 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 : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 6545 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE : 0.3130 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 351 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.017 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6298 REMARK 3 NUCLEIC ACID ATOMS : 758 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 532 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.25000 REMARK 3 B22 (A**2) : -1.28000 REMARK 3 B33 (A**2) : -2.97000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM SIGMAA (A) : 0.19 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) : 0.36 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.31 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.890 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) : 1.230 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.010 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.010 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.960 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 27.68 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.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA-TT5.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER.PARAM REMARK 3 PARAMETER FILE 5 : LIGAND.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA-TT_4TD_NEW.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : WATER.TOP REMARK 3 TOPOLOGY FILE 5 : LIGAND.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1TK8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JUN-04. REMARK 100 THE DEPOSITION ID IS D_1000022713. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JAN-04 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 : NSLS REMARK 200 BEAMLINE : X26C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52299 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 23.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.08300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 12.70 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1T7P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, AMMONIUM SULFATE, PEG400, REMARK 280 ETHYLENE GLYCOL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 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 -X+1/2,Y+1/2,-Z 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 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 -1.000000 0.000000 0.000000 53.08850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 107.85500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 53.08850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 107.85500 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: P, T, 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 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 DC P 801 REMARK 465 DG P 802 REMARK 465 DA P 803 REMARK 465 DA P 804 REMARK 465 DA P 805 REMARK 465 DC T 851 REMARK 465 DC T 852 REMARK 465 DT T 873 REMARK 465 DT T 874 REMARK 465 DC T 875 REMARK 465 DG T 876 REMARK 465 GLN A 578 REMARK 465 TRP A 579 REMARK 465 VAL A 580 REMARK 465 ALA A 581 REMARK 465 GLY A 582 REMARK 465 GLU A 583 REMARK 465 SER B 1 REMARK 465 ASP B 2 REMARK 465 ALA B 108 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DT T 868 OP1 REMARK 470 GLU A 166 CD OE1 OE2 REMARK 470 ARG A 278 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 300 CG CD CE NZ REMARK 470 ARG A 310 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 318 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 594 CE NZ 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 TYR A 64 -80.70 -110.36 REMARK 500 ASP A 156 -84.86 18.44 REMARK 500 ARG A 318 -99.03 -16.55 REMARK 500 GLU A 319 -24.24 154.23 REMARK 500 ASP A 358 0.24 -67.98 REMARK 500 ALA A 400 -43.25 -131.14 REMARK 500 HIS A 417 69.77 -100.08 REMARK 500 VAL A 652 79.64 -114.65 REMARK 500 HIS A 653 -90.18 66.95 REMARK 500 ASP B 47 -73.11 -66.37 REMARK 500 GLU B 48 -36.34 -38.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DA P 821 0.06 SIDE CHAIN REMARK 500 DG T 857 0.07 SIDE CHAIN REMARK 500 DC T 861 0.06 SIDE CHAIN 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 T 904 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH T1221 O REMARK 620 2 HOH T1222 O 88.9 REMARK 620 3 HOH T1257 O 100.8 165.6 REMARK 620 4 HOH T1487 O 105.5 103.3 84.5 REMARK 620 5 HOH T1488 O 169.3 88.1 80.5 85.1 REMARK 620 6 HOH T1489 O 88.8 96.2 73.5 155.8 81.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 903 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 5 OD1 REMARK 620 2 HOH A1067 O 78.5 REMARK 620 3 HOH A1145 O 84.5 92.7 REMARK 620 4 HOH A1508 O 93.9 169.7 93.6 REMARK 620 5 HOH A1524 O 177.8 99.7 94.3 88.0 REMARK 620 6 HOH A1525 O 91.8 86.2 176.3 87.0 89.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 901 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 475 OD1 REMARK 620 2 ALA A 476 O 67.0 REMARK 620 3 ASP A 654 OD2 84.3 82.2 REMARK 620 4 D3T A 823 O2B 162.6 97.9 102.9 REMARK 620 5 D3T A 823 O1G 87.4 106.1 164.9 88.7 REMARK 620 6 D3T A 823 O2A 115.9 169.5 88.0 80.5 84.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 902 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 475 OD2 REMARK 620 2 ASP A 654 OD1 98.9 REMARK 620 3 D3T A 823 O2A 97.9 88.0 REMARK 620 4 HOH A1008 O 99.3 99.4 159.8 REMARK 620 5 HOH A1284 O 95.4 164.5 84.1 84.