PDB Short entry for 4GON HEADER TRANSFERASE 20-AUG-12 4GON TITLE CRYSTAL STRUCTURE OF E. COLI DNA ADENINE METHYLTRANSFERASE IN COMPLEX TITLE 2 WITH INDOLE AZA-SAM COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA ADENINE METHYLASE; COMPND 3 CHAIN: D, E, F; COMPND 4 SYNONYM: DNA ADENINE METHYLTRANSFERASE, DEOXYADENOSYL- COMPND 5 METHYLTRANSFERASE, M.ECODAM; COMPND 6 EC: 2.1.1.72; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 GENE: B3387, DAM, JW3350; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET24D KEYWDS TRANSFERASE, METHYLATION EXPDTA X-RAY DIFFRACTION AUTHOR J.E.HARMER,P.L.ROACH REVDAT 2 28-FEB-24 4GON 1 REMARK REVDAT 1 26-FEB-14 4GON 0 JRNL AUTH J.E.HARMER,J.C.MCKELVIE,G.HOBLEY,P.L.ROACH JRNL TITL STRUCTURAL BASIS OF SELECTIVE N-6 ADENINE METHYLTRANSFERASE JRNL TITL 2 INHIBITION BY TRANSITION STATE MIMIC JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.72 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) : 2.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 36479 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) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1934 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) : 2.72 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2580 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2680 REMARK 3 BIN FREE R VALUE SET COUNT : 159 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6039 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 111 REMARK 3 SOLVENT ATOMS : 30 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.01000 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): 0.424 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.294 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.610 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6340 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8600 ; 1.931 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 722 ; 7.415 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 332 ;36.214 ;23.223 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1007 ;19.580 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 48 ;20.172 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 886 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4939 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3670 ; 1.183 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5895 ; 2.243 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2670 ; 2.835 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2705 ; 4.715 ; 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4GON COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1000074446. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-AUG-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.924530 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38865 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.712 REMARK 200 RESOLUTION RANGE LOW (A) : 35.897 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.71 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.73300 REMARK 200 R SYM FOR SHELL (I) : 0.73300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT 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 (%): 66.