HEADER TRANSFERASE 30-APR-06 2GUI TITLE STRUCTURE AND FUNCTION OF CYCLIZED VERSIONS OF THE PROOFREADING TITLE 2 EXONUCLEASE SUBUNIT OF E. COLI DNA POLYMERASE III COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE III EPSILON SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL EXONUCLEASE DOMAIN, RESIDUES 2-186; COMPND 5 EC: 2.7.7.7; COMPND 6 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; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGL1182 KEYWDS DNA POLYMERASE PROOFREADING DOMAIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.Y.PARK,P.D.CARR,D.L.OLLIS,N.E.DIXON REVDAT 4 18-OCT-17 2GUI 1 REMARK REVDAT 3 02-JUN-10 2GUI 1 TITLE REVDAT 2 24-FEB-09 2GUI 1 VERSN REVDAT 1 13-MAR-07 2GUI 0 JRNL AUTH A.Y.PARK,P.D.CARR,D.L.OLIIS,N.E.DIXON JRNL TITL STRUCTURE AND FUNCTION OF CYCLIZED VERSIONS OF THE JRNL TITL 2 PROOFREADING EXONUCLEASE SUBUNIT E. COLI DNA POLYMERASE III JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 25755 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) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1366 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1837 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.02 REMARK 3 BIN R VALUE (WORKING SET) : 0.1950 REMARK 3 BIN FREE R VALUE SET COUNT : 96 REMARK 3 BIN FREE R VALUE : 0.2530 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1368 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 240 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.084 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.085 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.046 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.244 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1503 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2042 ; 1.372 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 189 ; 5.810 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 69 ;34.412 ;24.203 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 245 ;11.732 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;22.647 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 231 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1135 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 864 ; 0.206 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1092 ; 0.317 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 252 ; 0.135 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 37 ; 0.220 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 31 ; 0.094 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 927 ; 0.718 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1474 ; 1.185 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 622 ; 1.918 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 568 ; 3.085 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2GUI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1000037565. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.128 REMARK 200 MONOCHROMATOR : SI(III) DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27900 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 26.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.15500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.970 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1J53 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M CACODYLATE ACID, 20% PEG-8K, 2.5 REMARK 280 MM UMP, 5 MM MNSO4, PH 5.8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 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 54.58200 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 30.04950 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 30.04950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 27.29100 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 30.04950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 30.04950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 81.87300 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 30.04950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 30.04950 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 27.29100 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 30.04950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 30.04950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 81.87300 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 54.58200 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 A5110 LIES ON A SPECIAL POSITION. REMARK 375 HOH A5132 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 SER A -2 REMARK 465 ILE A -1 REMARK 465 GLU A 0 REMARK 465 PHE A 1 REMARK 465 SER A 2 REMARK 465 THR A 3 REMARK 465 ALA A 4 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 THR A 187 REMARK 465 ARG A 188 REMARK 465 GLU A 189 REMARK 465 SER A 190 REMARK 465 GLY A 191 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 ARG A 42 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 55 CG OD1 OD2 REMARK 470 GLU A 71 CG CD OE1 OE2 REMARK 470 LYS A 115 CG CD CE NZ REMARK 470 LYS A 158 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 ASN A 99 57.21 75.