HEADER TRANSFERASE 15-SEP-06 2IDO TITLE STRUCTURE OF THE E. COLI POL III EPSILON-HOT PROOFREADING COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE III EPSILON SUBUNIT; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: EXONUCLEASE DOMAIN; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: HOT PROTEIN; COMPND 9 CHAIN: B, D; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: DNAQ, MUTD; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: POXO4; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE; SOURCE 12 ORGANISM_TAXID: 10678; SOURCE 13 STRAIN: P1; SOURCE 14 GENE: HOT; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BLR(DE3); SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PET30A KEYWDS POLYMERASE, EXONUCLEASE, HOT, EPSILON, POL III, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR T.W.KIRBY,S.HARVEY,E.F.DEROSE,S.CHALOV,A.K.CHIKOVA,F.W.PERRINO, AUTHOR 2 R.M.SCHAAPER,R.E.LONDON,L.C.PEDERSEN REVDAT 5 30-AUG-23 2IDO 1 REMARK LINK REVDAT 4 13-JUL-11 2IDO 1 VERSN REVDAT 3 24-FEB-09 2IDO 1 VERSN REVDAT 2 06-FEB-07 2IDO 1 JRNL REVDAT 1 14-NOV-06 2IDO 0 JRNL AUTH T.W.KIRBY,S.HARVEY,E.F.DEROSE,S.CHALOV,A.K.CHIKOVA, JRNL AUTH 2 F.W.PERRINO,R.M.SCHAAPER,R.E.LONDON,L.C.PEDERSEN JRNL TITL STRUCTURE OF THE ESCHERICHIA COLI DNA POLYMERASE III JRNL TITL 2 EPSILON-HOT PROOFREADING COMPLEX. JRNL REF J.BIOL.CHEM. V. 281 38466 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16973612 JRNL DOI 10.1074/JBC.M606917200 REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 282736.610 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.6 REMARK 3 NUMBER OF REFLECTIONS : 35297 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3522 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4150 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE : 0.3160 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 458 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3959 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 51 REMARK 3 SOLVENT ATOMS : 429 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.23000 REMARK 3 B22 (A**2) : -0.23000 REMARK 3 B33 (A**2) : 0.47000 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) : 0.25 REMARK 3 ESD FROM SIGMAA (A) : 0.21 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) : 0.31 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.27 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.690 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) : 1.360 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.140 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.000 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.940 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 40.01 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 : ALL.PARAM REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : ALL.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2IDO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039453. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JAN-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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 : MIRRORS REMARK 200 OPTICS : VARIMAX REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 92 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37506 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 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 (%) : 97.3 REMARK 200 DATA REDUNDANCY : 10.90 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : 0.08000 REMARK 200 FOR THE DATA SET : 17.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.6 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 0.32800 REMARK 200 R SYM FOR SHELL (I) : 0.32800 REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1J53 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS GROWN IN .1M TRIS, 5MM MNSO4, REMARK 280 5MM DTMP, AND 22% PEG6000, PH 8.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 106.48900 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.64450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.64450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 159.73350 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.64450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.64450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 53.24450 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.64450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.64450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 159.73350 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.64450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.64450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 53.24450 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 106.48900 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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH C2155 LIES ON A SPECIAL POSITION. 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 SER A 2 REMARK 465 THR A 3 REMARK 465 ALA A 4 REMARK 465 ILE A 5 REMARK 465 LYS A 158 REMARK 465 THR A 160 REMARK 465 GLY A 181 REMARK 465 GLN A 182 REMARK 465 THR A 183 REMARK 465 SER A 184 REMARK 465 MET A 185 REMARK 465 ALA A 186 REMARK 465 MET B 1 REMARK 465 LYS B 77 REMARK 465 ASP B 78 REMARK 465 ASP B 79 REMARK 465 ALA B 80 REMARK 465 VAL B 81 REMARK 465 LYS B 82 REMARK 465 LYS B 83 REMARK 465 MET C 1 REMARK 465 SER C 2 REMARK 465 THR C 3 REMARK 465 ALA C 4 REMARK 465 ILE C 5 REMARK 465 GLY C 181 REMARK 465 GLN C 182 REMARK 465 THR C 183 REMARK 465 SER C 184 REMARK 465 MET C 185 REMARK 465 ALA C 186 REMARK 465 LYS D 77 REMARK 465 ASP D 78 REMARK 465 ASP D 79 REMARK 465 ALA D 80 REMARK 465 VAL D 81 REMARK 465 LYS D 82 REMARK 465 LYS D 83 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 THR A 6 OG1 CG2 REMARK 470 ARG A 159 N CA O REMARK 470 ARG B 43 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 69 CG CD CE NZ REMARK 470 GLN B 76 CG CD OE1 NE2 REMARK 470 LYS C 158 CG CD CE NZ REMARK 470 ARG D 43 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 69 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER D 71 44.20 -84.39 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 MN A1001 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 12 OD1 REMARK 620 2 TMP A2001 O1P 161.5 REMARK 620 3 TMP A2001 O3P 96.5 65.0 REMARK 620 4 HOH A2003 O 81.2 100.3 94.5 REMARK 620 5 HOH A2016 O 87.3 111.2 176.1 87.0 REMARK 620 6 HOH A2081 O 87.7 90.2 86.6 169.0 92.