PDB Short entry for 2IBS HEADER TRANSFERASE/DNA 12-SEP-06 2IBS TITLE CRYSTAL STRUCTURE OF THE ADENINE-SPECIFIC DNA METHYLTRANSFERASE M.TAQI TITLE 2 COMPLEXED WITH THE COFACTOR ANALOG AETA AND A 10 BP DNA CONTAINING 2- TITLE 3 AMINOPURINE AT THE TARGET POSITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*GP*TP*TP*CP*GP*(2PR)P*TP*GP*TP*C)-3'; COMPND 3 CHAIN: B, E; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(*GP*AP*CP*AP*TP*CP*GP*(6MA)P*AP*C)-3'; COMPND 7 CHAIN: C, F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: MODIFICATION METHYLASE TAQI; COMPND 11 CHAIN: A, D; COMPND 12 SYNONYM: ADENINE-SPECIFIC METHYLTRANSFERASE TAQI, M.TAQI; COMPND 13 EC: 2.1.1.72; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SOLID-PHASE DNA SYNTHESIS USING COMMERCIALLY SOURCE 4 AVAILABLE PHOSPHORAMIDITES; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: SOLID-PHASE DNA SYNTHESIS USING COMMERCIALLY SOURCE 8 AVAILABLE PHOSPHORAMIDITES; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: THERMUS AQUATICUS; SOURCE 11 ORGANISM_TAXID: 271; SOURCE 12 STRAIN: YT1; SOURCE 13 GENE: TAQIM; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: ER2267; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PA1/MTAQ-A49A KEYWDS DNA, DNA METHYLTRANSFERASE, 2-AMINOPURINE, BASE FLIPPING, NUCLEOTIDE KEYWDS 2 FLIPPING, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR G.PLJEVALJCIC,T.LENZ,A.J.SCHEIDIG,E.WEINHOLD REVDAT 4 25-OCT-23 2IBS 1 REMARK LINK REVDAT 3 18-OCT-17 2IBS 1 REMARK REVDAT 2 24-FEB-09 2IBS 1 VERSN REVDAT 1 29-MAY-07 2IBS 0 JRNL AUTH T.LENZ,E.Y.M.BONNIST,G.PLJEVALJCIC,R.K.NEELY,D.T.F.DRYDEN, JRNL AUTH 2 A.J.SCHEIDIG,A.C.JONES,E.WEINHOLD JRNL TITL 2-AMINOPURINE FLIPPED INTO THE ACTIVE SITE OF THE JRNL TITL 2 ADENINE-SPECIFIC DNA METHYLTRANSFERASE M.TAQI: CRYSTAL JRNL TITL 3 STRUCTURES AND TIME-RESOLVED FLUORESCENCE JRNL REF J.AM.CHEM.SOC. V. 129 6240 2007 JRNL REFN ISSN 0002-7863 JRNL PMID 17455934 JRNL DOI 10.1021/JA069366N REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.GOEDECKE,M.PIGNOT,R.S.GOODY,A.J.SCHEIDIG,E.WEINHOLD REMARK 1 TITL STRUCTURE OF THE N6-ADENINE DNA METHYLTRANSFERASE M.TAQI IN REMARK 1 TITL 2 COMPLEX WITH DNA AND A COFACTOR ANALOG REMARK 1 REF NAT.STRUCT.BIOL. V. 8 121 2001 REMARK 1 REFN ISSN 1072-8368 REMARK 1 PMID 11175890 REMARK 1 DOI 10.1038/84104 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.SCHLUCKEBIER,M.KOZAK,N.BLEIMLING,E.WEINHOLD,W.SAENGER REMARK 1 TITL DIFFERENTIAL BINDING OF S-ADENOSYLMETHIONINE REMARK 1 TITL 2 S-ADENOSYLHOMOCYSTEINE AND SINEFUNGIN TO THE REMARK 1 TITL 3 ADENINE-SPECIFIC DNA METHYLTRANSFERASE M.TAQI REMARK 1 REF J.MOL.BIOL. V. 265 56 1997 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 