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG T 904 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 905 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 906 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D3T A 823 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 991 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1PE A 992 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1T8E RELATED DB: PDB REMARK 900 RELATED ID: 1TK0 RELATED DB: PDB REMARK 900 RELATED ID: 1TK5 RELATED DB: PDB REMARK 900 RELATED ID: 1TKD RELATED DB: PDB DBREF 1TK8 A 1 704 UNP P00581 DPOL_BPT7 1 704 DBREF 1TK8 B 1 108 UNP P0AA25 THIO_ECOLI 1 108 DBREF 1TK8 P 801 822 PDB 1TK8 1TK8 801 822 DBREF 1TK8 T 851 876 PDB 1TK8 1TK8 851 876 SEQADV 1TK8 A UNP P00581 LYS 118 DELETION SEQADV 1TK8 A UNP P00581 ARG 119 DELETION SEQADV 1TK8 A UNP P00581 PHE 120 DELETION SEQADV 1TK8 A UNP P00581 GLY 121 DELETION SEQADV 1TK8 A UNP P00581 SER 122 DELETION SEQADV 1TK8 A UNP P00581 HIS 123 DELETION SEQRES 1 P 22 DC DG DA DA DA DA DC DG DA DC DG DG DC SEQRES 2 P 22 DC DA DG DT DG DC DC DA 2DA SEQRES 1 T 26 DC DC DC DA 8OG DT DG DG DC DA DC DT DG SEQRES 2 T 26 DG DC DC DG DT DC DG DT DT DT DT DC DG SEQRES 1 A 698 MET ILE VAL SER ASP ILE GLU ALA ASN ALA LEU LEU GLU SEQRES 2 A 698 SER VAL THR LYS PHE HIS CYS GLY VAL ILE TYR ASP TYR SEQRES 3 A 698 SER THR ALA GLU TYR VAL SER TYR ARG PRO SER ASP PHE SEQRES 4 A 698 GLY ALA TYR LEU ASP ALA LEU GLU ALA GLU VAL ALA ARG SEQRES 5 A 698 GLY GLY LEU ILE VAL PHE HIS ASN GLY HIS LYS TYR ASP SEQRES 6 A 698 VAL PRO ALA LEU THR LYS LEU ALA LYS LEU GLN LEU ASN SEQRES 7 A 698 ARG GLU PHE HIS LEU PRO ARG GLU ASN CYS ILE ASP THR SEQRES 8 A 698 LEU VAL LEU SER ARG LEU ILE HIS SER ASN LEU LYS ASP SEQRES 9 A 698 THR ASP MET GLY LEU LEU ARG SER GLY LYS LEU PRO GLY SEQRES 10 A 698 ALA LEU GLU ALA TRP GLY TYR ARG LEU GLY GLU MET LYS SEQRES 11 A 698 GLY GLU TYR LYS ASP ASP PHE LYS ARG MET LEU GLU GLU SEQRES 12 A 698 GLN GLY GLU GLU TYR VAL ASP GLY MET GLU TRP TRP ASN SEQRES 13 A 698 PHE ASN GLU GLU MET MET ASP TYR ASN VAL GLN ASP VAL SEQRES 14 A 698 VAL VAL THR LYS ALA LEU LEU GLU LYS LEU LEU SER ASP SEQRES 15 A 698 LYS HIS TYR PHE PRO PRO GLU ILE ASP PHE THR ASP VAL SEQRES 16 A 698 GLY TYR THR THR PHE TRP SER GLU SER LEU GLU ALA VAL SEQRES 17 A 698 ASP ILE GLU HIS ARG ALA ALA TRP LEU LEU ALA LYS GLN SEQRES 18 A 698 GLU ARG ASN GLY PHE PRO PHE ASP THR LYS ALA ILE GLU SEQRES 19 A 698 GLU LEU TYR VAL GLU LEU ALA ALA ARG ARG SER GLU LEU SEQRES 20 A 698 LEU ARG LYS LEU THR GLU THR PHE GLY SER TRP TYR GLN SEQRES 21 A 698 PRO LYS GLY GLY THR GLU MET PHE CYS HIS PRO ARG THR SEQRES 22 A 698 GLY LYS PRO LEU PRO LYS TYR PRO ARG ILE LYS THR PRO SEQRES 23 A 698 LYS VAL GLY GLY ILE PHE LYS LYS PRO LYS ASN LYS ALA SEQRES 24 A 698 GLN ARG GLU GLY ARG GLU