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES, 1600 MM AMMONIUM SULFATE, REMARK 280 14-18% GLYCEROL, PH 7.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 31.71133 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 63.42267 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 63.42267 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 31.71133 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: D, E, F 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: E 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: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: F 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 D 1 REMARK 465 LYS D 2 REMARK 465 SER D 188 REMARK 465 ALA D 189 REMARK 465 THR D 190 REMARK 465 ALA D 191 REMARK 465 ASN D 192 REMARK 465 PHE D 193 REMARK 465 THR D 194 REMARK 465 ALA D 195 REMARK 465 TYR D 196 REMARK 465 HIS D 197 REMARK 465 THR D 198 REMARK 465 VAL D 247 REMARK 465 ARG D 248 REMARK 465 ARG D 249 REMARK 465 SER D 250 REMARK 465 ILE D 251 REMARK 465 SER D 252 REMARK 465 SER D 253 REMARK 465 ASN D 254 REMARK 465 GLY D 255 REMARK 465 GLY D 256 REMARK 465 THR D 257 REMARK 465 ARG D 258 REMARK 465 LYS D 259 REMARK 465 LYS D 260 REMARK 465 GLY D 271 REMARK 465 VAL D 272 REMARK 465 VAL D 273 REMARK 465 SER D 274 REMARK 465 PRO D 275 REMARK 465 ALA D 276 REMARK 465 LYS D 277 REMARK 465 LYS D 278 REMARK 465 MET E 1 REMARK 465 LYS E 2 REMARK 465 SER E 188 REMARK 465 ALA E 189 REMARK 465 THR E 190 REMARK 465 ALA E 191 REMARK 465 ASN E 192 REMARK 465 PHE E 193 REMARK 465 THR E 194 REMARK 465 ALA E 195 REMARK 465 TYR E 196 REMARK 465 HIS E 197 REMARK 465 THR E 198 REMARK 465 ASN E 199 REMARK 465 ARG E 248 REMARK 465 ARG E 249 REMARK 465 SER E 250 REMARK 465 ILE E 251 REMARK 465 SER E 252 REMARK 465 SER E 253 REMARK 465 ASN E 254 REMARK 465 GLY E 255 REMARK 465 GLY E 256 REMARK 465 THR E 257 REMARK 465 ARG E 258 REMARK 465 LYS E 259 REMARK 465 GLY E 271 REMARK 465 VAL E 272 REMARK 465 VAL E 273 REMARK 465 SER E 274 REMARK 465 PRO E 275 REMARK 465 ALA E 276 REMARK 465 LYS E 277 REMARK 465 LYS E 278 REMARK 465 MET F 1 REMARK 465 LYS F 2 REMARK 465 SER F 188 REMARK 465 ALA F 189 REMARK 465 THR F 190 REMARK 465 ALA F 191 REMARK 465 ASN F 192 REMARK 465 PHE F 193 REMARK 465 THR F 194 REMARK 465 ALA F 195 REMARK 465 TYR F 196 REMARK 465 HIS F 197 REMARK 465 THR F 198 REMARK 465 ARG F 248 REMARK 465 ARG F 249 REMARK 465 SER F 250 REMARK 465 ILE F 251 REMARK 465 SER F 252 REMARK 465 SER F 253 REMARK 465 ASN F 254 REMARK 465 GLY F 255 REMARK 465 GLY F 256 REMARK 465 THR F 257 REMARK 465 ARG F 258 REMARK 465 LYS F 259 REMARK 465 LYS F 260 REMARK 465 GLY F 271 REMARK 465 VAL F 272 REMARK 465 VAL F 273 REMARK 465 SER F 274 REMARK 465 PRO F 275 REMARK 465 ALA F 276 REMARK 465 LYS F 277 REMARK 465 LYS F 278 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS F 14 CD CE NZ 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 GLU E 218 CG GLU E 218 CD 0.093 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 VAL D 36 CB - CA - C ANGL. DEV. = -11.7 DEGREES REMARK 500 ASP F 103 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG F 