8995524 REMARK 1 DOI 10.1006/JMBI.1996.0711 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 36299 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1812 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.47 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2497 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.3430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6378 REMARK 3 NUCLEIC ACID ATOMS : 810 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 759 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : -0.02000 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): 0.856 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.297 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.212 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.906 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.929 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.886 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7549 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10422 ; 0.982 ; 2.108 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 786 ; 4.947 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 298 ;31.931 ;22.215 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1082 ;13.966 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 54 ;12.194 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1101 ; 0.058 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5520 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3284 ; 0.145 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4853 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 727 ; 0.078 ; 0.200 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): 75 ; 0.121 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 39 ; 0.062 ; 0.200 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): 4072 ; 0.217 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6358 ; 0.387 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4319 ; 0.366 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4063 ; 0.642 ; 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 : 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 2IBS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039387. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-FEB-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9340 REMARK 200 MONOCHROMATOR : MIRROR REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36299 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 19.670 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.690 REMARK 200 R MERGE (I) : 0.11500 REMARK 200 R SYM (I) : 0.11500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.3300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.33400 REMARK 200 R SYM FOR SHELL (I) : 0.33400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.630 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS 1.0 REMARK 200 STARTING MODEL: PDB ENTRY 1G38 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3 MICROLITERS CRYSTALLIZATION BUFFER REMARK 280 (10MM TRIS/HCL, 300MM NACL, PH 7.3) CONTAINING THE COMPLEX PLUS REMARK 280 1 MICROLITER RESERVOIR SOLUTION (100MM KCL, 100MM MGCL2, 6% REMARK 280 ISOPROPANOL, 50MM SODIUM CACODYLATE, PH 6.0), VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 34.58000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: THE ASYMMETRIC UNIT CONTAINS TWO INDEPENDENT BIOLOGICAL REMARK 300 ASSEMBLIES, EACH CONSISTING OF M.TAQI, DNA AND COFACTOR ANALOG AETA. 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 APPLY THE FOLLOWING TO CHAINS: B, C, A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F, 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 MET A 1 REMARK 465 GLY A 2 REMARK 465 LEU A 3 REMARK 465 PRO A 4 REMARK 465 PRO A 5 REMARK 465 LEU A 6 REMARK 465 LEU A 7 REMARK 465 SER A 8 REMARK 465 LEU A 9 REMARK 465 PRO A 10 REMARK 465 SER A 11 REMARK 465 ASN A 12 REMARK 465 SER A 13 REMARK 465 ALA A 14 REMARK 465 PRO A 15 REMARK 465 ARG A 16 REMARK 465 SER A 17 REMARK 465 LEU A 18 REMARK 465 GLY A 19 REMARK 465 ARG A 20 REMARK 465 SER A 414 REMARK 465 PRO A 415 REMARK 465 GLU A 416 REMARK 465 SER A 417 REMARK 465 ALA A 418 REMARK 465 ARG A 419 REMARK 465 ASN A 420 REMARK 465 PHE A 421 REMARK 465 MET D 1 REMARK 465 GLY D 2 REMARK 465 LEU D 3 REMARK 465 PRO D 4 REMARK 465 PRO D 5 REMARK 465 LEU D 6 REMARK 465 LEU D 7 REMARK 465 SER D 8 REMARK 465 LEU D 9 REMARK 465 PRO D 10 REMARK 465 SER D 11 REMARK 465 ASN D 12 REMARK 465 SER D 13 REMARK 465 ALA D 14 REMARK 465 PRO D 15 REMARK 465 ARG D 16 REMARK 465 SER D 17 REMARK 465 LEU D 18 REMARK 465 GLY D 19 REMARK 465 ARG D 20 REMARK 465 SER D 414 REMARK 465 PRO D 415 REMARK 465 GLU D 416 REMARK 465 SER D 417 REMARK 465 ALA D 418 REMARK 465 ARG D 419 REMARK 465 ASN D 420 REMARK 465 PHE D 421 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 C 13 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC C 20 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DC F 13 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DC F 20 O4' - C1' - N1 ANGL. DEV. = 2.7 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 ALA A 49 -109.16 55.77 REMARK 500 ASP A 78 71.41 -150.59 REMARK 500 TYR A 140 -168.45 56.62 REMARK 500 GLN A 198 28.51 46.61 REMARK 500 PRO A 300 101.79 -59.76 REMARK 500 THR A 336 65.40 -117.59 REMARK 500 ALA A 349 81.08 67.21 REMARK 500 GLU A 355 164.49 82.39 REMARK 500 ARG A 389 -121.59 44.76 