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A1002 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 12 OD2 REMARK 620 2 GLU A 14 OE2 90.0 REMARK 620 3 ASP A 167 OD2 97.6 117.0 REMARK 620 4 TMP A2001 O3P 98.7 123.4 117.0 REMARK 620 5 HOH A2017 O 178.7 88.9 82.3 82.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN C1003 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 12 OD2 REMARK 620 2 GLU C 14 OE2 87.8 REMARK 620 3 ASP C 167 OD2 96.6 117.4 REMARK 620 4 TMP C2002 O3P 96.8 116.7 124.5 REMARK 620 5 HOH C2008 O 171.9 84.1 87.0 87.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN C1004 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 12 OD1 REMARK 620 2 TMP C2002 O1P 159.6 REMARK 620 3 TMP C2002 O3P 95.0 64.7 REMARK 620 4 HOH C2003 O 85.8 95.5 90.2 REMARK 620 5 HOH C2089 O 90.0 110.3 174.8 88.6 REMARK 620 6 HOH C2090 O 81.7 95.4 88.4 167.2 93.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN C1005 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 162 NE2 REMARK 620 2 HOH C2150 O 101.4 REMARK 620 3 HOH C2151 O 82.2 103.5 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN C 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN C 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN C 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TMP A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TMP C 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO C 1000 DBREF 2IDO A 1 186 UNP P03007 DPO3E_ECOLI 1 186 DBREF 2IDO C 1 186 UNP P03007 DPO3E_ECOLI 1 186 DBREF 2IDO B 1 83 UNP Q71T70 Q71T70_BPP1 5 87 DBREF 2IDO D 1 83 UNP Q71T70 Q71T70_BPP1 5 87 SEQRES 1 A 186 MET SER THR ALA ILE THR ARG GLN ILE VAL LEU ASP THR SEQRES 2 A 186 GLU THR THR GLY MET ASN GLN ILE GLY ALA HIS TYR GLU SEQRES 3 A 186 GLY HIS LYS ILE ILE GLU ILE GLY ALA VAL GLU VAL VAL SEQRES 4 A 186 ASN ARG ARG LEU THR GLY ASN ASN PHE HIS VAL TYR LEU SEQRES 5 A 186 LYS PRO ASP ARG LEU VAL ASP PRO GLU ALA PHE GLY VAL SEQRES 6 A 186 HIS GLY ILE ALA ASP GLU PHE LEU LEU ASP LYS PRO THR SEQRES 7 A 186 PHE ALA GLU VAL ALA ASP GLU PHE MET ASP TYR ILE ARG SEQRES 8 A 186 GLY ALA GLU LEU VAL ILE HIS ASN ALA ALA PHE ASP ILE SEQRES 9 A 186 GLY PHE MET ASP TYR GLU PHE SER LEU LEU LYS ARG ASP SEQRES 10 A 186 ILE PRO LYS THR ASN THR PHE CYS LYS VAL THR ASP SER SEQRES 11 A 186 LEU ALA VAL ALA ARG LYS MET PHE PRO GLY LYS ARG ASN SEQRES 12 A 186 SER LEU ASP ALA LEU CYS ALA ARG TYR GLU ILE ASP ASN SEQRES 13 A 186 SER LYS ARG THR LEU HIS GLY ALA LEU LEU ASP ALA GLN SEQRES 14 A 186 ILE LEU ALA GLU VAL TYR LEU ALA MET THR GLY GLY GLN SEQRES 15 A 186 THR SER MET ALA SEQRES 1 B 83 MET TYR ASP TRP ASN ILE ALA