128 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 LEU F 148 CA - CB - CG ANGL. DEV. = 13.8 DEGREES REMARK 500 VAL F 217 CB - CA - C ANGL. DEV. = -11.5 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 PRO D 26 -177.20 -62.38 REMARK 500 ASP D 46 64.45 -119.52 REMARK 500 ARG D 69 53.93 -113.38 REMARK 500 GLU D 84 7.59 -63.73 REMARK 500 ASN D 86 57.45 -103.95 REMARK 500 ASN D 120 18.90 47.57 REMARK 500 SER D 200 171.33 -34.72 REMARK 500 HIS D 220 7.30 84.30 REMARK 500 ALA E 11 14.66 -65.78 REMARK 500 LYS E 14 42.93 -106.99 REMARK 500 PRO E 26 -172.84 -60.54 REMARK 500 TYR E 119 108.77 -44.46 REMARK 500 PHE E 135 152.59 -48.42 REMARK 500 ARG E 137 55.47 34.74 REMARK 500 LYS E 139 -74.90 -51.19 REMARK 500 PRO E 144 47.25 -84.95 REMARK 500 ASN E 227 -179.28 -171.47 REMARK 500 ASP E 262 178.50 -49.90 REMARK 500 ALA F 11 -71.17 85.80 REMARK 500 TYR F 15 -14.59 83.13 REMARK 500 ASP F 19 -73.95 108.72 REMARK 500 ASP F 54 147.22 -172.16 REMARK 500 PHE F 81 40.81 -109.05 REMARK 500 GLU F 84 -33.21 -31.15 REMARK 500 TYR F 138 150.03 -39.09 REMARK 500 LYS F 140 63.79 71.56 REMARK 500 SER F 200 -163.41 -129.61 REMARK 500 ASN F 227 -176.79 -172.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA E 11 GLY E 12 148.34 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 0Y1 D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0Y1 E 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0Y1 F 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4GBE RELATED DB: PDB REMARK 900 RELATED ID: 4GOL RELATED DB: PDB REMARK 900 RELATED ID: 4GOM RELATED DB: PDB REMARK 900 RELATED ID: 4GOO RELATED DB: PDB DBREF 4GON D 1 278 UNP P0AEE8 DMA_ECOLI 1 278 DBREF 4GON E 1 278 UNP P0AEE8 DMA_ECOLI 1 278 DBREF 4GON F 1 278 UNP P0AEE8 DMA_ECOLI 1 278 SEQRES 1 D 278 MET LYS LYS ASN ARG ALA PHE LEU LYS TRP ALA GLY GLY SEQRES 2 D 278 LYS TYR PRO LEU LEU ASP ASP ILE LYS ARG HIS LEU PRO SEQRES 3 D 278 LYS GLY GLU CYS LEU VAL GLU PRO PHE VAL GLY ALA GLY SEQRES 4 D 278 SER VAL PHE LEU ASN THR ASP PHE SER ARG TYR ILE LEU SEQRES 5 D 278 ALA ASP ILE ASN SER ASP LEU ILE SER LEU TYR ASN ILE SEQRES 6 D 278 VAL LYS MET ARG THR ASP GLU TYR VAL GLN ALA ALA ARG SEQRES 7 D 278 GLU LEU PHE VAL PRO GLU THR ASN CYS ALA GLU VAL TYR SEQRES 8 D 278 TYR GLN PHE ARG GLU GLU PHE ASN LYS SER GLN ASP PRO SEQRES 9 D 278 PHE ARG ARG ALA VAL LEU PHE LEU TYR LEU ASN ARG TYR SEQRES 10 D 278 GLY TYR ASN GLY LEU CYS ARG TYR ASN LEU ARG GLY GLU SEQRES 11 D 278 PHE ASN VAL PRO PHE GLY ARG TYR LYS LYS PRO TYR PHE SEQRES 12 D 278 PRO GLU ALA GLU LEU TYR HIS PHE ALA GLU LYS ALA GLN SEQRES 13 D 278 ASN ALA PHE PHE TYR CYS GLU SER TYR ALA ASP SER MET SEQRES 14 D 278 ALA ARG ALA ASP ASP ALA SER VAL VAL TYR CYS ASP PRO SEQRES 15 D 278 PRO TYR ALA PRO LEU SER ALA THR ALA ASN PHE THR ALA SEQRES 16 D 278 TYR HIS THR ASN SER PHE THR LEU GLU GLN GLN ALA HIS SEQRES 17 D 278 LEU ALA GLU ILE ALA GLU GLY LEU VAL GLU ARG HIS ILE SEQRES 18 D 278 PRO VAL LEU ILE SER ASN HIS ASP THR MET LEU THR ARG SEQRES 19 D 278 GLU TRP TYR GLN ARG ALA LYS LEU HIS VAL VAL LYS VAL SEQRES 20 D 278 ARG ARG SER ILE SER SER ASN GLY GLY THR ARG LYS LYS SEQRES 21 D 278 VAL ASP GLU LEU LEU ALA LEU TYR LYS