REMARK 500 PRO A 393 32.74 -80.75 REMARK 500 ALA D 49 -108.75 55.06 REMARK 500 ASP D 78 70.48 -152.18 REMARK 500 TYR D 140 -166.35 58.83 REMARK 500 GLN D 198 3.80 58.16 REMARK 500 SER D 223 -168.84 -122.24 REMARK 500 THR D 294 -167.97 -123.34 REMARK 500 THR D 336 70.20 -118.32 REMARK 500 ALA D 349 66.16 66.13 REMARK 500 GLU D 355 165.16 82.37 REMARK 500 ARG D 389 -116.02 45.15 REMARK 500 PRO D 393 35.19 -78.33 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 NEA A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NEA D 1002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1G38 RELATED DB: PDB REMARK 900 ADENINE-SPECIFIC DNA METHYLTRANSFERASE M.TAQI/DNA/AETA COMPLEX REMARK 900 RELATED ID: 2ADM RELATED DB: PDB REMARK 900 ADENINE-SPECIFIC DNA METHYLTRANSFERASE M.TAQI/SAM COMPLEX REMARK 900 RELATED ID: 1AQI RELATED DB: PDB REMARK 900 ADENINE-SPECIFIC DNA METHYLTRANSFERASE M.TAQI/SAH COMPLEX REMARK 900 RELATED ID: 1AQJ RELATED DB: PDB REMARK 900 ADENINE-SPECIFIC DNA METHYLTRANSFERASE M.TAQI/SINEFUNGIN COMPLEX REMARK 900 RELATED ID: 2IBT RELATED DB: PDB REMARK 900 ADENINE-SPECIFIC DNA METHYLTRANSFERASE M.TAQI/DNA/AETA COMPLEX DBREF 2IBS A 1 421 UNP P14385 MTTA_THEAQ 1 421 DBREF 2IBS D 1 421 UNP P14385 MTTA_THEAQ 1 421 DBREF 2IBS B 1 10 PDB 2IBS 2IBS 1 10 DBREF 2IBS C 11 20 PDB 2IBS 2IBS 11 20 DBREF 2IBS E 1 10 PDB 2IBS 2IBS 1 10 DBREF 2IBS F 11 20 PDB 2IBS 2IBS 11 20 SEQRES 1 B 10 DG DT DT DC DG 2PR DT DG DT DC SEQRES 1 C 10 DG DA DC DA DT DC DG 6MA DA DC SEQRES 1 E 10 DG DT DT DC DG 2PR DT DG DT DC SEQRES 1 F 10 DG DA DC DA DT DC DG 6MA DA DC SEQRES 1 A 421 MET GLY LEU PRO PRO LEU LEU SER LEU PRO SER ASN SER SEQRES 2 A 421 ALA PRO ARG SER LEU GLY ARG VAL GLU THR PRO PRO GLU SEQRES 3 A 421 VAL VAL ASP PHE MET VAL SER LEU ALA GLU ALA PRO ARG SEQRES 4 A 421 GLY GLY ARG VAL LEU GLU PRO ALA CYS ALA HIS GLY PRO SEQRES 5 A 421 PHE LEU ARG ALA PHE ARG GLU ALA HIS GLY THR ALA TYR SEQRES 6 A 421 ARG PHE VAL GLY VAL GLU ILE ASP PRO LYS ALA LEU ASP SEQRES 7 A 421 LEU PRO PRO TRP ALA GLU GLY ILE LEU ALA ASP PHE LEU SEQRES 8 A 421 LEU TRP GLU PRO GLY GLU ALA PHE ASP LEU ILE LEU GLY SEQRES 9 A 421 ASN PRO PRO TYR GLY ILE VAL GLY GLU ALA SER LYS TYR SEQRES 10 A 421 PRO ILE HIS VAL PHE LYS ALA VAL LYS ASP LEU TYR LYS SEQRES 11 A 421 LYS ALA PHE SER THR TRP LYS GLY LYS TYR ASN LEU TYR SEQRES 12 A 421 GLY ALA PHE LEU GLU LYS ALA VAL ARG LEU LEU LYS PRO SEQRES 13 A 421 GLY GLY VAL LEU VAL PHE VAL VAL PRO ALA THR TRP LEU SEQRES 14 A 421 VAL LEU GLU ASP PHE ALA LEU LEU ARG GLU PHE LEU ALA SEQRES 15 A 421 ARG GLU GLY LYS THR SER VAL TYR TYR LEU GLY GLU VAL SEQRES 16 A 421 PHE PRO GLN LYS LYS VAL SER ALA VAL VAL ILE ARG PHE SEQRES 17 A 421 GLN LYS SER GLY LYS GLY LEU SER LEU