ALA LYS SER GLN GLU GLU SEQRES 2 B 83 ARG ASP LYS VAL ASN VAL ASP LEU ALA ALA SER GLY VAL SEQRES 3 B 83 ALA TYR LYS GLU ARG LEU ASN ILE PRO VAL ILE ALA GLU SEQRES 4 B 83 GLN VAL ALA ARG GLU GLN PRO GLU ASN LEU ARG THR TYR SEQRES 5 B 83 PHE MET GLU ARG LEU ARG HIS TYR ARG GLN LEU SER LEU SEQRES 6 B 83 GLN LEU PRO LYS GLY SER ASP PRO ALA TYR GLN LYS ASP SEQRES 7 B 83 ASP ALA VAL LYS LYS SEQRES 1 C 186 MET SER THR ALA ILE THR ARG GLN ILE VAL LEU ASP THR SEQRES 2 C 186 GLU THR THR GLY MET ASN GLN ILE GLY ALA HIS TYR GLU SEQRES 3 C 186 GLY HIS LYS ILE ILE GLU ILE GLY ALA VAL GLU VAL VAL SEQRES 4 C 186 ASN ARG ARG LEU THR GLY ASN ASN PHE HIS VAL TYR LEU SEQRES 5 C 186 LYS PRO ASP ARG LEU VAL ASP PRO GLU ALA PHE GLY VAL SEQRES 6 C 186 HIS GLY ILE ALA ASP GLU PHE LEU LEU ASP LYS PRO THR SEQRES 7 C 186 PHE ALA GLU VAL ALA ASP GLU PHE MET ASP TYR ILE ARG SEQRES 8 C 186 GLY ALA GLU LEU VAL ILE HIS ASN ALA ALA PHE ASP ILE SEQRES 9 C 186 GLY PHE MET ASP TYR GLU PHE SER LEU LEU LYS ARG ASP SEQRES 10 C 186 ILE PRO LYS THR ASN THR PHE CYS LYS VAL THR ASP SER SEQRES 11 C 186 LEU ALA VAL ALA ARG LYS MET PHE PRO GLY LYS ARG ASN SEQRES 12 C 186 SER LEU ASP ALA LEU CYS ALA ARG TYR GLU ILE ASP ASN SEQRES 13 C 186 SER LYS ARG THR LEU HIS GLY ALA LEU LEU ASP ALA GLN SEQRES 14 C 186 ILE LEU ALA GLU VAL TYR LEU ALA MET THR GLY GLY GLN SEQRES 15 C 186 THR SER MET ALA SEQRES 1 D 83 MET TYR ASP TRP ASN ILE ALA ALA LYS SER GLN GLU GLU SEQRES 2 D 83 ARG ASP LYS VAL ASN VAL ASP LEU ALA ALA SER GLY VAL SEQRES 3 D 83 ALA TYR LYS GLU ARG LEU ASN ILE PRO VAL ILE ALA GLU SEQRES 4 D 83 GLN VAL ALA ARG GLU GLN PRO GLU ASN LEU ARG THR TYR SEQRES 5 D 83 PHE MET GLU ARG LEU ARG HIS TYR ARG GLN LEU SER LEU SEQRES 6 D 83 GLN LEU PRO LYS GLY SER ASP PRO ALA TYR GLN LYS ASP SEQRES 7 D 83 ASP ALA VAL LYS LYS HET MN A1001 1 HET MN A1002 1 HET TMP A2001 21 HET MN C1003 1 HET MN C1004 1 HET MN C1005 1 HET TMP C2002 21 HET EDO C1000 4 HETNAM MN MANGANESE (II) ION HETNAM TMP THYMIDINE-5'-PHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 MN 5(MN 2+) FORMUL 7 TMP 2(C10 H15 N2 O8 P) FORMUL 12 EDO C2 H6 O2 FORMUL 13 HOH *429(H2 O) HELIX 1 1 ASP A 59 GLY A 67 1 9 HELIX 2 2 ALA A 69 LEU A 74 1 6 HELIX 3 3 THR A 78 ARG A 91 1 14 HELIX 4 4 ALA A 100 LEU A 114 1 15 HELIX 5 5 LYS A 120 PHE A 124 5 5 HELIX 6 6 SER A 130 PHE A 138 1 9 HELIX 7 7 SER A 144 TYR A 152 1 9 HELIX 8 8 GLY A 163 GLY A 180 1 18 HELIX 9 9 ASN B 5 LYS B 9 5 5 HELIX 10 10 SER B 10 ASN B 33 1 24 HELIX 11 11 ILE B 37 GLN B 45 1 9 HELIX 12 12 PRO B 46 ASN B 48 5 3 HELIX 13 13 LEU B 49 LEU B 65 1 17 HELIX 14 14 ASP B 72 GLN B 76 5 5 HELIX 15 15 ASP C 59 GLY C 67 1 9 HELIX 16 16 ALA C 69 LEU C 74 1 6 HELIX 17 17 THR C 78 ARG C 91 1 14 HELIX 18 18 ALA C 100 LEU C 114 1 15 HELIX 19 19 LYS C 120 PHE C 124 5 5 HELIX 20 20 SER C 130 PHE C 138 1 9 HELIX 21 21 SER C 144 TYR C 152 1 9 HELIX 22 22 HIS C 162 GLY C 180 1 19 HELIX 23 23 ASN D 5 LYS D 9 5 5 HELIX 24 24 SER D 10 LEU D 32 1 23 HELIX 25 25 ILE D 37 GLU D 44 1 8 HELIX 26 26 GLN D 45 ASN D 48 5 