PRO CYS GLU LEU ASP THR ARG SEQRES 25 A 698 GLU TYR VAL ALA GLY ALA PRO TYR THR PRO VAL GLU HIS SEQRES 26 A 698 VAL VAL PHE ASN PRO SER SER ARG ASP HIS ILE GLN LYS SEQRES 27 A 698 LYS LEU GLN GLU ALA GLY TRP VAL PRO THR LYS TYR THR SEQRES 28 A 698 ASP LYS GLY ALA PRO VAL VAL ASP ASP GLU VAL LEU GLU SEQRES 29 A 698 GLY VAL ARG VAL ASP ASP PRO GLU LYS GLN ALA ALA ILE SEQRES 30 A 698 ASP LEU ILE LYS GLU TYR LEU MET ILE GLN LYS ARG ILE SEQRES 31 A 698 GLY GLN SER ALA GLU GLY ASP LYS ALA TRP LEU ARG TYR SEQRES 32 A 698 VAL ALA GLU ASP GLY LYS ILE HIS GLY SER VAL ASN PRO SEQRES 33 A 698 ASN GLY ALA VAL THR GLY ARG ALA THR HIS ALA PHE PRO SEQRES 34 A 698 ASN LEU ALA GLN ILE PRO GLY VAL ARG SER PRO TYR GLY SEQRES 35 A 698 GLU GLN CYS ARG ALA ALA PHE GLY ALA GLU HIS HIS LEU SEQRES 36 A 698 ASP GLY ILE THR GLY LYS PRO TRP VAL GLN ALA GLY ILE SEQRES 37 A 698 ASP ALA SER GLY LEU GLU LEU ARG CYS LEU ALA HIS PHE SEQRES 38 A 698 MET ALA ARG PHE ASP ASN GLY GLU TYR ALA HIS GLU ILE SEQRES 39 A 698 LEU ASN GLY ASP ILE HIS THR LYS ASN GLN ILE ALA ALA SEQRES 40 A 698 GLU LEU PRO THR ARG ASP ASN ALA LYS THR PHE ILE TYR SEQRES 41 A 698 GLY PHE LEU TYR GLY ALA GLY ASP GLU LYS ILE GLY GLN SEQRES 42 A 698 ILE VAL GLY ALA GLY LYS GLU ARG GLY LYS GLU LEU LYS SEQRES 43 A 698 LYS LYS PHE LEU GLU ASN THR PRO ALA ILE ALA ALA LEU SEQRES 44 A 698 ARG GLU SER ILE GLN GLN THR LEU VAL GLU SER SER GLN SEQRES 45 A 698 TRP VAL ALA GLY GLU GLN GLN VAL LYS TRP LYS ARG ARG SEQRES 46 A 698 TRP ILE LYS GLY LEU ASP GLY ARG LYS VAL HIS VAL ARG SEQRES 47 A 698 SER PRO HIS ALA ALA LEU ASN THR LEU LEU GLN SER ALA SEQRES 48 A 698 GLY ALA LEU ILE CYS LYS LEU TRP ILE ILE LYS THR GLU SEQRES 49 A 698 GLU MET LEU VAL GLU LYS GLY LEU LYS HIS GLY TRP ASP SEQRES 50 A 698 GLY ASP PHE ALA TYR MET ALA TRP VAL HIS ASP GLU ILE SEQRES 51 A 698 GLN VAL GLY CYS ARG THR GLU GLU ILE ALA GLN VAL VAL SEQRES 52 A 698 ILE GLU THR ALA GLN GLU ALA MET ARG TRP VAL GLY ASP SEQRES 53 A 698 HIS TRP ASN PHE ARG CYS LEU LEU ASP THR GLU GLY LYS SEQRES 54 A 698 MET GLY PRO ASN TRP ALA ILE CYS HIS SEQRES 1 B 108 SER ASP LYS ILE ILE HIS LEU THR ASP ASP SER PHE ASP SEQRES 2 B 108 THR ASP VAL LEU LYS ALA ASP GLY ALA ILE LEU VAL ASP SEQRES 3 B 108 PHE TRP ALA GLU TRP CYS GLY PRO CYS LYS MET ILE ALA SEQRES 4 B 108 PRO ILE LEU ASP GLU ILE ALA ASP GLU TYR GLN GLY LYS SEQRES 5 B 108 LEU THR VAL ALA LYS LEU ASN ILE ASP GLN ASN PRO GLY SEQRES 6 B 108 THR ALA PRO LYS TYR GLY ILE ARG GLY ILE PRO THR LEU SEQRES 7 B 108 LEU LEU PHE LYS ASN GLY GLU VAL ALA ALA THR LYS VAL SEQRES 8 B 108 GLY ALA LEU SER LYS GLY GLN LEU LYS GLU PHE LEU ASP SEQRES 9 B 108 ALA ASN LEU ALA MODRES 1TK8 2DA P 822 DA 2',3'-DIDEOXYADENOSINE-5'-MONOPHOSPHATE MODRES 1TK8 8OG T 855 DG HET 2DA P 822 