PDB Short entry for 1VRL HEADER HYDROLASE/DNA 08-MAR-05 1VRL TITLE MUTY ADENINE GLYCOSYLASE IN COMPLEX WITH DNA AND SOAKED ADENINE FREE TITLE 2 BASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*AP*AP*GP*AP*CP*(8OG)P*TP*GP*GP*AP*C)-3'; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(*TP*GP*TP*CP*CP*AP*(HPD)P*GP*TP*CP*T)-3'; COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: MUTY; COMPND 11 CHAIN: A; COMPND 12 EC: 3.2.2.-; COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: 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: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 7 ORGANISM_TAXID: 1422; SOURCE 8 GENE: MUTY; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS DNA REPAIR, DNA GLYCOSYLASE, 8-OXOGUANINE, PROTEIN-DNA COMPLEX, KEYWDS 2 HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.C.FROMME,A.BANERJEE,S.J.HUANG,G.L.VERDINE REVDAT 5 27-DEC-23 1VRL 1 REMARK LINK REVDAT 4 31-MAR-09 1VRL 1 ATOM CONECT REVDAT 3 24-FEB-09 1VRL 1 VERSN REVDAT 2 29-MAR-05 1VRL 1 HEADER REVDAT 1 22-MAR-05 1VRL 0 SPRSDE 22-MAR-05 1VRL 1RRT JRNL AUTH J.C.FROMME,A.BANERJEE,S.J.HUANG,G.L.VERDINE JRNL TITL STRUCTURAL BASIS FOR REMOVAL OF ADENINE MISPAIRED WITH JRNL TITL 2 8-OXOGUANINE BY MUTY ADENINE DNA GLYCOSYLASE JRNL REF NATURE V. 427 652 2004 JRNL REFN ISSN 0028-0836 JRNL PMID 14961129 JRNL DOI 10.1038/NATURE02306 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) : 33.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 324540.140 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 16009 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) : 0.229 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1190 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.59 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1305 REMARK 3 BIN R VALUE (WORKING SET) : 0.3090 REMARK 3 BIN FREE R VALUE : 0.3890 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 117 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.036 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2588 REMARK 3 NUCLEIC ACID ATOMS : 419 REMARK 3 HETEROGEN ATOMS : 19 REMARK 3 SOLVENT ATOMS : 55 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.15000 REMARK 3 B22 (A**2) : -0.74000 REMARK 3 B33 (A**2) : 1.89000 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) : 0.33 REMARK 3 ESD FROM SIGMAA (A) : 0.36 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) : 0.42 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.46 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.000 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) : 1.250 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.100 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 11.440; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 13.790; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 44.79 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_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : FS4_OXOG_HPD.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : WATER.TOP REMARK 3 TOPOLOGY FILE 5 : FS4_OXOG_HPD.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1VRL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-MAR-05. REMARK 100 THE DEPOSITION ID IS D_1000002089. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-MAY-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16721 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 (%) : NULL REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.7000 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.44800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS, PEG 8000, CALCIUM ACETATE, REMARK 280 ADENINE, 2-MERCAPTOETHANOL, PH 8.