4 HELIX 27 27 LEU D 49 LEU D 65 1 17 HELIX 28 28 ASP D 72 GLN D 76 5 5 SHEET 1 A 3 ARG A 42 LEU A 43 0 SHEET 2 A 3 ILE A 30 VAL A 39 -1 N VAL A 39 O ARG A 42 SHEET 3 A 3 PHE A 48 TYR A 51 -1 O VAL A 50 N ILE A 33 SHEET 1 B 5 ARG A 42 LEU A 43 0 SHEET 2 B 5 ILE A 30 VAL A 39 -1 N VAL A 39 O ARG A 42 SHEET 3 B 5 GLN A 8 THR A 15 -1 N GLN A 8 O VAL A 38 SHEET 4 B 5 GLU A 94 ILE A 97 1 O GLU A 94 N ILE A 9 SHEET 5 B 5 LYS A 126 ASP A 129 1 O THR A 128 N LEU A 95 SHEET 1 C 3 ARG C 42 LEU C 43 0 SHEET 2 C 3 ILE C 30 VAL C 39 -1 N VAL C 39 O ARG C 42 SHEET 3 C 3 PHE C 48 TYR C 51 -1 O VAL C 50 N ILE C 33 SHEET 1 D 5 ARG C 42 LEU C 43 0 SHEET 2 D 5 ILE C 30 VAL C 39 -1 N VAL C 39 O ARG C 42 SHEET 3 D 5 GLN C 8 THR C 15 -1 N ASP C 12 O GLY C 34 SHEET 4 D 5 GLU C 94 ILE C 97 1 O GLU C 94 N ILE C 9 SHEET 5 D 5 LYS C 126 ASP C 129 1 O LYS C 126 N LEU C 95 LINK OD1 ASP A 12 MN MN A1001 1555 1555 2.06 LINK OD2 ASP A 12 MN MN A1002 1555 1555 2.23 LINK OE2 GLU A 14 MN MN A1002 1555 1555 2.12 LINK OD2 ASP A 167 MN MN A1002 1555 1555 2.10 LINK MN MN A1001 O1P TMP A2001 1555 1555 2.28 LINK MN MN A1001 O3P TMP A2001 1555 1555 2.40 LINK MN MN A1001 O HOH A2003 1555 1555 2.31 LINK MN MN A1001 O HOH A2016 1555 1555 2.24 LINK MN MN A1001 O HOH A2081 1555 1555 2.16 LINK MN MN A1002 O3P TMP A2001 1555 1555 1.96 LINK MN MN A1002 O HOH A2017 1555 1555 2.19 LINK OD2 ASP C 12 MN MN C1003 1555 1555 2.25 LINK OD1 ASP C 12 MN MN C1004 1555 1555 2.08 LINK OE2 GLU C 14 MN MN C1003 1555 1555 2.09 LINK NE2 HIS C 162 MN MN C1005 1555 1555 2.28 LINK OD2 ASP C 167 MN MN C1003 1555 1555 2.03 LINK MN MN C1003 O3P TMP C2002 1555 1555 1.98 LINK MN MN C1003 O HOH C2008 1555 1555 2.41 LINK MN MN C1004 O1P TMP C2002 1555 1555 2.37 LINK MN MN C1004 O3P TMP C2002 1555 1555 2.35 LINK MN MN C1004 O HOH C2003 1555 1555 2.16 LINK MN MN C1004 O HOH C2089 1555 1555 2.07 LINK MN MN C1004 O HOH C2090 1555 1555 2.20 LINK MN MN C1005 O HOH C2150 1555 1555 2.28 LINK MN MN C1005 O HOH C2151 1555 1555 2.62 SITE 1 AC1 5 ASP A 12 TMP A2001 HOH A2003 HOH A2016 SITE 2 AC1 5 HOH A2081 SITE 1 AC2 5 ASP A 12 GLU A 14 ASP A 167 TMP A2001 SITE 2 AC2 5 HOH A2017 SITE 1 AC3 5 ASP C 12 GLU C 14 ASP C 167 TMP C2002 SITE 2 AC3 5 HOH C2008 SITE 1 AC4 5 ASP C 12 TMP C2002 HOH C2003 HOH C2089 SITE 2 AC4 5 HOH C2090 SITE 1 AC5 4 HIS C 162 HOH C2149 HOH C2150 HOH C2151 SITE 1 AC6 14 ASP A 12 THR A 13 GLU A 14 THR A 15 SITE 2 AC6 14 MET A 18 GLU A 61 HIS A 66 PHE A 102 SITE 3 AC6 14 ASP A 167 MN A1001 MN A1002 HOH A2017 SITE 4 AC6 14 HOH A2051 HOH A2074 SITE 1 AC7 14 ASP C 12 THR C 13 GLU C 14 THR C 15 SITE 2 AC7 14 GLU C 61 HIS C 66 PHE C 102 ASP C 167 SITE 3 AC7 14 EDO C1000 MN C1003 MN C1004 HOH C2008 SITE 4 AC7 14 HOH C2027 HOH C2044 SITE 1 AC8 4 HIS C 98 TMP C2002 HOH C2019 HOH C2038 CRYST1 77.289 77.289 212.978 90.00 90.00 90.00 P 43 21 2 16 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 0.012938 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012938 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004695 0.00000