PDB Short entry for 4RTQ HEADER TRANSFERASE/DNA 15-NOV-14 4RTQ TITLE COMPLEX OF ESCHERICHIA COLI DNA ADENINE METHYLTRANSFERASE (DAM) WITH TITLE 2 ADOHCY AND A 5-BP NON-CANONICAL SITE (GTTTA ) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA ADENINE METHYLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(*AP*CP*TP*TP*AP*AP*AP*CP*TP*TP*AP*A)-3'); COMPND 7 CHAIN: F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA (5'-D(*TP*TP*TP*AP*AP*GP*TP*TP*TP*AP*AP*G)-3'); COMPND 11 CHAIN: G; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 1110693; SOURCE 4 STRAIN: K-12 SUBSTR. MDS42; SOURCE 5 GENE: DAM, ECMDS42_2833; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HMS174(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 17 ORGANISM_TAXID: 32630 KEYWDS DAM METHYLATION, GATC RECOGNITION, BASE FLIPPING, BACTERIAL KEYWDS 2 VIRULENCE, METHYLATION-INDEPENDENT TRANSCRIPTIONAL REPRESSOR, KEYWDS 3 TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.R.HORTON,X.CHENG REVDAT 4 20-SEP-23 4RTQ 1 REMARK SEQADV REVDAT 3 20-MAY-15 4RTQ 1 JRNL REVDAT 2 22-APR-15 4RTQ 1 JRNL REVDAT 1 15-APR-15 4RTQ 0 JRNL AUTH J.R.HORTON,X.ZHANG,R.M.BLUMENTHAL,X.CHENG JRNL TITL STRUCTURES OF ESCHERICHIA COLI DNA ADENINE METHYLTRANSFERASE JRNL TITL 2 (DAM) IN COMPLEX WITH A NON-GATC SEQUENCE: POTENTIAL JRNL TITL 3 IMPLICATIONS FOR METHYLATION-INDEPENDENT TRANSCRIPTIONAL JRNL TITL 4 REPRESSION. JRNL REF NUCLEIC ACIDS RES. V. 43 4296 2015 JRNL REFN ISSN 0305-1048 JRNL PMID 25845600 JRNL DOI 10.1093/NAR/GKV251 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.02 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 26171 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 1320 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 30.0244 - 4.1508 0.99 2978 132 0.1502 0.1884 REMARK 3 2 4.1508 - 3.2960 1.00 2863 132 0.1406 0.1741 REMARK 3 3 3.2960 - 2.8797 1.00 2819 132 0.1766 0.2146 REMARK 3 4 2.8797 - 2.6166 1.00 2646 264 0.1886 0.2166 REMARK 3 5 2.6166 - 2.4291 1.00 2784 132 0.1775 0.1903 REMARK 3 6 2.4291 - 2.2860 1.00 2774 132 0.1675 0.2060 REMARK 3 7 2.2860 - 2.1715 0.99 2745 132 0.1705 0.1700 REMARK 3 8 2.1715 - 2.0770 0.99 2726 132 0.1615 0.2148 REMARK 3 9 2.0770 - 1.9970 0.92 2516 132 0.1678 0.1956 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.140 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.003 2600 REMARK 3 ANGLE : 0.760 3624 REMARK 3 CHIRALITY : 0.032 386 REMARK 3 PLANARITY : 0.004 390 REMARK 3 DIHEDRAL : 18.961 974 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 3:17 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.9495 -34.1413 152.8371 REMARK 3 T TENSOR REMARK 3 T11: 0.4913 T22: 0.4227 REMARK 3 T33: 0.3387 T12: -0.0176 REMARK 3 T13: 0.0606 T23: 0.0321 REMARK 3 L TENSOR REMARK 3 L11: 0.7105 L22: 2.3372 REMARK 3 L33: 1.1390 L12: 1.0242 REMARK 3 L13: -0.3658 L23: -1.2935 REMARK 3 S TENSOR REMARK 3 S11: -0.2269 S12: 0.7164 S13: 0.3115 REMARK 3 S21: -1.2305 S22: 0.2784 S23: -0.4155 REMARK 3 S31: -0.1030 S32: 0.0204 S33: -0.0968 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 18:126 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.3163 -33.6006 162.6568 REMARK 3 T TENSOR REMARK 3 T11: 0.1400 T22: 0.1644 REMARK 3 T33: 0.1733 T12: 0.0171 REMARK 3 T13: -0.0073 T23: -0.0150 REMARK 3 L TENSOR REMARK 3 L11: 1.0226 L22: 3.8734 REMARK 3 L33: 1.8192 L12: 0.3831 REMARK 