HEADER HYDROLASE 15-FEB-08 3C95 TITLE EXONUCLEASE I (APO) COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXODEOXYRIBONUCLEASE I; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: EXONUCLEASE I, DNA DEOXYRIBOPHOSPHODIESTERASE, DRPASE; COMPND 5 EC: 3.1.11.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: SBCB, CPEA, XONA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET KEYWDS EXONUCLEASE, SSB, GENOME MAINTENANCE, DNA DAMAGE, DNA REPAIR, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.L.KECK,D.LU REVDAT 6 30-AUG-23 3C95 1 REMARK SEQADV LINK REVDAT 5 25-OCT-17 3C95 1 REMARK REVDAT 4 21-MAR-12 3C95 1 JRNL REVDAT 3 13-JUL-11 3C95 1 VERSN REVDAT 2 24-FEB-09 3C95 1 VERSN REVDAT 1 08-JUL-08 3C95 0 JRNL AUTH D.LU,J.L.KECK JRNL TITL STRUCTURAL BASIS OF ESCHERICHIA COLI SINGLE-STRANDED JRNL TITL 2 DNA-BINDING PROTEIN STIMULATION OF EXONUCLEASE I. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 9169 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18591666 JRNL DOI 10.1073/PNAS.0800741105 REMARK 2 REMARK 2 RESOLUTION. 1.70 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 51391 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2611 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3321 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 170 REMARK 3 BIN FREE R VALUE : 0.2480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3626 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 436 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.36000 REMARK 3 B22 (A**2) : -0.14000 REMARK 3 B33 (A**2) : 0.50000 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): 0.116 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.111 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.065 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.308 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3832 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5208 ; 1.103 ; 1.946 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 446 ; 5.887 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 211 ;35.096 ;23.886 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 652 ;13.249 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;16.044 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 567 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2979 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1802 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2654 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 353 ; 0.127 ; 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): 41 ; 0.198 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.135 ; 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): 2333 ; 0.916 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3688 ; 1.400 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1704 ; 2.408 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1520 ; 3.704 ; 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 7 A 201 REMARK 3 RESIDUE RANGE : A 483 A 483 REMARK 3 ORIGIN FOR THE GROUP (A): 22.6298 72.6316 21.8403 REMARK 3 T TENSOR REMARK 3 T11: -0.0255 T22: -0.0095 REMARK 3 T33: -0.0138 T12: -0.0026 REMARK 3 T13: 0.0077 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.3480 L22: 0.2886 REMARK 3 L33: 0.3951 L12: 0.0666 REMARK 3 L13: 0.2593 L23: 0.1924 REMARK 3 S TENSOR REMARK 3 S11: 0.0187 S12: -0.0381 S13: 0.0112 REMARK 3 S21: 0.0101 S22: -0.0005 S23: 0.0032 REMARK 3 S31: -0.0041 S32: -0.0299 S33: -0.0182 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 202 A 353 REMARK 3 ORIGIN FOR THE GROUP (A): 26.9202 50.9038 5.7429 REMARK 3 T TENSOR REMARK 3 T11: -0.0311 T22: -0.0462 REMARK 3 T33: 0.0115 T12: 0.0043 REMARK 3 T13: 0.0051 T23: 0.0115 REMARK 3 L TENSOR REMARK 3 L11: 0.5496 L22: 1.3566 REMARK 3 L33: 1.2624 L12: -0.2334 REMARK 3 L13: -0.2538 L23: 0.0977 REMARK 3 S TENSOR REMARK 3 S11: -0.0215 S12: -0.0086 S13: -0.0876 REMARK 3 S21: -0.0181 S22: -0.0293 S23: -0.1547 REMARK 3 S31: 0.1095 S32: 0.0888 S33: 0.0509 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 360 A 476 REMARK 3 ORIGIN FOR THE GROUP (A): 41.7951 74.2007 34.7525 REMARK 3 T TENSOR REMARK 3 T11: -0.1061 T22: -0.0229 REMARK 3 T33: -0.0953 T12: 0.0102 REMARK 3 T13: -0.0236 T23: -0.0146 REMARK 3 L TENSOR REMARK 3 L11: 0.8126 L22: 1.4881 REMARK 3 L33: 1.6689 L12: 0.0580 REMARK 3 L13: -0.1403 L23: -0.5195 REMARK 3 S TENSOR REMARK 3 S11: 0.0162 S12: -0.0974 S13: -0.0714 REMARK 3 S21: 0.0596 S22: -0.0499 S23: -0.1488 REMARK 3 S31: 0.0061 S32: 0.1327 S33: 0.0337 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 484 A 919 REMARK 3 ORIGIN FOR THE GROUP (A): 27.8024 67.9283 21.5786 REMARK 3 T TENSOR REMARK 3 T11: -0.0333 T22: -0.0267 REMARK 3 T33: -0.0225 T12: 0.0073 REMARK 3 T13: 0.0099 T23: -0.0093 REMARK 3 L TENSOR REMARK 3 L11: 0.3162 L22: 0.3257 REMARK 3 L33: 0.3531 L12: 0.0857 REMARK 3 L13: 0.0521 L23: 0.0109 REMARK 3 S TENSOR REMARK 3 S11: 0.0036 S12: -0.0377 S13: -0.0062 REMARK 3 S21: 0.0110 S22: 0.0018 S23: -0.0058 REMARK 3 S31: -0.0015 S32: -0.0192 S33: -0.0055 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 3C95 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000046497. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-AUG-06 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9000 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51391 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.5 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.47900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1FXX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18-27% PEG4000, 0.1-0.15 M MGCL(2), REMARK 280 0.1 M TRIS-HCL, PH 8.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 26.31400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.39350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.04050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.39350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.31400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.04050 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 MET A 2 REMARK 465 ASN A 3 REMARK 465 ASP A 4 REMARK 465 GLY A 5 REMARK 465 LYS A 6 REMARK 465 SER A 178 REMARK 465 ASN A 179 REMARK 465 ALA A 180 REMARK 465 HIS A 181 REMARK 465 GLU A 281 REMARK 465 ARG A 282 REMARK 465 LEU A 283 REMARK 465 TYR A 284 