20 HET 8OG T 855 23 HET MG T 904 1 HET MG A 901 1 HET MG A 902 1 HET MG A 903 1 HET SO4 A 905 5 HET SO4 A 906 5 HET D3T A 823 28 HET MES A 991 12 HET 1PE A 992 16 HETNAM 2DA 2',3'-DIDEOXYADENOSINE-5'-MONOPHOSPHATE HETNAM 8OG 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETNAM D3T 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM 1PE PENTAETHYLENE GLYCOL HETSYN 8OG 8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETSYN 1PE PEG400 FORMUL 1 2DA C10 H14 N5 O5 P FORMUL 2 8OG C10 H14 N5 O8 P FORMUL 5 MG 4(MG 2+) FORMUL 9 SO4 2(O4 S 2-) FORMUL 11 D3T C10 H17 N2 O13 P3 FORMUL 12 MES C6 H13 N O4 S FORMUL 13 1PE C10 H22 O6 FORMUL 14 HOH *532(H2 O) HELIX 1 1 LEU A 11 VAL A 15 5 5 HELIX 2 2 ARG A 35 SER A 37 5 3 HELIX 3 3 ASP A 38 ARG A 52 1 15 HELIX 4 4 TYR A 64 ASN A 78 1 15 HELIX 5 5 PRO A 84 GLU A 86 5 3 HELIX 6 6 THR A 91 HIS A 99 1 9 HELIX 7 7 ARG A 111 LEU A 115 5 5 HELIX 8 8 GLU A 126 GLN A 150 1 25 HELIX 9 9 GLY A 157 TRP A 161 5 5 HELIX 10 10 ASN A 164 SER A 187 1 24 HELIX 11 11 GLY A 202 SER A 210 1 9 HELIX 12 12 LEU A 211 GLY A 231 1 21 HELIX 13 13 ASP A 235 PHE A 261 1 27 HELIX 14 14 SER A 338 GLU A 348 1 11 HELIX 15 15 ASP A 365 VAL A 372 1 8 HELIX 16 16 ASP A 376 ALA A 400 1 25 HELIX 17 17 ALA A 405 VAL A 410 1 6 HELIX 18 18 TYR A 447 ALA A 454 1 8 HELIX 19 19 PHE A 455 HIS A 460 5 6 HELIX 20 20 GLY A 478 ASN A 493 1 16 HELIX 21 21 GLY A 494 ILE A 500 1 7 HELIX 22 22 ASP A 504 GLU A 514 1 11 HELIX 23 23 THR A 517 TYR A 530 1 14 HELIX 24 24 GLY A 533 GLY A 542 1 10 HELIX 25 25 GLY A 544 THR A 559 1 16 HELIX 26 26 PRO A 560 LEU A 573 1 14 HELIX 27 27 ALA A 608 LYS A 636 1 29 HELIX 28 28 THR A 662 TRP A 684 1 23 HELIX 29 29 THR B 8 VAL B 16 1 9 HELIX 30 30 CYS B 32 TYR B 49 1 18 HELIX 31 31 THR B 66 GLY B 71 5 6 HELIX 32 32 SER B 95 LEU B 107 1 13 SHEET 1 A 5 TYR A 31 TYR A 34 0 SHEET 2 A 5 PHE A 18 ASP A 25 -1 N GLY A 21 O TYR A 34 SHEET 3 A 5 ILE A 2 ALA A 8 -1 N GLU A 7 O HIS A 19 SHEET 4 A 5 ILE A 56 PHE A 58 1 O VAL A 57 N SER A 4 SHEET 5 A 5 CYS A 88 ASP A 90 1 O ILE A 89 N ILE A 56 SHEET 1 B 2 PHE A 232 PRO A 233 0 SHEET 2 B 2 LYS A 415 ILE A 416 -1 O ILE A 416 N PHE A 232 SHEET 1 C 3 TRP A 264 PRO A 267 0 SHEET 2 C 3 THR A 327 VAL A 332 -1 O VAL A 332 N TRP A 264 SHEET 3 C 3 GLY B 74 ILE B 75 -1 O ILE B 75 N THR A 327 SHEET 1 D 2 SER A 419 ASN A 421 0 SHEET 2 D 2 THR A 431 ALA A 433 -1 O ALA A 433 N SER A 419 SHEET 1 E 4 PHE A 646 TRP A 651 0 SHEET 2 E 4 GLU A 655 CYS A 660 -1 O GLY A 659 N ALA A 647 SHEET 3 E 4 VAL A 470 ALA A 476 -1 N VAL A 470 O CYS A 660 SHEET 4 E 4 THR A 692 GLY A 697 -1 O LYS A 695 N GLY A 473 SHEET 1 F 2 VAL A 574 SER A 576 0 SHEET 2 F 2 LYS A 587 TRP A 588 -1 O LYS A 587 N SER A 576 SHEET 1 G 2 TRP A 592 LYS A 594 0 SHEET 