HEADER TRANSFERASE 18-JUL-03 1OK7 TITLE A CONSERVED PROTEIN BINDING-SITE ON BACTERIAL SLIDING CLAMPS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE III; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: POLYMERASE, DNAN, B3701, C4623, Z5192, ECS4636; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA POLYMERASE IV; COMPND 9 CHAIN: C; COMPND 10 FRAGMENT: C-TERMINUS OF DNA POL IV RESIDUES 336-351; COMPND 11 SYNONYM: POL IV; COMPND 12 EC: 2.7.7.7; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: C-TERMINUS (16 RESIDUES) OF DNA POL IV E.COLI SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 9 OTHER_DETAILS: DNAN GENE; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 13 ORGANISM_TAXID: 562 KEYWDS TRANSFERASE, DNA POLYMERASE IV, PEPTIDE INHIBITION, SLIDING CLAMP, KEYWDS 2 TRANSLESION SYNTHESIS, TRANSFERASE; DNA-DIRECTED DNA POLYMERASE, DNA KEYWDS 3 REPLICATION EXPDTA X-RAY DIFFRACTION AUTHOR D.Y.BURNOUF,V.OLIERIC,J.WAGNER,S.FUJII,J.REINBOLT,R.P.P.FUCHS,P.DUMAS REVDAT 5 13-DEC-23 1OK7 1 REMARK REVDAT 4 16-SEP-15 1OK7 1 TITLE COMPND SOURCE KEYWDS REVDAT 4 2 1 AUTHOR JRNL REMARK REVDAT 3 13-FEB-13 1OK7 1 SOURCE REMARK VERSN FORMUL REVDAT 2 24-FEB-09 1OK7 1 VERSN REVDAT 1 15-JUL-04 1OK7 0 JRNL AUTH D.Y.BURNOUF,V.OLIERIC,J.WAGNER,S.FUJII,J.REINBOLT, JRNL AUTH 2 R.P.P.FUCHS,P.DUMAS JRNL TITL STRUCTURAL AND BIOCHEMICAL ANALYSIS OF SLIDING CLAMP/LIGAND JRNL TITL 2 INTERACTIONS SUGGEST A COMPETITION BETWEEN REPLICATIVE AND JRNL TITL 3 TRANSLESION DNA POLYMERASES JRNL REF J.MOL.BIOL. V. 335 1187 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 14729336 JRNL DOI 10.1016/J.JMB.2003.11.049 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH X.-P.KONG,R.ONRUST,M.O'DONNELL,J.KURIYAN REMARK 1 TITL THREE-DIMENSIONAL STRUCTURE OF THE BETA SUBUNIT OF REMARK 1 TITL 2 ESCHERICHIA COLI DNA POLYMERASE III HOLOENZYME: A SLIDING REMARK 1 TITL 3 DNA CLAMP REMARK 1 REF CELL(CAMBRIDGE,MASS.) V. 69 425 1992 REMARK 1 REFN ISSN 0092-8674 REMARK 1 PMID 1349852 REMARK 1 DOI 10.1016/0092-8674(92)90445-I REMARK 2 REMARK 2 RESOLUTION. 1.65 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 0.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 84773 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) : 0.203 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4225 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 13271 REMARK 3 BIN R VALUE (WORKING SET) : 0.2330 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 690 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.011 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5744 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 460 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.67000 REMARK 3 B22 (A**2) : -2.48000 REMARK 3 B33 (A**2) : -1.19000 REMARK 3 B12 (A**2) : -2.04000 REMARK 3 B13 (A**2) : -2.73000 REMARK 3 B23 (A**2) : 0.52000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.19 REMARK 3 ESD FROM SIGMAA (A) : 0.09 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) : 0.22 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.13 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 BOND ANGLES (DEGREES) : 2.