TRP ASP THR GLN SEQRES 18 A 421 GLU SER GLU SER GLY PHE THR PRO ILE LEU TRP ALA GLU SEQRES 19 A 421 TYR PRO HIS TRP GLU GLY GLU ILE ILE ARG PHE GLU THR SEQRES 20 A 421 GLU GLU THR ARG LYS LEU GLU ILE SER GLY MET PRO LEU SEQRES 21 A 421 GLY ASP LEU PHE HIS ILE ARG PHE ALA ALA ARG SER PRO SEQRES 22 A 421 GLU PHE LYS LYS HIS PRO ALA VAL ARG LYS GLU PRO GLY SEQRES 23 A 421 PRO GLY LEU VAL PRO VAL LEU THR GLY ARG ASN LEU LYS SEQRES 24 A 421 PRO GLY TRP VAL ASP TYR GLU LYS ASN HIS SER GLY LEU SEQRES 25 A 421 TRP MET PRO LYS GLU ARG ALA LYS GLU LEU ARG ASP PHE SEQRES 26 A 421 TYR ALA THR PRO HIS LEU VAL VAL ALA HIS THR LYS GLY SEQRES 27 A 421 THR ARG VAL VAL ALA ALA TRP ASP GLU ARG ALA TYR PRO SEQRES 28 A 421 TRP ARG GLU GLU PHE HIS LEU LEU PRO LYS GLU GLY VAL SEQRES 29 A 421 ARG LEU ASP PRO SER SER LEU VAL GLN TRP LEU ASN SER SEQRES 30 A 421 GLU ALA MET GLN LYS HIS VAL ARG THR LEU TYR ARG ASP SEQRES 31 A 421 PHE VAL PRO HIS LEU THR LEU ARG MET LEU GLU ARG LEU SEQRES 32 A 421 PRO VAL ARG ARG GLU TYR GLY PHE HIS THR SER PRO GLU SEQRES 33 A 421 SER ALA ARG ASN PHE SEQRES 1 D 421 MET GLY LEU PRO PRO LEU LEU SER LEU PRO SER ASN SER SEQRES 2 D 421 ALA PRO ARG SER LEU GLY ARG VAL GLU THR PRO PRO GLU SEQRES 3 D 421 VAL VAL ASP PHE MET VAL SER LEU ALA GLU ALA PRO ARG SEQRES 4 D 421 GLY GLY ARG VAL LEU GLU PRO ALA CYS ALA HIS GLY PRO SEQRES 5 D 421 PHE LEU ARG ALA PHE ARG GLU ALA HIS GLY THR ALA TYR SEQRES 6 D 421 ARG PHE VAL GLY VAL GLU ILE ASP PRO LYS ALA LEU ASP SEQRES 7 D 421 LEU PRO PRO TRP ALA GLU GLY ILE LEU ALA ASP PHE LEU SEQRES 8 D 421 LEU TRP GLU PRO GLY GLU ALA PHE ASP LEU ILE LEU GLY SEQRES 9 D 421 ASN PRO PRO TYR GLY ILE VAL GLY GLU ALA SER LYS TYR SEQRES 10 D 421 PRO ILE HIS VAL PHE LYS ALA VAL LYS ASP LEU TYR LYS SEQRES 11 D 421 LYS ALA PHE SER THR TRP LYS GLY LYS TYR ASN LEU TYR SEQRES 12 D 421 GLY ALA PHE LEU GLU LYS ALA VAL ARG LEU LEU LYS PRO SEQRES 13 D 421 GLY GLY VAL LEU VAL PHE VAL VAL PRO ALA THR TRP LEU SEQRES 14 D 421 VAL LEU GLU ASP PHE ALA LEU LEU ARG GLU PHE LEU ALA SEQRES 15 D 421 ARG GLU GLY LYS THR SER VAL TYR TYR LEU GLY GLU VAL SEQRES 16 D 421 PHE PRO GLN LYS LYS VAL SER ALA VAL VAL ILE ARG PHE SEQRES 17 D 421 GLN LYS SER GLY LYS GLY LEU SER LEU TRP ASP THR GLN SEQRES 18 D 421 GLU SER GLU SER GLY PHE THR PRO ILE LEU TRP ALA GLU SEQRES 19 D 421 TYR PRO HIS TRP GLU GLY GLU ILE ILE ARG PHE GLU THR SEQRES 20 D 421 GLU GLU THR ARG LYS LEU GLU ILE SER GLY MET PRO LEU SEQRES 21 D 421 GLY ASP LEU PHE HIS ILE ARG PHE ALA ALA ARG SER PRO SEQRES 22 D 421 GLU PHE LYS LYS HIS PRO ALA VAL ARG LYS GLU PRO GLY SEQRES 23 D 421 PRO GLY LEU VAL PRO VAL LEU THR GLY ARG ASN LEU LYS SEQRES 24 D 421 PRO GLY TRP VAL ASP TYR GLU LYS ASN HIS SER GLY LEU SEQRES 