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K 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 18.98850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.81750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.86500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.81750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.98850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.86500 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: 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 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 DT C 12 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 ARG A 3 REMARK 465 GLU A 4 REMARK 465 THR A 5 REMARK 465 GLU A 6 REMARK 465 ARG A 7 REMARK 465 PHE A 8 REMARK 465 GLY A 275 REMARK 465 ALA A 276 REMARK 465 GLU A 288 REMARK 465 GLN A 289 REMARK 465 TYR A 290 REMARK 465 GLY A 291 REMARK 465 GLY A 361 REMARK 465 VAL A 362 REMARK 465 ARG A 363 REMARK 465 PRO A 364 REMARK 465 PRO A 365 REMARK 465 PRO A 366 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 DG C 13 P OP1 OP2 REMARK 470 ALA A 10 CB REMARK 470 GLU A 12 CG CD OE1 OE2 REMARK 470 ARG A 15 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 50 CD NE CZ NH1 NH2 REMARK 470 GLN A 60 CG CD OE1 NE2 REMARK 470 ASP A 63 CG OD1 OD2 REMARK 470 ARG A 64 CD NE CZ NH1 NH2 REMARK 470 GLU A 69 CG CD OE1 OE2 REMARK 470 ARG A 119 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 121 CD CE NZ REMARK 470 GLU A 140 CD OE1 OE2 REMARK 470 LYS A 163 CE NZ REMARK 470 SER A 165 OG REMARK 470 ARG A 169 CD NE CZ NH1 NH2 REMARK 470 GLN A 172 CG CD OE1 NE2 REMARK 470 GLU A 181 CB CG CD OE1 OE2 REMARK 470 ARG A 201 CD NE CZ NH1 NH2 REMARK 470 ARG A 202 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 207 CG CD1 CD2 REMARK 470 GLU A 219 CD OE1 OE2 REMARK 470 GLU A 223 CG CD OE1 OE2 REMARK 470 MET A 229 CG SD CE REMARK 470 LYS A 230 CG CD CE NZ REMARK 470 LYS A 231 CB CG CD CE NZ REMARK 470 THR A 232 CB OG1 CG2 REMARK 470 ALA A 233 CB REMARK 470 LYS A 235 CE NZ REMARK 470 GLN A 236 CD OE1 NE2 REMARK 470 ASP A 247 CG OD1 OD2 REMARK 470 GLU A 248 CB CG CD OE1 OE2 REMARK 470 SER A 258 OG REMARK 470 GLU A 272 CG CD OE1 OE2 REMARK 470 ASP A 274 CG OD1 OD2 REMARK 470 ASP A 277 CB CG OD1 OD2 REMARK 470 LYS A 279 CG CD CE NZ REMARK 470 GLU A 280 CG CD OE1 OE2 REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 GLN A 284 CD OE1 NE2 REMARK 470 VAL A 286 CG1 CG2 REMARK 470 LEU A 292 CB CG CD1 CD2 REMARK 470 GLN A 293 CB CG CD OE1 NE2 REMARK 470 VAL A 294 CB CG1 CG2 REMARK 470 GLU A 295 CG CD OE1 OE2 REMARK 470 THR A 297 OG1 CG2 REMARK 470 GLU A 298 CB CG CD OE1 OE2 REMARK 470 ILE A 300 CB CG1 CG2 CD1 REMARK 470 VAL A 301 CG1 CG2 REMARK 470 GLN A 313 CG CD OE1 NE2 REMARK 470 VAL A 316 CG1 CG2 REMARK 470 ARG A 320 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 322 CG1 CG2 REMARK 470 GLU A 328 CG CD OE1 OE2 REMARK 470 GLU A 329 CB CG CD OE1 OE2 REMARK 470 LYS A 340 CD CE NZ REMARK 470 LYS A 356 CG CD CE NZ REMARK 470 SER A 360 OG 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 TRP A 30 2.30 -68.35 REMARK 500 PRO A 139 19.39 -62.55 REMARK 500 ASN A 144 -161.58 -124.00 REMARK 500 VAL A 197 -67.90 -125.11 REMARK 500 ALA A 212 -83.52 -41.09 REMARK 500 TYR A 213 7.43 -48.85 REMARK 500 ASP A 246 -167.44 -79.42 REMARK 500 LEU A 262 43.98 32.12 REMARK 500 PRO A 269 124.85 -38.38 REMARK 500 GLN A 293 58.36 123.91 REMARK 500 THR A 297 -159.71 -123.03 REMARK 500 HIS A 305 105.06 -175.80 REMARK 500 GLU A 328 -146.51 -113.79 REMARK 500 GLU A 329 -143.98 54.31 REMARK 500 ASP A 337 20.94 -79.73 REMARK 500 LYS A 340 -2.29 -58.53 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 B 1 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 CA A 367 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 118 O REMARK 620 2 SER A 118 OG 62.3 REMARK 620 3 VAL A 123 O 82.3 86.7 REMARK 620 4 HOH A 504 O 70.0 131.9 81.1 REMARK 620 5 HOH A 505 O 134.3 72.3 90.4 153.