2 G 2 LYS A 600 HIS A 602 -1 O VAL A 601 N ILE A 593 SHEET 1 H 5 ILE B 5 HIS B 6 0 SHEET 2 H 5 THR B 54 ASN B 59 1 O VAL B 55 N ILE B 5 SHEET 3 H 5 ALA B 22 TRP B 28 1 N LEU B 24 O ALA B 56 SHEET 4 H 5 THR B 77 LYS B 82 -1 O PHE B 81 N ILE B 23 SHEET 5 H 5 VAL B 86 VAL B 91 -1 O ALA B 87 N LEU B 80 LINK O3' DA P 821 P 2DA P 822 1555 1555 1.60 LINK O3' DA T 854 P 8OG T 855 1555 1555 1.60 LINK O3' 8OG T 855 P DT T 856 1555 1555 1.61 LINK MG MG T 904 O HOH T1221 1555 1555 2.10 LINK MG MG T 904 O HOH T1222 1555 1555 2.26 LINK MG MG T 904 O HOH T1257 1555 1555 2.70 LINK MG MG T 904 O HOH T1487 1555 1555 2.11 LINK MG MG T 904 O HOH T1488 1555 1555 2.35 LINK MG MG T 904 O HOH T1489 1555 1555 2.27 LINK OD1 ASP A 5 MG MG A 903 1555 1555 2.10 LINK OD1 ASP A 475 MG MG A 901 1555 1555 2.21 LINK OD2 ASP A 475 MG MG A 902 1555 1555 2.32 LINK O ALA A 476 MG MG A 901 1555 1555 2.28 LINK OD2 ASP A 654 MG MG A 901 1555 1555 2.12 LINK OD1 ASP A 654 MG MG A 902 1555 1555 2.18 LINK O2B D3T A 823 MG MG A 901 1555 1555 1.99 LINK O1G D3T A 823 MG MG A 901 1555 1555 1.94 LINK O2A D3T A 823 MG MG A 901 1555 1555 2.15 LINK O2A D3T A 823 MG MG A 902 1555 1555 2.56 LINK MG MG A 902 O HOH A1008 1555 1555 2.45 LINK MG MG A 902 O HOH A1284 1555 1555 2.57 LINK MG MG A 903 O HOH A1067 1555 1555 2.16 LINK MG MG A 903 O HOH A1145 1555 1555 2.12 LINK MG MG A 903 O HOH A1508 1555 1555 2.18 LINK MG MG A 903 O HOH A1524 1555 1555 2.12 LINK MG MG A 903 O HOH A1525 1555 1555 2.15 CISPEP 1 PHE A 434 PRO A 435 0 -0.30 CISPEP 2 ILE B 75 PRO B 76 0 0.06 SITE 1 AC1 5 ASP A 475 ALA A 476 ASP A 654 D3T A 823 SITE 2 AC1 5 MG A 902 SITE 1 AC2 7 ASP A 475 ASP A 654 D3T A 823 MG A 901 SITE 2 AC2 7 HOH A1008 HOH A1284 2DA P 822 SITE 1 AC3 6 ASP A 5 HOH A1067 HOH A1145 HOH A1508 SITE 2 AC3 6 HOH A1524 HOH A1525 SITE 1 AC4 6 HOH T1221 HOH T1222 HOH T1257 HOH T1487 SITE 2 AC4 6 HOH T1488 HOH T1489 SITE 1 AC5 5 LYS A 226 ARG A 229 HOH A1297 HOH A1550 SITE 2 AC5 5 HOH A1552 SITE 1 AC6 4 LYS A 184 ARG A 661 HOH A1103 HOH A1164 SITE 1 AC7 20 ARG A 429 ASP A 475 ALA A 476 SER A 477 SITE 2 AC7 20 GLY A 478 LEU A 479 GLU A 480 HIS A 506 SITE 3 AC7 20 ARG A 518 LYS A 522 TYR A 526 ASP A 654 SITE 4 AC7 20 MG A 901 MG A 902 HOH A1142 HOH A1284 SITE 5 AC7 20 HOH A1436 HOH A1531 2DA P 822 DA T 854 SITE 1 AC8 9 GLY A 40 LEU A 77 ASN A 78 ARG A 79 SITE 2 AC8 9 HOH A1042 ILE B 5 SER B 11 THR B 14 SITE 3 AC8 9 ASP B 15 SITE 1 AC9 6 ALA A 10 TYR A 64 MET A 107 LYS A 136 SITE 2 AC9 6 TRP A 160 HOH A1428 CRYST1 106.177 215.710 52.155 90.00 90.00 90.00 P 21 21 2 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 0.009418 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004636 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019174 0.00000