REMARK 465 THR A 285 REMARK 465 ALA A 286 REMARK 465 LYS A 287 REMARK 465 THR A 288 REMARK 465 ASP A 289 REMARK 465 LEU A 290 REMARK 465 GLY A 291 REMARK 465 ASP A 292 REMARK 465 ASN A 293 REMARK 465 ALA A 294 REMARK 465 ALA A 354 REMARK 465 GLU A 355 REMARK 465 PRO A 356 REMARK 465 PHE A 357 REMARK 465 THR A 358 REMARK 465 PRO A 359 REMARK 465 HIS A 477 REMARK 465 HIS A 478 REMARK 465 HIS A 479 REMARK 465 HIS A 480 REMARK 465 HIS A 481 REMARK 465 HIS A 482 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 SD MET A 235 CE LYS A 299 1.96 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 PHE A 107 -77.39 -119.76 REMARK 500 VAL A 475 -27.87 -141.12 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 MG A 483 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 15 OD1 REMARK 620 2 HOH A 490 O 85.6 REMARK 620 3 HOH A 496 O 86.9 86.3 REMARK 620 4 HOH A 497 O 89.0 174.6 94.1 REMARK 620 5 HOH A 512 O 175.0 95.4 98.1 89.9 REMARK 620 6 HOH A 545 O 88.0 91.4 174.5 87.8 87.1 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 MG A 483 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FXX RELATED DB: PDB REMARK 900 APO EXONUCLESE I REMARK 900 RELATED ID: 2C94 RELATED DB: PDB REMARK 900 SSB-CT/EXONUCLEASE I COMPLEX DBREF 3C95 A 1 475 UNP P04995 EX1_ECOLI 1 475 SEQADV 3C95 ASP A 472 UNP P04995 GLU 472 CONFLICT SEQADV 3C95 GLU A 476 UNP P04995 INSERTION SEQADV 3C95 HIS A 477 UNP P04995 INSERTION SEQADV 3C95 HIS A 478 UNP P04995 INSERTION SEQADV 3C95 HIS A 479 UNP P04995 INSERTION SEQADV 3C95 HIS A 480 UNP P04995 INSERTION SEQADV 3C95 HIS A 481 UNP P04995 INSERTION SEQADV 3C95 HIS A 482 UNP P04995 INSERTION SEQRES 1 A 482 MET MET ASN ASP GLY LYS GLN GLN SER THR PHE LEU PHE SEQRES 2 A 482 HIS ASP TYR GLU THR PHE GLY THR HIS PRO ALA LEU ASP SEQRES 3 A 482 ARG PRO ALA GLN PHE ALA ALA ILE ARG THR ASP SER GLU SEQRES 4 A 482 PHE ASN VAL ILE GLY GLU PRO GLU VAL PHE TYR CYS LYS SEQRES 5 A 482 PRO ALA ASP ASP TYR LEU PRO GLN PRO GLY ALA VAL LEU SEQRES 6 A 482 ILE THR GLY ILE THR PRO GLN GLU ALA ARG ALA LYS GLY SEQRES 7 A 482 GLU ASN GLU ALA ALA PHE ALA ALA ARG ILE HIS SER LEU SEQRES 8 A 482 PHE THR VAL PRO LYS THR CYS ILE LEU GLY TYR ASN ASN SEQRES 9 A 482 VAL ARG PHE ASP ASP GLU VAL THR ARG ASN ILE PHE TYR SEQRES 10 A 482 ARG ASN PHE TYR ASP PRO TYR ALA TRP SER TRP GLN HIS SEQRES 11 A 482 ASP ASN SER ARG TRP ASP LEU LEU ASP VAL MET ARG ALA SEQRES 12 A 482 CYS TYR ALA LEU ARG PRO GLU GLY ILE ASN TRP PRO GLU SEQRES 13 A 482 ASN ASP ASP GLY LEU PRO SER PHE ARG LEU GLU HIS LEU SEQRES 14 A 482 THR LYS ALA ASN GLY ILE GLU HIS SER ASN ALA HIS ASP SEQRES 15 A 482 ALA MET ALA ASP VAL TYR ALA THR ILE ALA MET ALA LYS SEQRES 16 A 482 LEU VAL LYS THR ARG GLN PRO ARG LEU PHE ASP TYR LEU SEQRES 17 A 482 PHE THR HIS ARG ASN LYS HIS LYS LEU MET ALA LEU ILE SEQRES 18 A 482 ASP VAL PRO GLN MET LYS PRO LEU VAL HIS VAL SER GLY SEQRES 19 A 482 MET PHE GLY ALA TRP ARG GLY ASN THR SER TRP VAL ALA SEQRES 20 A 482 PRO LEU ALA TRP HIS PRO GLU ASN ARG ASN ALA VAL ILE SEQRES 21 A 482 MET VAL ASP LEU ALA GLY ASP ILE SER PRO LEU LEU GLU SEQRES 22 A 482 LEU ASP SER ASP THR LEU ARG GLU ARG LEU TYR THR ALA SEQRES 23 A 482 