3 L13: -0.0729 L23: -0.6178 REMARK 3 S TENSOR REMARK 3 S11: -0.0031 S12: 0.0629 S13: 0.0005 REMARK 3 S21: 0.1178 S22: 0.0314 S23: -0.2684 REMARK 3 S31: -0.0937 S32: 0.1553 S33: -0.0020 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 127:162 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.5552 -35.3639 162.7120 REMARK 3 T TENSOR REMARK 3 T11: 0.1513 T22: 0.1868 REMARK 3 T33: 0.1244 T12: 0.0210 REMARK 3 T13: -0.0109 T23: -0.0215 REMARK 3 L TENSOR REMARK 3 L11: 2.2990 L22: 5.0536 REMARK 3 L33: 1.8454 L12: 0.2117 REMARK 3 L13: 0.0574 L23: -0.0317 REMARK 3 S TENSOR REMARK 3 S11: 0.0269 S12: 0.0687 S13: -0.0826 REMARK 3 S21: 0.0101 S22: 0.0240 S23: -0.5735 REMARK 3 S31: -0.0457 S32: 0.2738 S33: -0.0443 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 163:272 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.2437 -21.5841 142.3975 REMARK 3 T TENSOR REMARK 3 T11: 0.4321 T22: 0.3076 REMARK 3 T33: 0.1921 T12: 0.0210 REMARK 3 T13: -0.0150 T23: 0.0458 REMARK 3 L TENSOR REMARK 3 L11: 4.3669 L22: 2.6641 REMARK 3 L33: 4.3888 L12: 0.2287 REMARK 3 L13: 0.1890 L23: -1.0957 REMARK 3 S TENSOR REMARK 3 S11: 0.0325 S12: 0.6231 S13: 0.1090 REMARK 3 S21: -0.6184 S22: 0.1020 S23: 0.1079 REMARK 3 S31: -0.1789 S32: -0.1484 S33: -0.1240 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN F AND RESID 2:12 ) REMARK 3 ORIGIN FOR THE GROUP (A): -44.7750 -49.2987 151.1822 REMARK 3 T TENSOR REMARK 3 T11: 0.2721 T22: 0.6156 REMARK 3 T33: 0.4304 T12: -0.0682 REMARK 3 T13: -0.0472 T23: -0.1886 REMARK 3 L TENSOR REMARK 3 L11: 6.8612 L22: 2.2237 REMARK 3 L33: 1.8974 L12: -0.1144 REMARK 3 L13: 1.6756 L23: -0.0761 REMARK 3 S TENSOR REMARK 3 S11: -0.7740 S12: 0.9789 S13: -0.5522 REMARK 3 S21: -0.1892 S22: 0.3439 S23: 0.4051 REMARK 3 S31: 0.0702 S32: -0.2425 S33: 0.1679 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN G AND RESID 1:12 ) REMARK 3 ORIGIN FOR THE GROUP (A): -46.8509 -49.5615 151.7553 REMARK 3 T TENSOR REMARK 3 T11: 0.2231 T22: 0.5979 REMARK 3 T33: 0.4108 T12: -0.0291 REMARK 3 T13: -0.0126 T23: -0.1390 REMARK 3 L TENSOR REMARK 3 L11: 2.6528 L22: 0.0046 REMARK 3 L33: 0.2765 L12: -0.1295 REMARK 3 L13: 0.8449 L23: -0.3313 REMARK 3 S TENSOR REMARK 3 S11: -0.4224 S12: 1.2305 S13: -0.3303 REMARK 3 S21: -0.0641 S22: 0.0400 S23: 0.1360 REMARK 3 S31: -0.0628 S32: 0.0115 S33: 0.3655 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4RTQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-NOV-14. REMARK 100 THE DEPOSITION ID IS D_1000087784. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26232 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.990 REMARK 200 RESOLUTION RANGE LOW (A) : 30.021 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : 0.22000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 9.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: GLRF REMARK 200 STARTING MODEL: PDB ENTRY 2G1P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28% PEG 4000, 80MM MAGNESIUM ACETATE, REMARK 280 50MM SODIUM CACODYLATE, PH 6.6, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 22.00450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.32100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.45900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.32100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.00450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.45900 