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 3.850 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) : 2.130 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.980 ; 2.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.490 ; 2.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.040 ; 3.000 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 48.40 REMARK 3 REMARK 3 NCS MODEL : UNRESTRAINED 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 : NULL REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1OK7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-JUL-03. REMARK 100 THE DEPOSITION ID IS D_1290013075. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93922 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 85999 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.5100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.17800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.230 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: PDB ENTRY 2POL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: DROPS:0.92 ML OF PROTEIN AT 34.2 REMARK 280 MG/ML, 1.89 ML OF P16 AT 1.1 MG/ML, 1 ML OF 2X RESERVOIR REMARK 280 SOLUTION. RESERVOIR: 0.1 M MES PH 6.0, 0.1M CACL2 AND 30% PEG REMARK 280 400, PH 6.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 300 REMARK: PDB CONVENTION REQUIRES THAT THIS ENTRY BE REMARK 300 CLASSIFIED AS TRIMERIC SINCE THE ASSEMBLY INCLUDES REMARK 300 THREE CHAINS. HOWEVER CHAINS A AND B FORM A REMARK 300 PHYSIOLOGICAL DIMER WHICH THEN INTERACTS WITH THE REMARK 300 SMALLER CHAIN C. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.4 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 400 REMARK 400 COMPOUND REMARK 400 CATALYTIC ACTIVITY: N DEOXYNUCLEOSIDE TRIPHOSPHATE = N DIPHOSPHATE REMARK 400 + {DNA}(N). 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 VAL C 1 REMARK 465 THR C 2 REMARK 465 LEU C 3 REMARK 465 LEU C 4 REMARK 465 ASP C 5 REMARK 465 PRO C 6 REMARK 465 GLN C 7 REMARK 465 MET C 8 REMARK 465 GLU C 9 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ASP A 39 N GLY A 40 1.43 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 39 C ASP A 39 O 0.960 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 ASP A 39 CA - C - O ANGL. DEV. = -42.3 DEGREES REMARK 500 ASP A 39 O - C - N ANGL. DEV. = -84.0 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 A 20 89.90 -56.61 REMARK 500 LEU A 21 177.54 175.52 REMARK 500 ARG A 24 74.54 24.51 REMARK 500 THR A 26 -113.02 -55.78 REMARK 500 ASP A 39 55.35 39.53 REMARK 500 LEU A 49 -25.71 84.48 REMARK 500 ASN A 156 49.99 -89.72 REMARK 500 PHE A 278 85.63 -155.78 REMARK 500 ASN A 288 28.76 49.85 REMARK 500 LYS A 332 51.93 31.10 REMARK 500 LEU B 49 -16.00 83.79 REMARK 500 THR B 341 -64.90 -123.