25 D 421 TRP MET PRO LYS GLU ARG ALA LYS GLU LEU ARG ASP PHE SEQRES 26 D 421 TYR ALA THR PRO HIS LEU VAL VAL ALA HIS THR LYS GLY SEQRES 27 D 421 THR ARG VAL VAL ALA ALA TRP ASP GLU ARG ALA TYR PRO SEQRES 28 D 421 TRP ARG GLU GLU PHE HIS LEU LEU PRO LYS GLU GLY VAL SEQRES 29 D 421 ARG LEU ASP PRO SER SER LEU VAL GLN TRP LEU ASN SER SEQRES 30 D 421 GLU ALA MET GLN LYS HIS VAL ARG THR LEU TYR ARG ASP SEQRES 31 D 421 PHE VAL PRO HIS LEU THR LEU ARG MET LEU GLU ARG LEU SEQRES 32 D 421 PRO VAL ARG ARG GLU TYR GLY PHE HIS THR SER PRO GLU SEQRES 33 D 421 SER ALA ARG ASN PHE MODRES 2IBS 2PR B 6 DG MODRES 2IBS 6MA C 18 A MODRES 2IBS 2PR E 6 DG MODRES 2IBS 6MA F 18 A HET 2PR B 6 21 HET 6MA C 18 22 HET 2PR E 6 21 HET 6MA F 18 22 HET NEA A1001 22 HET NEA D1002 22 HETNAM 2PR 2-AMINO-9-[2-DEOXYRIBOFURANOSYL]-9H-PURINE-5'- HETNAM 2 2PR MONOPHOSPHATE HETNAM 6MA N6-METHYL-DEOXY-ADENOSINE-5'-MONOPHOSPHATE HETNAM NEA 5'-DEOXY-5'-[2-(AMINO)ETHYLTHIO]ADENOSINE HETSYN 2PR 2-AMINOPURINE-2'-DEOXYRIBO-5'-MONOPHOSPHATE FORMUL 1 2PR 2(C10 H14 N5 O6 P) FORMUL 2 6MA 2(C11 H16 N5 O6 P) FORMUL 7 NEA 2(C12 H18 N6 O3 S) FORMUL 9 HOH *759(H2 O) HELIX 1 1 PRO A 24 SER A 33 1 10 HELIX 2 2 GLY A 51 GLY A 62 1 12 HELIX 3 3 ASP A 89 TRP A 93 5 5 HELIX 4 4 PHE A 122 PHE A 133 1 12 HELIX 5 5 ASN A 141 LEU A 153 1 13 HELIX 6 6 THR A 167 VAL A 170 5 4 HELIX 7 7 LEU A 171 ASP A 173 5 3 HELIX 8 8 PHE A 174 GLY A 185 1 12 HELIX 9 9 THR A 247 ILE A 255 1 9 HELIX 10 10 LEU A 260 LEU A 263 1 4 HELIX 11 11 ARG A 271 HIS A 278 1 8 HELIX 12 12 GLU A 317 LEU A 322 5 6 HELIX 13 13 ARG A 323 THR A 328 5 6 HELIX 14 14 ASP A 367 SER A 377 1 11 HELIX 15 15 SER A 377 ARG A 389 1 13 HELIX 16 16 THR A 396 GLU A 401 1 6 HELIX 17 17 PRO D 24 ALA D 35 1 12 HELIX 18 18 GLY D 51 GLY D 62 1 12 HELIX 19 19 ASP D 89 TRP D 93 5 5 HELIX 20 20 PHE D 122 PHE D 133 1 12 HELIX 21 21 ASN D 141 LEU D 153 1 13 HELIX 22 22 THR D 167 VAL D 170 5 4 HELIX 23 23 LEU D 171 ASP D 173 5 3 HELIX 24 24 PHE D 174 GLY D 185 1 12 HELIX 25 25 THR D 247 GLY D 257 1 11 HELIX 26 26 LEU D 260 LEU D 263 1 4 HELIX 27 27 ARG D 271 LYS D 277 1 7 HELIX 28 28 THR D 294 ARG D 296 5 3 HELIX 29 29 GLU D 317 LEU D 322 5 6 HELIX 30 30 ARG D 323 THR D 328 5 6 HELIX 31 31 ASP D 367 ASN D 376 1 10 HELIX 32 32 SER D 377 ARG D 389 1 13 HELIX 33 33 THR D 396 GLU D 401 1 6 SHEET 1 A 9 ALA A 83 LEU A 87 0 SHEET 2 A 9 ARG A 66 GLU A 71 1 N GLY A 69 O GLU A 84 SHEET 3 A 9 ARG A 42 PRO A 46 1 N VAL A 43 O VAL A 68 SHEET 4 A 9 PHE A 99 GLY A 104 1 O LEU A 101 N LEU A 44 SHEET 5 A 9 LEU A 154 PRO A 165 1 O VAL A 159 N ASP A 100 SHEET 6 A 9 ALA A 203 GLN A 209 -1 O PHE A 208 N LEU A 160 SHEET 7 A 9 LYS A 186 GLY A 193 -1 N TYR A 190 O VAL A 205 SHEET 8 A 9 LEU A 215 SER A 