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, F, G 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 LYS A 2 REMARK 465 THR A 190 REMARK 465 ALA A 191 REMARK 465 ASN A 192 REMARK 465 PHE A 193 REMARK 465 THR A 194 REMARK 465 ALA A 195 REMARK 465 TYR A 196 REMARK 465 HIS A 197 REMARK 465 THR A 198 REMARK 465 ASN A 199 REMARK 465 VAL A 247 REMARK 465 ARG A 248 REMARK 465 ARG A 249 REMARK 465 SER A 250 REMARK 465 ILE A 251 REMARK 465 SER A 252 REMARK 465 SER A 253 REMARK 465 ASN A 254 REMARK 465 GLY A 255 REMARK 465 GLY A 256 REMARK 465 THR A 257 REMARK 465 ARG A 258 REMARK 465 LYS A 259 REMARK 465 LYS A 260 REMARK 465 VAL A 273 REMARK 465 SER A 274 REMARK 465 PRO A 275 REMARK 465 ALA A 276 REMARK 465 LYS A 277 REMARK 465 LYS A 278 REMARK 465 DA F 1 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 LYS A 3 CG CD CE NZ REMARK 470 LYS A 14 CG CD CE NZ REMARK 470 GLU A 29 CG CD OE1 OE2 REMARK 470 SER A 188 OG REMARK 470 SER A 200 OG REMARK 470 MET A 231 CG SD CE REMARK 470 GLU A 235 CG CD OE1 OE2 REMARK 470 LYS A 241 CG CD CE NZ REMARK 470 LYS A 246 CG CD CE NZ REMARK 470 VAL A 261 CG1 CG2 REMARK 470 VAL A 272 CG1 CG2 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 DA G 10 O3' DA G 11 P -0.080 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 SAH A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO G 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2G1P RELATED DB: PDB REMARK 900 STRUCTURE OF E. COLI DNA ADENINE METHYLTRANSFERASE (DAM) WITH REMARK 900 COGNATE SEQUENCE REMARK 900 RELATED ID: 2ORE RELATED DB: PDB REMARK 900 BINARY STRUCTURE OF E.COLI DAM REMARK 900 RELATED ID: 4RTJ RELATED DB: PDB REMARK 900 RELATED ID: 4RTK RELATED DB: PDB REMARK 900 RELATED ID: 4RTL RELATED DB: PDB REMARK 900 RELATED ID: 4RTM RELATED DB: PDB REMARK 900 RELATED ID: 4RTN RELATED DB: PDB REMARK 900 RELATED ID: 4RTO RELATED DB: PDB REMARK 900 RELATED ID: 4RTP RELATED DB: PDB REMARK 900 RELATED ID: 4RTR RELATED DB: PDB REMARK 900 RELATED ID: 4RTS RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHOR STATES THAT RESIDUES 175 WERE MODELED AS SER INSTEAD OF ALA REMARK 999 BECAUSE OF EXTRA DENSITY. DBREF 4RTQ A 1 278 UNP H0Q7C9 H0Q7C9_ECOLI 1 278 DBREF 4RTQ F 1 12 PDB 4RTQ 4RTQ 1 12 DBREF 4RTQ G 1 12 PDB 4RTQ 4RTQ 1 12 SEQADV 4RTQ MET A -19 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ GLY A -18 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ SER A -17 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ SER A -16 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ HIS A -15 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ HIS A -14 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ HIS A -13 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ HIS A -12 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ HIS A -11 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ HIS A -10 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ SER A -9 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ SER A -8 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ GLY A -7 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ LEU A -6 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ VAL A -5 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ PRO A -4 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ ARG A -3 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ GLY A -2 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ SER A -1 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ HIS A 0 UNP H0Q7C9 EXPRESSION TAG SEQADV 4RTQ SER A 175 UNP H0Q7C9 ALA 175 SEE REMARK 999 SEQRES 1 A 298 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 298 LEU VAL PRO ARG GLY SER HIS MET LYS LYS ASN ARG ALA SEQRES 3 A 298 PHE LEU LYS TRP ALA GLY GLY LYS TYR PRO LEU LEU ASP SEQRES 4 A 298 ASP ILE LYS ARG HIS LEU PRO LYS GLY GLU CYS LEU VAL SEQRES 5 A 298 GLU PRO PHE VAL GLY ALA GLY SER VAL PHE LEU ASN THR SEQRES 6 A 298 ASP PHE SER ARG TYR ILE LEU ALA ASP ILE ASN SER ASP SEQRES 7 A 298 LEU ILE SER LEU TYR ASN ILE VAL LYS MET ARG THR ASP SEQRES 8 A 298 GLU TYR VAL GLN ALA ALA ARG GLU LEU PHE VAL PRO GLU SEQRES 9 A 298 THR ASN CYS ALA GLU VAL TYR TYR GLN PHE ARG GLU GLU SEQRES 10 A 298 PHE ASN LYS SER GLN ASP PRO PHE ARG ARG ALA VAL LEU SEQRES 11 A 298 PHE LEU TYR LEU ASN ARG TYR GLY TYR ASN GLY LEU CYS SEQRES 12 A 298 ARG TYR ASN LEU ARG GLY GLU PHE ASN VAL PRO PHE GLY SEQRES 13 A 298 ARG TYR LYS LYS PRO TYR PHE PRO GLU ALA GLU LEU TYR SEQRES 14 A 298 HIS PHE ALA GLU LYS ALA GLN ASN ALA PHE PHE TYR CYS SEQRES 15 A 298 GLU SER TYR ALA ASP SER MET ALA ARG ALA ASP ASP SER SEQRES 16 A 298 SER VAL VAL TYR CYS ASP PRO PRO TYR ALA PRO LEU SER SEQRES 17 A 298 ALA THR ALA ASN PHE THR ALA TYR HIS THR ASN SER PHE SEQRES 18 A 298 THR LEU GLU GLN GLN ALA HIS LEU ALA GLU ILE ALA GLU SEQRES 19 A 298 GLY LEU VAL GLU ARG HIS ILE PRO VAL LEU ILE SER ASN SEQRES 20 A 298 HIS ASP THR MET LEU THR ARG GLU TRP TYR GLN ARG ALA SEQRES 21 A 298 LYS LEU HIS VAL VAL LYS VAL ARG ARG SER ILE SER SER SEQRES 22 A 298 ASN GLY GLY THR ARG LYS LYS VAL ASP GLU LEU LEU ALA SEQRES 23 A 298 LEU TYR LYS PRO GLY VAL VAL SER PRO ALA LYS LYS SEQRES 1 F 12 DA DC DT DT DA DA DA DC DT DT DA DA SEQRES 1 G 12 DT DT DT DA DA DG DT DT DT DA DA DG HET SAH A 301 26 HET EDO G 101 4 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 4 SAH C14 H20 N6 O5 S FORMUL 5 EDO C2 H6 O2 FORMUL 6 HOH *228(H2 O) HELIX 1 1 LYS A 14 LEU A 25 1 12 HELIX 2 2 GLY A 39 ASN A 44 1 6 HELIX 3 3 ASN A 56 ARG A 69 1 14 HELIX 4 4 ARG A 69 GLU A 79 1 11 HELIX 5 5 LEU A 80 PHE A 81 5 2 HELIX 6 6 VAL A 82 ASN A 86 5 5 HELIX 7 7 CYS A 87 SER A 101 1 15 HELIX 8 8 ASP A 103 GLY A 118 1 16 HELIX 9 9 TYR A 119 LEU A 122 5 4 HELIX 10 10 PRO A 144 ALA A 155 1 12 HELIX 11 11 SER A 164 ALA A 170 1 7 HELIX 12 12 THR A 202 ARG A 219 1 18 HELIX 13 13 THR A 230 TYR A 237 1 8 SHEET 1 A 7 ALA A 158 CYS A 162 0 SHEET 2 A 7 ARG A 49 ASP A 54 1 N LEU A 52 O PHE A 159 SHEET 3 A 7 CYS A 30 GLU A 33 1 N GLU A 33 O ALA A 53 SHEET 4 A 7 SER A 176 CYS A 180 1 O VAL A 177 N VAL A 32 SHEET 5 A 7 VAL A 223 HIS A 228 1 O LEU A 224 N CYS A 180 SHEET 6 A 7 GLU A 263 TYR A 268 -1 O LEU A 264 N ASN A 227 SHEET 7 A 7 LYS A 241 VAL A 245 -1 N VAL A 245 O GLU A 263 SITE 1 AC1 18 TRP A 10 ALA A 11 GLY A 12 PRO A 34 SITE 2 AC1 18 PHE A 35 ASP A 54 ILE A 55 SER A 164 SITE 3 AC1 18 TYR A 165 ASP A 181 PRO A 182 PRO A 183 SITE 4 AC1 18 TYR A 184 HOH A 430 HOH A 433 HOH A 434 SITE 5 AC1 18 HOH A 485 HOH A 570 SITE 1 AC2 3 DA F 7 DA G 5 DG G 6 CRYST1 44.009 62.918 136.642 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.022723 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015894 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007318 0.00000