PRO GLY VAL VAL SEQRES 22 D 278 SER PRO ALA LYS LYS SEQRES 1 E 278 MET LYS LYS ASN ARG ALA PHE LEU LYS TRP ALA GLY GLY SEQRES 2 E 278 LYS TYR PRO LEU LEU ASP ASP ILE LYS ARG HIS LEU PRO SEQRES 3 E 278 LYS GLY GLU CYS LEU VAL GLU PRO PHE VAL GLY ALA GLY SEQRES 4 E 278 SER VAL PHE LEU ASN THR ASP PHE SER ARG TYR ILE LEU SEQRES 5 E 278 ALA ASP ILE ASN SER ASP LEU ILE SER LEU TYR ASN ILE SEQRES 6 E 278 VAL LYS MET ARG THR ASP GLU TYR VAL GLN ALA ALA ARG SEQRES 7 E 278 GLU LEU PHE VAL PRO GLU THR ASN CYS ALA GLU VAL TYR SEQRES 8 E 278 TYR GLN PHE ARG GLU GLU PHE ASN LYS SER GLN ASP PRO SEQRES 9 E 278 PHE ARG ARG ALA VAL LEU PHE LEU TYR LEU ASN ARG TYR SEQRES 10 E 278 GLY TYR ASN GLY LEU CYS ARG TYR ASN LEU ARG GLY GLU SEQRES 11 E 278 PHE ASN VAL PRO PHE GLY ARG TYR LYS LYS PRO TYR PHE SEQRES 12 E 278 PRO GLU ALA GLU LEU TYR HIS PHE ALA GLU LYS ALA GLN SEQRES 13 E 278 ASN ALA PHE PHE TYR CYS GLU SER TYR ALA ASP SER MET SEQRES 14 E 278 ALA ARG ALA ASP ASP ALA SER VAL VAL TYR CYS ASP PRO SEQRES 15 E 278 PRO TYR ALA PRO LEU SER ALA THR ALA ASN PHE THR ALA SEQRES 16 E 278 TYR HIS THR ASN SER PHE THR LEU GLU GLN GLN ALA HIS SEQRES 17 E 278 LEU ALA GLU ILE ALA GLU GLY LEU VAL GLU ARG HIS ILE SEQRES 18 E 278 PRO VAL LEU ILE SER ASN HIS ASP THR MET LEU THR ARG SEQRES 19 E 278 GLU TRP TYR GLN ARG ALA LYS LEU HIS VAL VAL LYS VAL SEQRES 20 E 278 ARG ARG SER ILE SER SER ASN GLY GLY THR ARG LYS LYS SEQRES 21 E 278 VAL ASP GLU LEU LEU ALA LEU TYR LYS PRO GLY VAL VAL SEQRES 22 E 278 SER PRO ALA LYS LYS SEQRES 1 F 278 MET LYS LYS ASN ARG ALA PHE LEU LYS TRP ALA GLY GLY SEQRES 2 F 278 LYS TYR PRO LEU LEU ASP ASP ILE LYS ARG HIS LEU PRO SEQRES 3 F 278 LYS GLY GLU CYS LEU VAL GLU PRO PHE VAL GLY ALA GLY SEQRES 4 F 278 SER VAL PHE LEU ASN THR ASP PHE SER ARG TYR ILE LEU SEQRES 5 F 278 ALA ASP ILE ASN SER ASP LEU ILE SER LEU TYR ASN ILE SEQRES 6 F 278 VAL LYS MET ARG THR ASP GLU TYR VAL GLN ALA ALA ARG SEQRES 7 F 278 GLU LEU PHE VAL PRO GLU THR ASN CYS ALA GLU VAL TYR SEQRES 8 F 278 TYR GLN PHE ARG GLU GLU PHE ASN LYS SER GLN ASP PRO SEQRES 9 F 278 PHE ARG ARG ALA VAL LEU PHE LEU TYR LEU ASN ARG TYR SEQRES 10 F 278 GLY TYR ASN GLY LEU CYS ARG TYR ASN LEU ARG GLY GLU SEQRES 11 F 278 PHE ASN VAL PRO PHE GLY ARG TYR LYS LYS PRO TYR PHE SEQRES 12 F 278 PRO GLU ALA GLU LEU TYR HIS PHE ALA GLU LYS ALA GLN SEQRES 13 F 278 ASN ALA PHE PHE TYR CYS GLU SER TYR ALA ASP SER MET SEQRES 14 F 278 ALA ARG ALA ASP ASP ALA SER VAL VAL TYR CYS ASP PRO SEQRES 15 F 278 PRO TYR ALA PRO LEU SER ALA THR ALA ASN PHE THR ALA SEQRES 16 F 278 TYR HIS THR ASN SER PHE THR LEU GLU GLN GLN ALA HIS SEQRES 17 F 278 LEU ALA GLU ILE ALA GLU GLY LEU VAL GLU ARG HIS ILE SEQRES 18 F 278 PRO VAL LEU ILE SER ASN HIS ASP THR MET LEU THR ARG SEQRES 19 F 278 GLU TRP TYR GLN ARG ALA LYS LEU HIS VAL VAL LYS VAL SEQRES 20 F 278 ARG ARG SER ILE SER SER ASN GLY GLY THR ARG LYS LYS SEQRES 21 F 278 VAL ASP GLU LEU LEU ALA LEU TYR LYS PRO GLY VAL VAL SEQRES 22 F 278 SER PRO ALA LYS LYS HET 0Y1 D 301 37 HET 0Y1 E 301 37 HET 0Y1 F 301 37 HETNAM 0Y1 5'-{[(3S)-3-AMINO-3-CARBOXYPROPYL][2-(1H-INDOL-3-YL) HETNAM 2 0Y1 ETHYL]AMINO}-5'-DEOXYADENOSINE FORMUL 4 0Y1 3(C24 H30 N8 O5) FORMUL 