HEADER HYDROLASE/DNA 18-JUL-11 3SZ5 TITLE CRYSTAL STRUCTURE OF LHK-EXO IN COMPLEX WITH 5-PHOSPHORYLATED TITLE 2 OLIGOTHYMIDINE (DT)4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXONUCLEASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ALKALINE EXONUCLEASE, LHK-EXO; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(P*TP*TP*TP*T)-3'; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LARIBACTER HONGKONGENSIS; SOURCE 3 ORGANISM_TAXID: 557598; SOURCE 4 STRAIN: HLHK9; SOURCE 5 GENE: LHK_01497; 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: PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS ALKALINE EXONUCLEASE, DIGEST DOUBLE STRANDED DNA, STRICT 5-3- KEYWDS 2 POLARITY, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR W.YANG,W.Y.CHEN,H.WANG,Q.ZHANG,W.ZHOU,M.BARTLAM,R.M.WATT,Z.RAO REVDAT 2 01-NOV-23 3SZ5 1 REMARK SEQADV LINK REVDAT 1 15-FEB-12 3SZ5 0 JRNL AUTH W.YANG,W.Y.CHEN,H.WANG,J.W.HO,J.D.HUANG,P.C.WOO,S.K.LAU, JRNL AUTH 2 K.Y.YUEN,Q.ZHANG,W.ZHOU,M.BARTLAM,R.M.WATT,Z.RAO JRNL TITL STRUCTURAL AND FUNCTIONAL INSIGHT INTO THE MECHANISM OF AN JRNL TITL 2 ALKALINE EXONUCLEASE FROM LARIBACTER HONGKONGENSIS. JRNL REF NUCLEIC ACIDS RES. V. 39 9803 2011 JRNL REFN ISSN 0305-1048 JRNL PMID 21893587 JRNL DOI 10.1093/NAR/GKR660 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0044 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 7808 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 379 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 551 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.64 REMARK 3 BIN R VALUE (WORKING SET) : 0.2910 REMARK 3 BIN FREE R VALUE SET COUNT : 29 REMARK 3 BIN FREE R VALUE : 0.4110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1523 REMARK 3 NUCLEIC ACID ATOMS : 81 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.27000 REMARK 3 B22 (A**2) : 0.27000 REMARK 3 B33 (A**2) : -0.41000 REMARK 3 B12 (A**2) : 0.14000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.320 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.225 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1635 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2225 ; 1.550 ; 2.022 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 191 ; 6.205 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 72 ;37.005 ;24.306 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 277 ;19.772 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;17.049 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 253 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1195 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 962 ; 0.697 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1548 ; 1.317 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 673 ; 1.526 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 677 ; 2.617 ; 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 : 1.40 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 3SZ5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000066833. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JAN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.4 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 MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS 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 : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8198 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 35.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.49200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3SYY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS PH 8.4, 1.0M POTASSIUM REMARK 280 SODIUM TARTRATE TETRAHYDRATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 24.10950 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 24.10950 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 24.10950 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -132.0 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 BIOMT1 2 -0.500000 -0.866025 0.000000 -54.34850 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 94.13436 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -108.69700 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 GLU A 2 REMARK 465 GLN A 3 REMARK 465 ARG A 4 REMARK 465 THR A 28 REMARK 465 LYS A 29 REMARK 465 SER A 30 REMARK 465 GLY A 31 REMARK 465 TYR A 32 REMARK 465 ARG A 55 REMARK 465 PHE A 56 REMARK 465 SER A 57 REMARK 465 ALA A 207 REMARK 465 ALA A 208 REMARK 465 LEU A 209 REMARK 465 GLU A 210 REMARK 465 HIS A 211 REMARK 465 HIS A 212 REMARK 465 HIS A 213 REMARK 465 HIS A 214 REMARK 465 HIS A 215 REMARK 465 HIS A 216 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 DT B 211 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT B 212 C3' - C2' - C1' ANGL. DEV. = -4.9 DEGREES REMARK 500 DT B 212 O4' - C1' - N1 ANGL. DEV. = 7.9 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 GLU A 6 -68.77 53.93 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 221 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 100 O REMARK 620 2 ASP A 102 OD1 113.