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ASP A 39 -179.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2018 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH B2025 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH B2031 DISTANCE = 6.50 ANGSTROMS REMARK 525 HOH B2032 DISTANCE = 6.19 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JQJ RELATED DB: PDB REMARK 900 MECHANISM OF PROCESSIVITY CLAMP OPENING BY THE DELTASUBUNIT WRENCH REMARK 900 OF THE CLAMP LOADER COMPLEX OF E. COLI DNAPOLYMERASE III: STRUCTURE REMARK 900 OF THE BETA-DELTA COMPLEX REMARK 900 RELATED ID: 1JQL RELATED DB: PDB REMARK 900 MECHANISM OF PROCESSIVITY CLAMP OPENING BY THE DELTASUBUNIT WRENCH REMARK 900 OF THE CLAMP LOADER COMPLEX OF E. COLI DNAPOLYMERASE III: STRUCTURE REMARK 900 OF BETA-DELTA (1-140) REMARK 900 RELATED ID: 2POL RELATED DB: PDB REMARK 900 POL III (BETA SUBUNIT) REMARK 999 REMARK 999 SEQUENCE REMARK 999 DISORDERED LOOP (A19 - A26) WAS BUILT ONLY ON A REMARK 999 STEREOCHEMICAL BASIS. ARG C10 WAS BUILT IN A RATHER POOR REMARK 999 DENSITY. DBREF 1OK7 A 1 366 UNP P00583 DP3B_ECOLI 1 366 DBREF 1OK7 B 1 366 UNP P00583 DP3B_ECOLI 1 366 DBREF 1OK7 C 1 16 UNP Q47155 DPO4_ECOLI 336 351 SEQRES 1 A 366 MET LYS PHE THR VAL GLU ARG GLU HIS LEU LEU LYS PRO SEQRES 2 A 366 LEU GLN GLN VAL SER GLY PRO LEU GLY GLY ARG PRO THR SEQRES 3 A 366 LEU PRO ILE LEU GLY ASN LEU LEU LEU GLN VAL ALA ASP SEQRES 4 A 366 GLY THR LEU SER LEU THR GLY THR ASP LEU GLU MET GLU SEQRES 5 A 366 MET VAL ALA ARG VAL ALA LEU VAL GLN PRO HIS GLU PRO SEQRES 6 A 366 GLY ALA THR THR VAL PRO ALA ARG LYS PHE PHE ASP ILE SEQRES 7 A 366 CYS ARG GLY LEU PRO GLU GLY ALA GLU ILE ALA VAL GLN SEQRES 8 A 366 LEU GLU GLY GLU ARG MET LEU VAL ARG SER GLY ARG SER SEQRES 9 A 366 ARG PHE SER LEU SER THR LEU PRO ALA ALA ASP PHE PRO SEQRES 10 A 366 ASN LEU ASP ASP TRP GLN SER GLU VAL GLU PHE THR LEU SEQRES 11 A 366 PRO GLN ALA THR MET LYS ARG LEU ILE GLU ALA THR GLN SEQRES 12 A 366 PHE SER MET ALA HIS GLN ASP VAL ARG TYR TYR LEU ASN SEQRES 13 A 366 GLY MET LEU PHE GLU THR GLU GLY GLU GLU LEU ARG THR SEQRES 14 A 366 VAL ALA THR ASP GLY HIS ARG LEU ALA VAL CYS SER MET SEQRES 15 A 366 PRO ILE GLY GLN SER LEU PRO SER HIS SER VAL ILE VAL SEQRES 16 A 366 PRO ARG LYS GLY VAL ILE GLU LEU MET ARG MET LEU ASP SEQRES 17 A 366 GLY GLY ASP ASN PRO LEU ARG VAL GLN ILE GLY SER ASN SEQRES 18 A 366 ASN ILE ARG ALA HIS VAL GLY ASP PHE ILE PHE THR SER SEQRES 19 A 366 LYS LEU VAL ASP GLY ARG PHE PRO ASP TYR ARG ARG VAL SEQRES 20 A 366 LEU PRO LYS ASN PRO ASP LYS HIS LEU GLU ALA GLY CYS SEQRES 21 A 366 ASP LEU LEU LYS GLN ALA PHE ALA ARG ALA ALA ILE LEU SEQRES 22 A 366 SER ASN GLU LYS PHE ARG GLY VAL ARG LEU TYR VAL SER SEQRES 23 A 366 GLU ASN GLN LEU LYS ILE THR ALA ASN ASN PRO GLU GLN SEQRES 24 A 366 GLU GLU ALA GLU GLU ILE LEU ASP VAL THR TYR SER GLY SEQRES 25 A 366 ALA GLU MET GLU ILE GLY PHE ASN