LYS THR ASP LEU GLY ASP ASN ALA ALA VAL PRO VAL LYS SEQRES 24 A 482 LEU VAL HIS ILE ASN LYS CYS PRO VAL LEU ALA GLN ALA SEQRES 25 A 482 ASN THR LEU ARG PRO GLU ASP ALA ASP ARG LEU GLY ILE SEQRES 26 A 482 ASN ARG GLN HIS CYS LEU ASP ASN LEU LYS ILE LEU ARG SEQRES 27 A 482 GLU ASN PRO GLN VAL ARG GLU LYS VAL VAL ALA ILE PHE SEQRES 28 A 482 ALA GLU ALA GLU PRO PHE THR PRO SER ASP ASN VAL ASP SEQRES 29 A 482 ALA GLN LEU TYR ASN GLY PHE PHE SER ASP ALA ASP ARG SEQRES 30 A 482 ALA ALA MET LYS ILE VAL LEU GLU THR GLU PRO ARG ASN SEQRES 31 A 482 LEU PRO ALA LEU ASP ILE THR PHE VAL ASP LYS ARG ILE SEQRES 32 A 482 GLU LYS LEU LEU PHE ASN TYR ARG ALA ARG ASN PHE PRO SEQRES 33 A 482 GLY THR LEU ASP TYR ALA GLU GLN GLN ARG TRP LEU GLU SEQRES 34 A 482 HIS ARG ARG GLN VAL PHE THR PRO GLU PHE LEU GLN GLY SEQRES 35 A 482 TYR ALA ASP GLU LEU GLN MET LEU VAL GLN GLN TYR ALA SEQRES 36 A 482 ASP ASP LYS GLU LYS VAL ALA LEU LEU LYS ALA LEU TRP SEQRES 37 A 482 GLN TYR ALA ASP GLU ILE VAL GLU HIS HIS HIS HIS HIS SEQRES 38 A 482 HIS HET MG A 483 1 HETNAM MG MAGNESIUM ION FORMUL 2 MG MG 2+ FORMUL 3 HOH *436(H2 O) HELIX 1 1 GLN A 60 GLY A 68 1 9 HELIX 2 2 THR A 70 LYS A 77 1 8 HELIX 3 3 ASN A 80 THR A 93 1 14 HELIX 4 4 PHE A 107 ASN A 119 1 13 HELIX 5 5 TYR A 124 ASN A 132 5 9 HELIX 6 6 LEU A 137 ARG A 148 1 12 HELIX 7 7 ARG A 165 ASN A 173 1 9 HELIX 8 8 MET A 184 GLN A 201 1 18 HELIX 9 9 GLN A 201 HIS A 211 1 11 HELIX 10 10 ASN A 213 ALA A 219 1 7 HELIX 11 11 GLY A 234 GLY A 241 5 8 HELIX 12 12 ILE A 268 LEU A 274 1 7 HELIX 13 13 ASP A 275 ARG A 280 1 6 HELIX 14 14 ASN A 313 LEU A 315 5 3 HELIX 15 15 ARG A 316 GLY A 324 1 9 HELIX 16 16 ASN A 326 ASN A 340 1 15 HELIX 17 17 PRO A 341 ALA A 352 1 12 HELIX 18 18 ASN A 362 GLY A 370 5 9 HELIX 19 19 SER A 373 THR A 386 1 14 HELIX 20 20 GLU A 387 LEU A 394 5 8 HELIX 21 21 LYS A 401 PHE A 415 1 15 HELIX 22 22 PRO A 416 LEU A 419 5 4 HELIX 23 23 ASP A 420 PHE A 435 1 16 HELIX 24 24 THR A 436 TYR A 454 1 19 HELIX 25 25 ASP A 457 VAL A 475 1 19 SHEET 1 A 6 GLY A 78 GLU A 79 0 SHEET 2 A 6 GLU A 47 CYS A 51 1 N TYR A 50 O GLU A 79 SHEET 3 A 6 PRO A 28 ASP A 37 -1 N ALA A 33 O GLU A 47 SHEET 4 A 6 THR A 10 THR A 18 -1 N GLU A 17 O ALA A 29 SHEET 5 A 6 THR A 97 GLY A 101 1 O CYS A 98 N LEU A 12 SHEET 6 A 6 SER A 133 ASP A 136 1 O SER A 133 N ILE A 99 SHEET 1 B 5 VAL A 298 HIS A 302 0 SHEET 2 B 5 ALA A 258 ASP A 263 -1 N MET A 261 O LYS A 299 SHEET 3 B 5 THR A 243 TRP A 251 -1 N ALA A 250 O ILE A 260 SHEET 4 B 5 LEU A 229 VAL A 232 -1 N LEU A 229 O VAL A 246 SHEET 5 B 5 VAL A 308 GLN A 311 -1 O ALA A 310 N VAL A 230 LINK OD1 ASP A 15 MG MG A 483 1555 1555 2.07 LINK MG MG A 483 O HOH A 490 1555 1555 2.05 LINK MG MG A 483 O HOH A 496 1555 1555 2.06 LINK MG MG A 483 O HOH A 497 1555 1555 2.11 LINK MG MG A 483 O HOH A 512 1555 1555 2.01 LINK MG MG A 483 O HOH A 545 1555 1555 2.15 SITE 1 AC1 6 ASP A 15 HOH A 490 HOH A 496 HOH A 497 SITE 2 AC1 6 HOH A 512 HOH A 545 CRYST1 52.628 92.081 102.787 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 0.019001 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010860 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009729 0.00000