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 220 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 102 OD2 REMARK 620 2 GLU A 112 OE2 80.7 REMARK 620 3 ILE A 113 O 91.9 99.7 REMARK 620 4 DT B 211 OP1 105.5 100.2 155.4 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 MG A 220 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 221 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3SYY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AN ALKALINE EXONUCLEASE (LHK-EXO) FROM REMARK 900 LARIBACTER HONGKONGENSIS REMARK 900 RELATED ID: 3SZ4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF LHK-EXO IN COMPLEX WITH DAMP DBREF 3SZ5 A 1 203 UNP C1D7P6 C1D7P6_LARHH 1 203 DBREF 3SZ5 B 210 213 PDB 3SZ5 3SZ5 210 213 SEQADV 3SZ5 LYS A 204 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 LEU A 205 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 ALA A 206 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 ALA A 207 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 ALA A 208 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 LEU A 209 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 GLU A 210 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 HIS A 211 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 HIS A 212 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 HIS A 213 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 HIS A 214 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 HIS A 215 UNP C1D7P6 EXPRESSION TAG SEQADV 3SZ5 HIS A 216 UNP C1D7P6 EXPRESSION TAG SEQRES 1 A 216 MET GLU GLN ARG THR GLU GLU TRP PHE ALA ALA ARG LEU SEQRES 2 A 216 GLY LYS VAL THR ALA SER ARG VAL ALA ASP VAL MET THR SEQRES 3 A 216 LYS THR LYS SER GLY TYR ALA ALA SER ARG GLN ASN TYR SEQRES 4 A 216 MET ALA GLU LEU ILE CYS GLN ARG LEU THR GLY THR GLN SEQRES 5 A 216 GLU ILE ARG PHE SER ASN ALA ALA MET GLN ARG GLY THR SEQRES 6 A 216 GLU LEU GLU PRO HIS ALA ARG ALA ARG TYR ILE ILE GLU SEQRES 7 A 216 THR GLY GLU ILE VAL THR GLU VAL GLY LEU ILE ASP HIS SEQRES 8 A 216 PRO THR ILE ALA GLY PHE GLY ALA SER PRO ASP GLY LEU SEQRES 9 A 216 VAL GLY ASP THR GLY LEU ILE GLU ILE LYS CYS PRO ASN SEQRES 10 A 216 THR TRP THR HIS ILE GLU THR ILE LYS THR GLY LYS PRO SEQRES 11 A 216 LYS PRO GLU TYR ILE LYS GLN MET GLN THR GLN MET ALA SEQRES 12 A 216 CYS THR GLY ARG GLN TRP CYS ASP PHE VAL SER TYR ASP SEQRES 13 A 216 ASP ARG LEU PRO ASP ASP MET GLN TYR PHE CYS THR ARG SEQRES 14 A 216 ILE GLU ARG ASP ASP ALA LEU ILE ALA GLU ILE GLU THR SEQRES 15 A 216 GLU VAL SER ALA PHE LEU ALA GLU LEU GLU ALA GLU ILE SEQRES 16 A 216 GLU TYR LEU LYS ARG LYS ALA ALA LYS LEU ALA ALA ALA SEQRES 17 A 216 LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 4 DT DT DT DT HET MG A 220 1 HET MG A 221 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 2(MG 2+) HELIX 1 1 GLU A 6 LEU A 13 1 8 HELIX 2 2 ARG A 20 MET A 25 1 6 HELIX 3 3 ALA A 33 GLY A 50 1 18 HELIX 4 4 ASN A 58 LEU A 67 1 10 HELIX 5 5 LEU A 67 GLY A 80 1 14 HELIX 6 6 ASN A 117 GLY A 128 1 12 HELIX 7 7 LYS A 131 GLY A 146 1 16 HELIX 8 8 PRO A 160 GLN A 164 1 5 HELIX 9 9 ASP A 173 LEU A 205 1 33 SHEET 1 A 3 VAL A 16 THR A 17 0 SHEET 2 A 3 PHE A 97 ALA A 99 1 O GLY A 98 N VAL A 16 SHEET 3 A 3 ILE A 89 ASP A 90 -1 N ILE A 89 O ALA A 99 SHEET 1 B 5 VAL A 83 THR A 84 0 SHEET 2 B 5 GLY A 103 VAL A 105 -1 O LEU A 104 N THR A 84 SHEET 3 B 5 GLY A 109 LYS A 114 -1 O GLY A 109 N VAL A 105 SHEET 4 B 5 TRP A 149 TYR A 155 1 O ASP A 151 N LEU A 110 SHEET 5 B 5 TYR A 165 GLU A 171 -1 O THR A 168 N PHE A 152 LINK O SER A 100 MG MG A 221 1555 1555 2.65 LINK OD2 ASP A 102 MG MG A 220 1555 1555 2.50 LINK OD1 ASP A 102 MG MG A 221 1555 1555 2.64 LINK OE2 GLU A 112 MG MG A 220 1555 1555 2.27 LINK O ILE A 113 MG MG A 220 1555 1555 2.21 LINK MG MG A 220 OP1 DT B 211 1555 1555 1.89 SITE 1 AC1 4 ASP A 102 GLU A 112 ILE A 113 DT B 211 SITE 1 AC2 5 SER A 100 ASP A 102 GLU A 112 DT B 210 SITE 2 AC2 5 DT B 211 CRYST1 108.697 108.697 48.219 90.00 90.00 120.00 P 63 6 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 0.009200 0.005312 0.000000 0.00000 SCALE2 0.000000 0.010623 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020739 0.00000