VAL SER TYR VAL LEU SEQRES 26 A 366 ASP VAL LEU ASN ALA LEU LYS CYS GLU ASN VAL ARG MET SEQRES 27 A 366 MET LEU THR ASP SER VAL SER SER VAL GLN ILE GLU ASP SEQRES 28 A 366 ALA ALA SER GLN SER ALA ALA TYR VAL VAL MET PRO MET SEQRES 29 A 366 ARG LEU SEQRES 1 B 366 MET LYS PHE THR VAL GLU ARG GLU HIS LEU LEU LYS PRO SEQRES 2 B 366 LEU GLN GLN VAL SER GLY PRO LEU GLY GLY ARG PRO THR SEQRES 3 B 366 LEU PRO ILE LEU GLY ASN LEU LEU LEU GLN VAL ALA ASP SEQRES 4 B 366 GLY THR LEU SER LEU THR GLY THR ASP LEU GLU MET GLU SEQRES 5 B 366 MET VAL ALA ARG VAL ALA LEU VAL GLN PRO HIS GLU PRO SEQRES 6 B 366 GLY ALA THR THR VAL PRO ALA ARG LYS PHE PHE ASP ILE SEQRES 7 B 366 CYS ARG GLY LEU PRO GLU GLY ALA GLU ILE ALA VAL GLN SEQRES 8 B 366 LEU GLU GLY GLU ARG MET LEU VAL ARG SER GLY ARG SER SEQRES 9 B 366 ARG PHE SER LEU SER THR LEU PRO ALA ALA ASP PHE PRO SEQRES 10 B 366 ASN LEU ASP ASP TRP GLN SER GLU VAL GLU PHE THR LEU SEQRES 11 B 366 PRO GLN ALA THR MET LYS ARG LEU ILE GLU ALA THR GLN SEQRES 12 B 366 PHE SER MET ALA HIS GLN ASP VAL ARG TYR TYR LEU ASN SEQRES 13 B 366 GLY MET LEU PHE GLU THR GLU GLY GLU GLU LEU ARG THR SEQRES 14 B 366 VAL ALA THR ASP GLY HIS ARG LEU ALA VAL CYS SER MET SEQRES 15 B 366 PRO ILE GLY GLN SER LEU PRO SER HIS SER VAL ILE VAL SEQRES 16 B 366 PRO ARG LYS GLY VAL ILE GLU LEU MET ARG MET LEU ASP SEQRES 17 B 366 GLY GLY ASP ASN PRO LEU ARG VAL GLN ILE GLY SER ASN SEQRES 18 B 366 ASN ILE ARG ALA HIS VAL GLY ASP PHE ILE PHE THR SER SEQRES 19 B 366 LYS LEU VAL ASP GLY ARG PHE PRO ASP TYR ARG ARG VAL SEQRES 20 B 366 LEU PRO LYS ASN PRO ASP LYS HIS LEU GLU ALA GLY CYS SEQRES 21 B 366 ASP LEU LEU LYS GLN ALA PHE ALA ARG ALA ALA ILE LEU SEQRES 22 B 366 SER ASN GLU LYS PHE ARG GLY VAL ARG LEU TYR VAL SER SEQRES 23 B 366 GLU ASN GLN LEU LYS ILE THR ALA ASN ASN PRO GLU GLN SEQRES 24 B 366 GLU GLU ALA GLU GLU ILE LEU ASP VAL THR TYR SER GLY SEQRES 25 B 366 ALA GLU MET GLU ILE GLY PHE ASN VAL SER TYR VAL LEU SEQRES 26 B 366 ASP VAL LEU ASN ALA LEU LYS CYS GLU ASN VAL ARG MET SEQRES 27 B 366 MET LEU THR ASP SER VAL SER SER VAL GLN ILE GLU ASP SEQRES 28 B 366 ALA ALA SER GLN SER ALA ALA TYR VAL VAL MET PRO MET SEQRES 29 B 366 ARG LEU SEQRES 1 C 16 VAL THR LEU LEU ASP PRO GLN MET GLU ARG GLN LEU VAL SEQRES 2 C 16 LEU GLY LEU FORMUL 4 HOH *460(H2 O) HELIX 1 1 ARG A 7 GLY A 19 1 13 HELIX 2 2 LEU A 27 LEU A 30 5 4 HELIX 3 3 ALA A 72 LEU A 82 1 11 HELIX 4 4 PRO A 112 PHE A 116 5 5 HELIX 5 5 GLN A 132 GLN A 143 1 12 HELIX 6 6 PHE A 144 MET A 146 5 3 HELIX 7 7 ARG A 152 LEU A 155 5 4 HELIX 8 8 ARG A 197 MET A 206 1 10 HELIX 9 9 ASP A 243 VAL A 247 5 5 HELIX 10 10 CYS A 260 ILE A 272 1 13 HELIX 11 11 VAL A 321 LYS A 332 1 12 HELIX 12 12 ARG B 7 SER B 18 1 12 HELIX 13 13 LEU B 27 LEU B 30 5 4 HELIX 14 14 ALA B 72 LEU B 82 1 11 HELIX 15 15 PRO B 112 PHE B 116 5 5 HELIX 16 16 PRO B 131 ALA B 141 1 11 HELIX 17 17 THR B 142 MET B 146 5 5 HELIX 18 18 ARG B 152 GLY B 157 5 6 HELIX 19 19 PRO B 196 MET