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 400 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 198 SG REMARK 620 2 SF4 A 400 S1 109.9 REMARK 620 3 SF4 A 400 S3 116.4 111.9 REMARK 620 4 SF4 A 400 S4 113.9 98.3 105.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 400 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 205 SG REMARK 620 2 SF4 A 400 S1 104.4 REMARK 620 3 SF4 A 400 S2 120.7 103.7 REMARK 620 4 SF4 A 400 S4 118.2 103.1 104.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 400 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 208 SG REMARK 620 2 SF4 A 400 S2 124.1 REMARK 620 3 SF4 A 400 S3 114.2 100.2 REMARK 620 4 SF4 A 400 S4 114.0 98.7 102.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 400 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 214 SG REMARK 620 2 SF4 A 400 S1 108.9 REMARK 620 3 SF4 A 400 S2 107.2 97.7 REMARK 620 4 SF4 A 400 S3 129.2 105.4 103.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 367 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADE A 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1RRQ RELATED DB: PDB REMARK 900 RELATED ID: 1RRS RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE OF THE PROTEIN HAS NOT YET REMARK 999 BEEN DEPOSITED IN ANY REFERENCE SEQUENCE REMARK 999 DATABASE. AUTHORS INFORMED THAT THE REMARK 999 FOLLOWING MUTATIONS ARE PRESENT IN THE REMARK 999 SEQUENCE: D144N, F347S, K357E. REMARK 999 RESIDUES -2 TO 0 ARE CLONING ARTIFACTS. DBREF 1VRL B 1 11 PDB 1VRL 1VRL 1 11 DBREF 1VRL C 12 22 PDB 1VRL 1VRL 12 22 DBREF 1VRL A 1 366 UNP P83847 P83847_BACST 1 366 SEQRES 1 B 11 DA DA DG DA DC 8OG DT DG DG DA DC SEQRES 1 C 11 DT DG DT DC DC DA HPD DG DT DC DT SEQRES 1 A 369 GLY SER HIS MET THR ARG GLU THR GLU ARG PHE PRO ALA SEQRES 2 A 369 ARG GLU PHE GLN ARG ASP LEU LEU ASP TRP PHE ALA ARG SEQRES 3 A 369 GLU ARG ARG ASP LEU PRO TRP ARG LYS ASP ARG ASP PRO SEQRES 4 A 369 TYR LYS VAL TRP VAL SER GLU VAL MET LEU GLN GLN THR SEQRES 5 A 369 ARG VAL GLU THR VAL ILE PRO TYR PHE GLU GLN PHE ILE SEQRES 6 A 369 ASP ARG PHE PRO THR LEU GLU ALA LEU ALA ASP ALA ASP SEQRES 7 A 369 GLU ASP GLU VAL LEU LYS ALA TRP GLU GLY LEU GLY TYR SEQRES 8 A 369 TYR SER ARG VAL ARG ASN LEU HIS ALA ALA VAL LYS GLU SEQRES 9 A 369 VAL LYS THR ARG TYR GLY GLY LYS VAL PRO ASP ASP PRO SEQRES 10 A 369 ASP GLU PHE SER ARG LEU LYS GLY VAL GLY PRO TYR THR SEQRES 11 A 369 VAL GLY ALA VAL LEU SER LEU ALA TYR GLY VAL PRO GLU SEQRES 12 A 369 PRO ALA VAL ASN GLY ASN VAL MET ARG VAL LEU SER ARG SEQRES 13 A 369 LEU PHE LEU VAL THR ASP ASP ILE ALA LYS PRO SER THR SEQRES 14 A 369 ARG LYS ARG PHE GLU GLN ILE VAL ARG GLU ILE MET ALA SEQRES 15 A 369 TYR GLU ASN PRO GLY ALA PHE ASN GLU ALA LEU ILE GLU SEQRES 16 A 369 LEU GLY ALA LEU VAL CYS THR PRO ARG ARG PRO SER CYS SEQRES 17 A 369 LEU LEU CYS PRO VAL GLN ALA TYR CYS GLN ALA PHE ALA SEQRES 18 A 369 GLU GLY VAL ALA GLU GLU LEU PRO VAL LYS MET LYS LYS SEQRES 19 A 369 THR ALA VAL LYS GLN VAL PRO LEU ALA VAL ALA VAL LEU SEQRES 20 A 369 ALA ASP ASP GLU GLY