7 HOH *30(H2 O) HELIX 1 1 LEU D 17 LEU D 25 1 9 HELIX 2 2 VAL D 41 THR D 45 5 5 HELIX 3 3 ASN D 56 ARG D 69 1 14 HELIX 4 4 ARG D 69 LEU D 80 1 12 HELIX 5 5 PHE D 81 ASN D 86 5 6 HELIX 6 6 CYS D 87 SER D 101 1 15 HELIX 7 7 ASP D 103 GLY D 118 1 16 HELIX 8 8 TYR D 119 LEU D 122 5 4 HELIX 9 9 PRO D 144 GLN D 156 1 13 HELIX 10 10 SER D 164 ALA D 170 1 7 HELIX 11 11 THR D 202 ARG D 219 1 18 HELIX 12 12 THR D 230 TYR D 237 1 8 HELIX 13 13 LEU E 17 LEU E 25 1 9 HELIX 14 14 GLY E 39 ASN E 44 1 6 HELIX 15 15 ASN E 56 ARG E 69 1 14 HELIX 16 16 ARG E 69 GLU E 79 1 11 HELIX 17 17 LEU E 80 ASN E 86 5 7 HELIX 18 18 CYS E 87 SER E 101 1 15 HELIX 19 19 ASP E 103 GLY E 118 1 16 HELIX 20 20 TYR E 119 LEU E 122 5 4 HELIX 21 21 PRO E 144 ALA E 155 1 12 HELIX 22 22 SER E 164 ARG E 171 1 8 HELIX 23 23 THR E 202 ARG E 219 1 18 HELIX 24 24 THR E 230 TYR E 237 1 8 HELIX 25 25 ASP F 19 LEU F 25 1 7 HELIX 26 26 VAL F 41 THR F 45 5 5 HELIX 27 27 ASN F 56 ARG F 69 1 14 HELIX 28 28 ARG F 69 GLU F 79 1 11 HELIX 29 29 LEU F 80 PHE F 81 5 2 HELIX 30 30 VAL F 82 ASN F 86 5 5 HELIX 31 31 CYS F 87 SER F 101 1 15 HELIX 32 32 ASP F 103 GLY F 118 1 16 HELIX 33 33 TYR F 119 LEU F 122 5 4 HELIX 34 34 PRO F 144 GLN F 156 1 13 HELIX 35 35 SER F 164 ARG F 171 1 8 HELIX 36 36 THR F 202 ARG F 219 1 18 HELIX 37 37 THR F 230 TYR F 237 1 8 SHEET 1 A 7 ALA D 158 CYS D 162 0 SHEET 2 A 7 ARG D 49 ASP D 54 1 N LEU D 52 O TYR D 161 SHEET 3 A 7 CYS D 30 GLU D 33 1 N LEU D 31 O ILE D 51 SHEET 4 A 7 SER D 176 CYS D 180 1 O VAL D 177 N VAL D 32 SHEET 5 A 7 VAL D 223 HIS D 228 1 O LEU D 224 N CYS D 180 SHEET 6 A 7 GLU D 263 TYR D 268 -1 O ALA D 266 N ILE D 225 SHEET 7 A 7 LYS D 241 VAL D 245 -1 N LYS D 241 O LEU D 267 SHEET 1 B 7 ALA E 158 CYS E 162 0 SHEET 2 B 7 ARG E 49 ASP E 54 1 N LEU E 52 O PHE E 159 SHEET 3 B 7 CYS E 30 GLU E 33 1 N GLU E 33 O ALA E 53 SHEET 4 B 7 SER E 176 CYS E 180 1 O VAL E 177 N VAL E 32 SHEET 5 B 7 VAL E 223 HIS E 228 1 O LEU E 224 N CYS E 180 SHEET 6 B 7 GLU E 263 TYR E 268 -1 O TYR E 268 N VAL E 223 SHEET 7 B 7 LYS E 241 VAL E 245 -1 N VAL E 245 O GLU E 263 SHEET 1 C 7 ALA F 158 TYR F 161 0 SHEET 2 C 7 ARG F 49 ALA F 53 1 N LEU F 52 O PHE F 159 SHEET 3 C 7 CYS F 30 GLU F 33 1 N GLU F 33 O ALA F 53 SHEET 4 C 7 SER F 176 CYS F 180 1 O VAL F 177 N VAL F 32 SHEET 5 C 7 VAL F 223 HIS F 228 1 O LEU F 224 N CYS F 180 SHEET 6 C 7 GLU F 263 TYR F 268 -1 O ALA F 266 N ILE F 225 SHEET 7 C 7 LYS F 241 VAL F 245 -1 N VAL F 245 O GLU F 263 SITE 1 AC1 13 LYS D 9 TRP D 10 PRO D 34 PHE D 35 SITE 2 AC1 13 GLY D 37 ASP D 54 ILE D 55 SER D 164 SITE 3 AC1 13 TYR D 165 ASP D 181 PRO D 182 PRO D 183 SITE 4 AC1 13 TYR D 184 SITE 1 AC2 10 PRO E 34 PHE E 35 ASP E 54 ILE E 55 SITE 2 AC2 10 GLY E 121 SER E 164 TYR E 165 ASP E 181 SITE 3 AC2 10 PRO E 182 TYR E 184 SITE 1 AC3 12 TRP F 10 PRO F 34 PHE F 35 ASP F 54 SITE 2 AC3 12 ILE F 55 GLY F 121 SER F 164 TYR F 165 SITE 3 AC3 12 ASP F 181 PRO F 182 PRO F 183 TYR F 184 CRYST1 161.315 161.315 95.134 90.00 90.00 120.00 P 31 2 1 18 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 0.006199 0.003579 0.000000 0.00000 SCALE2 0.000000 0.007158 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010511 0.00000