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 U5P A 2000 REMARK 610 U5P A 2100 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 A3001 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U5P A2000 O3P REMARK 620 2 GLU A 14 OE2 120.0 REMARK 620 3 HOH A5100 O 73.5 79.2 REMARK 620 4 ASP A 12 OD2 104.6 98.4 175.4 REMARK 620 5 ASP A 167 OD2 116.7 113.3 85.8 98.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A3000 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U5P A2000 O1P REMARK 620 2 U5P A2000 O3P 62.7 REMARK 620 3 HOH A5002 O 93.1 88.8 REMARK 620 4 HOH A5012 O 95.8 94.0 171.1 REMARK 620 5 HOH A5024 O 109.3 170.6 86.5 91.9 REMARK 620 6 ASP A 12 OD1 159.2 96.4 86.5 84.7 91.5 REMARK 620 N 1 2 3 4 5 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 3000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE U5P A 2000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE U5P A 2100 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 4000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 5000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 3824 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1J53 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE N-TERMINAL EXONUCLEASE DOMAIN OF THE REMARK 900 EPSILON SUBUNIT OF E.COLI DNA POLYMERASE III AT PH 8.5 REMARK 900 RELATED ID: 1J54 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE N-TERMINAL EXONUCLEASE DOMAIN OF THE REMARK 900 EPSILON SUBUNIT OF E.COLI DNA POLYMERASE III AT PH 5.8 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE PROTEIN IS A CYCLIZED FORM OF N-TERMINAL DOMAIN OF REMARK 999 EPSILON (RESIDUE 2-186). THE CYCLIZED PROTEIN INCLUDES 9 REMARK 999 AMINO ACID LINKER, SIEF AT THE N-TERMINAL AND TRESG AT THE REMARK 999 C-TERMINUS DBREF 2GUI A 2 186 UNP P03007 DPO3E_ECOLI 2 186 SEQADV 2GUI SER A -2 UNP P03007 SEE REMARK 999 SEQADV 2GUI ILE A -1 UNP P03007 SEE REMARK 999 SEQADV 2GUI GLU A 0 UNP P03007 SEE REMARK 999 SEQADV 2GUI PHE A 1 UNP P03007 SEE REMARK 999 SEQADV 2GUI THR A 187 UNP P03007 SEE REMARK 999 SEQADV 2GUI ARG A 188 UNP P03007 SEE REMARK 999 SEQADV 2GUI GLU A 189 UNP P03007 SEE REMARK 999 SEQADV 2GUI SER A 190 UNP P03007 SEE REMARK 999 SEQADV 2GUI GLY A 191 UNP P03007 SEE REMARK 999 SEQRES 1 A 194 SER ILE GLU PHE SER THR ALA ILE THR ARG GLN ILE VAL SEQRES 2 A 194 LEU ASP THR GLU THR THR GLY MET ASN GLN ILE GLY ALA SEQRES 3 A 194 HIS TYR GLU GLY HIS LYS ILE ILE GLU ILE GLY ALA VAL SEQRES 4 A 194 GLU VAL VAL ASN ARG ARG LEU THR GLY ASN ASN PHE HIS SEQRES 5 A 194 VAL TYR LEU LYS PRO ASP ARG LEU VAL ASP PRO GLU ALA SEQRES 6 A 194 PHE GLY VAL HIS GLY ILE ALA ASP GLU PHE LEU LEU ASP SEQRES 7 A 194 LYS PRO THR PHE ALA GLU VAL ALA ASP GLU PHE MET ASP SEQRES 8 A 194 TYR ILE ARG GLY ALA GLU LEU VAL ILE HIS ASN ALA ALA SEQRES 9 A 194 PHE ASP ILE GLY PHE MET ASP TYR GLU PHE SER LEU LEU SEQRES 10 A 194 LYS ARG ASP ILE PRO LYS THR ASN THR PHE CYS LYS VAL SEQRES 11 A 194 THR ASP SER LEU ALA VAL ALA ARG LYS MET PHE PRO GLY SEQRES 12 A 194 LYS ARG ASN SER LEU ASP ALA LEU CYS ALA ARG TYR GLU SEQRES 13 A 194 ILE ASP ASN SER LYS ARG THR LEU HIS GLY ALA LEU LEU SEQRES 14 A 194 ASP ALA GLN ILE LEU ALA GLU VAL TYR LEU ALA MET THR SEQRES 15 A 194 GLY GLY GLN THR SER MET ALA THR ARG GLU SER GLY HET MN A3000 1 HET MN A3001 1 HET U5P A2000 20 HET U5P A2100 13 HET EDO A4000 4 HET EDO A5000 4 HET PEG A3824 7 HETNAM MN MANGANESE (II) ION HETNAM U5P URIDINE-5'-MONOPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MN 2(MN 2+) FORMUL 4 U5P 2(C9 H13 N2 O9 P) FORMUL 6 EDO 2(C2 H6 O2) FORMUL 8 PEG C4 H10 O3 FORMUL 9 HOH *240(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 THR A 179 1 17 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 ARG A 7 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 LINK O3P U5P A2000 MN MN A3001 1555 1555 1.90 LINK MN MN A3000 O1P U5P A2000 1555 1555 2.23 LINK MN MN A3000 O3P U5P A2000 1555 1555 2.42 LINK MN MN A3000 O HOH A5002 1555 1555 2.18 LINK MN MN A3000 O HOH A5012 1555 1555 2.24 LINK MN MN A3000 O HOH A5024 1555 1555 2.12 LINK MN MN A3000 OD1 ASP A 12 1555 1555 2.04 LINK MN MN A3001 OE2 GLU A 14 1555 1555 1.97 LINK MN MN A3001 O HOH A5100 1555 1555 2.34 LINK MN MN A3001 OD2 ASP A 12 1555 1555 2.08 LINK MN MN A3001 OD2 ASP A 167 1555 1555 2.03 SITE 1 AC1 6 ASP A 12 U5P A2000 MN A3001 HOH A5002 SITE 2 AC1 6 HOH A5012 HOH A5024 SITE 1 AC2 6 ASP A 12 GLU A 14 ASP A 167 U5P A2000 SITE 2 AC2 6 MN A3000 HOH A5100 SITE 1 AC3 19 ASP A 12 THR A 13 GLU A 14 THR A 15 SITE 2 AC3 19 GLY A 17 MET A 18 GLU A 61 ALA A 62 SITE 3 AC3 19 VAL A 65 HIS A 66 PHE A 102 HIS A 162 SITE 4 AC3 19 ASP A 167 U5P A2100 MN A3000 MN A3001 SITE 5 AC3 19 HOH A5100 HOH A5102 HOH A5175 SITE 1 AC4 12 HIS A 98 ASN A 99 SER A 144 LEU A 145 SITE 2 AC4 12 ARG A 159 HIS A 162 U5P A2000 HOH A5012 SITE 3 AC4 12 HOH A5023 HOH A5030 HOH A5175 HOH A5191 SITE 1 AC5 1 PHE A 124 SITE 1 AC6 5 ILE A 104 ASN A 122 VAL A 127 HOH A5146 SITE 2 AC6 5 HOH A5153 SITE 1 AC7 8 ILE A 21 GLY A 22 HIS A 66 GLY A 67 SITE 2 AC7 8 PHE A 72 LEU A 161 HOH A5097 HOH A5198 CRYST1 60.099 60.099 109.164 90.00 90.00 90.00 P 41 21 2 8 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 0.016640 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016640 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009160 0.00000