ARG VAL LEU ILE ARG LYS ARG ASP SEQRES 21 A 369 SER THR GLY LEU LEU ALA ASN LEU TRP GLU PHE PRO SER SEQRES 22 A 369 CYS GLU THR ASP GLY ALA ASP GLY LYS GLU LYS LEU GLU SEQRES 23 A 369 GLN MET VAL GLY GLU GLN TYR GLY LEU GLN VAL GLU LEU SEQRES 24 A 369 THR GLU PRO ILE VAL SER PHE GLU HIS ALA PHE SER HIS SEQRES 25 A 369 LEU VAL TRP GLN LEU THR VAL PHE PRO GLY ARG LEU VAL SEQRES 26 A 369 HIS GLY GLY PRO VAL GLU GLU PRO TYR ARG LEU ALA PRO SEQRES 27 A 369 GLU ASP GLU LEU LYS ALA TYR ALA PHE PRO VAL SER HIS SEQRES 28 A 369 GLN ARG VAL TRP ARG GLU TYR LYS GLU TRP ALA SER GLY SEQRES 29 A 369 VAL ARG PRO PRO PRO MODRES 1VRL 8OG B 6 DG HET 8OG B 6 23 HET HPD C 18 24 HET CA A 367 1 HET SF4 A 400 8 HET ADE A 500 10 HETNAM 8OG 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETNAM HPD 1-HYDROXY-PENTANE-3,4-DIOL-5-PHOSPHATE HETNAM CA CALCIUM ION HETNAM SF4 IRON/SULFUR CLUSTER HETNAM ADE ADENINE HETSYN 8OG 8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETSYN HPD OPEN FORM OF 2'-DEOXY-RIBOFURANOSE-5'-PHOSPHATE FORMUL 1 8OG C10 H14 N5 O8 P FORMUL 2 HPD C5 H13 O7 P FORMUL 4 CA CA 2+ FORMUL 5 SF4 FE4 S4 FORMUL 6 ADE C5 H5 N5 FORMUL 7 HOH *55(H2 O) HELIX 1 1 PRO A 9 ARG A 25 1 17 HELIX 2 2 LEU A 28 LYS A 32 5 5 HELIX 3 3 ASP A 35 LEU A 46 1 12 HELIX 4 4 ARG A 50 PHE A 65 1 16 HELIX 5 5 THR A 67 ALA A 74 1 8 HELIX 6 6 ASP A 75 GLU A 84 1 10 HELIX 7 7 TYR A 89 GLY A 107 1 19 HELIX 8 8 ASP A 113 ARG A 119 1 7 HELIX 9 9 GLY A 124 GLY A 137 1 14 HELIX 10 10 ASN A 144 PHE A 155 1 12 HELIX 11 11 LYS A 163 MET A 178 1 16 HELIX 12 12 ASN A 182 VAL A 197 1 16 HELIX 13 13 SER A 204 CYS A 208 5 5 HELIX 14 14 CYS A 214 GLU A 219 1 6 HELIX 15 15 VAL A 221 LEU A 225 5 5 HELIX 16 16 ASP A 277 VAL A 286 1 10 HELIX 17 17 ASP A 337 TYR A 342 5 6 HELIX 18 18 PRO A 345 ALA A 359 1 15 SHEET 1 A 4 SER A 270 GLU A 272 0 SHEET 2 A 4 LYS A 235 ALA A 245 -1 N ALA A 240 O CYS A 271 SHEET 3 A 4 LEU A 310 LEU A 321 1 O GLN A 313 N LEU A 239 SHEET 4 A 4 VAL A 294 LEU A 296 -1 N GLU A 295 O ARG A 320 SHEET 1 B 4 SER A 270 GLU A 272 0 SHEET 2 B 4 LYS A 235 ALA A 245 -1 N ALA A 240 O CYS A 271 SHEET 3 B 4 LEU A 310 LEU A 321 1 O GLN A 313 N LEU A 239 SHEET 4 B 4 VAL A 301 ALA A 306 -1 N VAL A 301 O VAL A 316 SHEET 1 C 3 TRP A 266 GLU A 267 0 SHEET 2 C 3 ARG A 250 LYS A 255 -1 N ARG A 254 O GLU A 267 SHEET 3 C 3 TYR A 331 PRO A 335 -1 O ALA A 334 N VAL A 251 LINK O3' DC B 5 P 8OG B 6 1555 1555 1.58 LINK O3' 8OG B 6 P DT B 7 1555 1555 1.58 LINK O3'A DA C 17 P AHPD C 18 1555 1555 1.61 LINK O3'B DA C 17 P BHPD C 18 1555 1555 1.61 LINK O3'AHPD C 18 P A DG C 19 1555 1555 1.61 LINK O3'BHPD C 18 P B DG C 19 1555 1555 1.60 LINK O SER A 118 CA CA A 367 1555 1555 2.53 LINK OG SER A 118 CA CA A 367 1555 1555 3.00 LINK O VAL A 123 CA CA A 367 1555 1555 2.69 LINK SG CYS A 198 FE2 SF4 A 400 1555 1555 2.41 LINK SG CYS A 205 FE3 SF4 A 400 1555 1555 2.39 LINK SG CYS A 208 FE1 SF4 A 400 1555 1555 2.54 LINK SG CYS A 214 FE4 SF4 A 400 1555 1555 2.52 LINK CA CA A 367 O HOH A 504 1555 1555 2.70 LINK CA CA A 367 O HOH A 505 1555 1555 2.74 CISPEP 1 LEU A 225 PRO A 226 0 -0.54 SITE 1 AC1 4 SER A 118 VAL A 123 HOH A 504 HOH A 505 SITE 1 AC2 7 ARG A 153 VAL A 197 CYS A 198 CYS A 205 SITE 2 AC2 7 CYS A 208 CYS A 214 ALA A 222 SITE 1 AC3 7 TRP A 30 ARG A 31 GLU A 43 LEU A 46 SITE 2 AC3 7 TYR A 126 GLU A 188 HPD C 18 CRYST1 37.977 85.730 141.635 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 0.026332 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011665 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007060 0.00000