B 206 1 11 HELIX 20 20 ASP B 243 LEU B 248 1 6 HELIX 21 21 CYS B 260 ILE B 272 1 13 HELIX 22 22 VAL B 321 LEU B 331 1 11 SHEET 1 AA 8 LYS A 2 GLU A 6 0 SHEET 2 AA 8 GLU A 87 GLU A 93 -1 O ILE A 88 N VAL A 5 SHEET 3 AA 8 ARG A 96 SER A 101 -1 O ARG A 96 N GLU A 93 SHEET 4 AA 8 SER A 104 SER A 109 -1 O SER A 104 N SER A 101 SHEET 5 AA 8 GLU B 301 ASP B 307 -1 O GLU B 301 N SER A 107 SHEET 6 AA 8 GLN B 289 ASN B 295 -1 O LEU B 290 N LEU B 306 SHEET 7 AA 8 GLY B 280 SER B 286 -1 O ARG B 282 N THR B 293 SHEET 8 AA 8 MET B 315 ASN B 320 -1 O MET B 315 N VAL B 285 SHEET 1 AB 8 GLY A 66 PRO A 71 0 SHEET 2 AB 8 ASN A 32 ALA A 38 -1 O LEU A 33 N VAL A 70 SHEET 3 AB 8 THR A 41 THR A 47 -1 O THR A 41 N ALA A 38 SHEET 4 AB 8 MET A 51 ALA A 58 -1 O MET A 53 N GLY A 46 SHEET 5 AB 8 PHE A 230 LYS A 235 -1 O ILE A 231 N VAL A 54 SHEET 6 AB 8 ASN A 222 VAL A 227 -1 O ILE A 223 N SER A 234 SHEET 7 AB 8 PRO A 213 GLY A 219 -1 O ARG A 215 N HIS A 226 SHEET 8 AB 8 SER A 124 PRO A 131 -1 N GLU A 125 O ILE A 218 SHEET 1 AC 6 GLY A 157 THR A 172 0 SHEET 2 AC 6 ARG A 176 PRO A 196 -1 O ALA A 178 N ALA A 171 SHEET 3 AC 6 SER A 354 VAL A 361 -1 O SER A 356 N SER A 181 SHEET 4 AC 6 VAL A 347 ASP A 351 -1 O VAL A 347 N VAL A 361 SHEET 5 AC 6 ASN A 335 LEU A 340 -1 O ARG A 337 N GLU A 350 SHEET 6 AC 6 LYS A 254 GLY A 259 -1 O LYS A 254 N LEU A 340 SHEET 1 AD 8 MET A 315 ASN A 320 0 SHEET 2 AD 8 GLY A 280 SER A 286 -1 O VAL A 281 N PHE A 319 SHEET 3 AD 8 GLN A 289 ASN A 295 -1 O GLN A 289 N SER A 286 SHEET 4 AD 8 GLU A 301 ASP A 307 -1 O ALA A 302 N ALA A 294 SHEET 5 AD 8 SER B 104 SER B 109 -1 O ARG B 105 N GLU A 303 SHEET 6 AD 8 ARG B 96 SER B 101 -1 O MET B 97 N LEU B 108 SHEET 7 AD 8 GLU B 87 GLU B 93 -1 O ALA B 89 N ARG B 100 SHEET 8 AD 8 LYS B 2 GLU B 6 -1 O PHE B 3 N VAL B 90 SHEET 1 BA 8 GLY B 66 PRO B 71 0 SHEET 2 BA 8 ASN B 32 ALA B 38 -1 O LEU B 33 N VAL B 70 SHEET 3 BA 8 THR B 41 THR B 47 -1 O THR B 41 N ALA B 38 SHEET 4 BA 8 MET B 51 ALA B 58 -1 O MET B 53 N GLY B 46 SHEET 5 BA 8 PHE B 230 LYS B 235 -1 O ILE B 231 N VAL B 54 SHEET 6 BA 8 ASN B 222 VAL B 227 -1 O ILE B 223 N SER B 234 SHEET 7 BA 8 LEU B 214 ILE B 218 -1 O ARG B 215 N HIS B 226 SHEET 8 BA 8 VAL B 126 LEU B 130 -1 O VAL B 126 N ILE B 218 SHEET 1 BB 6 MET B 158 THR B 172 0 SHEET 2 BB 6 ARG B 176 VAL B 195 -1 O ALA B 178 N ALA B 171 SHEET 3 BB 6 SER B 354 VAL B 361 -1 O SER B 356 N SER B 181 SHEET 4 BB 6 VAL B 347 ASP B 351 -1 O VAL B 347 N VAL B 361 SHEET 5 BB 6 ASN B 335 LEU B 340 -1 O ARG B 337 N GLU B 350 SHEET 6 BB 6 LYS B 254 GLY B 259 -1 O LYS B 254 N LEU B 340 CRYST1 41.230 65.220 73.380 73.11 85.58 85.80 P 1 2 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 0.024254 -0.001781 -0.001424 0.00000 SCALE2 0.000000 0.015374 -0.004597 0.00000 SCALE3 0.000000 0.000000 0.014266 0.00000 MTRIX1 1 0.181780 -0.825690 -0.534030 -0.15100 1 MTRIX2 1 -0.824760 -0.423760 0.374440 0.07500 1 MTRIX3 1 -0.535470 0.372380 -0.758030 0.01800 1