223 1 O SER A 216 N VAL A 189 SHEET 9 A 9 GLY A 226 TYR A 235 -1 O ILE A 230 N ASP A 219 SHEET 1 B 2 MET A 258 PRO A 259 0 SHEET 2 B 2 PRO A 404 VAL A 405 -1 O VAL A 405 N MET A 258 SHEET 1 C 4 PHE A 264 PHE A 268 0 SHEET 2 C 4 PHE A 356 PRO A 360 -1 O LEU A 359 N HIS A 265 SHEET 3 C 4 HIS A 330 VAL A 333 -1 N VAL A 333 O PHE A 356 SHEET 4 C 4 ALA A 343 ASP A 346 -1 O ASP A 346 N HIS A 330 SHEET 1 D 2 LEU A 289 PRO A 291 0 SHEET 2 D 2 TRP A 313 PRO A 315 -1 O MET A 314 N VAL A 290 SHEET 1 E 2 LEU A 298 LYS A 299 0 SHEET 2 E 2 TRP A 302 VAL A 303 -1 O TRP A 302 N LYS A 299 SHEET 1 F 2 VAL A 364 LEU A 366 0 SHEET 2 F 2 GLY A 410 HIS A 412 -1 O PHE A 411 N ARG A 365 SHEET 1 G 9 ALA D 83 LEU D 87 0 SHEET 2 G 9 ARG D 66 GLU D 71 1 N GLY D 69 O GLU D 84 SHEET 3 G 9 ARG D 42 PRO D 46 1 N VAL D 43 O ARG D 66 SHEET 4 G 9 PHE D 99 GLY D 104 1 O LEU D 103 N LEU D 44 SHEET 5 G 9 LEU D 154 PRO D 165 1 O LYS D 155 N PHE D 99 SHEET 6 G 9 ALA D 203 GLN D 209 -1 O PHE D 208 N LEU D 160 SHEET 7 G 9 LYS D 186 GLY D 193 -1 N TYR D 190 O VAL D 205 SHEET 8 G 9 LEU D 215 GLU D 222 1 O TRP D 218 N VAL D 189 SHEET 9 G 9 PHE D 227 TYR D 235 -1 O ILE D 230 N ASP D 219 SHEET 1 H 2 MET D 258 PRO D 259 0 SHEET 2 H 2 PRO D 404 VAL D 405 -1 O VAL D 405 N MET D 258 SHEET 1 I 4 PHE D 264 PHE D 268 0 SHEET 2 I 4 PHE D 356 PRO D 360 -1 O LEU D 359 N HIS D 265 SHEET 3 I 4 HIS D 330 VAL D 333 -1 N VAL D 333 O PHE D 356 SHEET 4 I 4 ALA D 343 ASP D 346 -1 O ALA D 344 N VAL D 332 SHEET 1 J 2 LEU D 289 PRO D 291 0 SHEET 2 J 2 TRP D 313 PRO D 315 -1 O MET D 314 N VAL D 290 SHEET 1 K 2 LEU D 298 LYS D 299 0 SHEET 2 K 2 TRP D 302 VAL D 303 -1 O TRP D 302 N LYS D 299 SHEET 1 L 2 VAL D 364 LEU D 366 0 SHEET 2 L 2 GLY D 410 HIS D 412 -1 O PHE D 411 N ARG D 365 LINK O3' DG B 5 P 2PR B 6 1555 1555 1.60 LINK O3' 2PR B 6 P DT B 7 1555 1555 1.60 LINK O3' DG C 17 P 6MA C 18 1555 1555 1.60 LINK O3' 6MA C 18 P DA C 19 1555 1555 1.60 LINK O3' DG E 5 P 2PR E 6 1555 1555 1.60 LINK O3' 2PR E 6 P DT E 7 1555 1555 1.60 LINK O3' DG F 17 P 6MA F 18 1555 1555 1.60 LINK O3' 6MA F 18 P DA F 19 1555 1555 1.61 SITE 1 AC1 14 VAL A 21 ALA A 47 GLU A 71 ILE A 72 SITE 2 AC1 14 ALA A 88 ASP A 89 PHE A 90 ASN A 105 SITE 3 AC1 14 PRO A 107 HOH A1088 HOH A1114 HOH A1115 SITE 4 AC1 14 HOH A1135 HOH A1246 SITE 1 AC2 15 VAL D 21 ALA D 47 GLU D 71 ILE D 72 SITE 2 AC2 15 ASP D 73 ALA D 88 ASP D 89 PHE D 90 SITE 3 AC2 15 ASN D 105 PRO D 107 PHE D 146 HOH D1074 SITE 4 AC2 15 HOH D1170 HOH D1186 HOH D1198 CRYST1 59.530 69.160 114.640 90.00 92.18 90.00 P 1 21 1 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 0.016798 0.000000 0.000639 0.00000 SCALE2 0.000000 0.014459 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008729 0.00000