HEADER ENDONUCLEASE 29-AUG-00 1E7L TITLE ENDONUCLEASE VII (ENDOVII) N62D MUTANT FROM PHAGE T4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RECOMBINATION ENDONUCLEASE VII; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GP49; COMPND 5 EC: 3.1.22.4; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: ONE ZN BOUND TO CYS 23,26,58,61 OF EACH CHAIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTERIOPHAGE T4; SOURCE 3 ORGANISM_TAXID: 10665; SOURCE 4 GENE: GP49; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_CELLULAR_LOCATION: CYTOPLASM; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET24D KEYWDS ENDONUCLEASE, RESOLVASE, HOLLIDAY JUNCTION, DNASE EXPDTA X-RAY DIFFRACTION AUTHOR H.C.A.RAAIJMAKERS,O.VIX,I.TORO,D.SUCK REVDAT 7 08-MAY-24 1E7L 1 LINK REVDAT 6 24-JUL-19 1E7L 1 REMARK REVDAT 5 08-MAY-19 1E7L 1 REMARK REVDAT 4 24-FEB-09 1E7L 1 VERSN REVDAT 3 18-DEC-03 1E7L 1 COMPND REVDAT 2 16-AUG-01 1E7L 1 HETATM ANISOU REVDAT 1 04-MAY-01 1E7L 0 JRNL AUTH H.C.A.RAAIJMAKERS,I.TORO,R.BIRKENBIHL,B.KEMPER,D.SUCK JRNL TITL CONFORMATIONAL FLEXIBILITY IN T4 ENDONUCLEASE VII REVEALED JRNL TITL 2 BY CRYSTALLOGRAPHY: IMPLICATIONS FOR SUBSTRATE BINDING AND JRNL TITL 3 CLEAVAGE JRNL REF J.MOL.BIOL. V. 308 311 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11327769 JRNL DOI 10.1006/JMBI.2001.4592 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.RAAIJMAKERS,O.VIX,I.TORO,S.GOLZ,B.KEMPER,D.SUCK REMARK 1 TITL X-RAY STRUCTURE OF T4 ENDONUCLEASE VII - A DNA JUNCTION REMARK 1 TITL 2 RESOLVASE WITH A NOVEL FOLD AND UNUSUAL DOMAIN SWAPPED DIMER REMARK 1 TITL 3 ARCHITECTURE (IN: NO.6) REMARK 1 REF EMBO J. V. 18 1447 1999 REMARK 1 REFN ISSN 0261-4189 REMARK 1 PMID 10075917 REMARK 1 DOI 10.1093/EMBOJ/18.6.1447 REMARK 2 REMARK 2 RESOLUTION. 1.32 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 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 83878 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) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4207 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2544 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 72 REMARK 3 SOLVENT ATOMS : 428 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.047 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.051 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.010 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.228 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.010 ; NULL REMARK 3 ANGLE DISTANCE (A) : 0.019 ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.025 ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : 0.119 ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.008 ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.091 ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1E7L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-AUG-00. REMARK 100 THE DEPOSITION ID IS D_1290004307. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-98 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8345 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 81068 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.320 REMARK 200 RESOLUTION RANGE LOW (A) : 27.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 2.990 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06000 REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.30100 REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIRAS REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HANGING DROP VAPOUR DIFFUSION DROP REMARK 280 SIZE: 1 + 1 UL PROTEIN SOLUTION: 12 MG/ML ENDOVII, 175 MM NACL, REMARK 280 20 MM MGCL2, 2 MM ZNCL2, 10 MM 2-MERCAPTO-ETHANOL, 10 % GLYCEROL, REMARK 280 10 MM MOPS PH6 WELL: 16-18% PEG5KMME, 200 MM AMMONIUM SULPHATE, REMARK 280 10 MM 2-MERCAPTO-ETHANOL, 100 MM TRIS PH 4.5, ~1 MM SODIUM AZIDE, REMARK 280 20 MM MAGNESIUM ACETATE, PH 4.50, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 17.91500 REMARK 290 SMTRY3 2 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: BIOLOGICAL_UNIT: DIMERIC 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 7910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.9 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 400 REMARK 400 COMPOUND REMARK 400 CHAIN A, B ENGINEERED MUTATION ASN62ASP REMARK 400 ASN62ASP IS AN INACTIVE MUTANT REMARK 400 THE ENZYME CLEAVES DNA CRUCIFORM AND Y-STRUCTURES AND REMARK 400 HETERODUPLEX LOOPS 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 NH1 ARG B 118 O HOH B 2169 1.44 REMARK 500 NZ LYS A 22 O HOH A 2050 1.96 REMARK 500 O HOH B 2084 O HOH B 2087 2.03 REMARK 500 O2 SO4 A 1158 O HOH A 2185 2.14 REMARK 500 O4 SO4 B 1160 O HOH B 2232 2.16 REMARK 500 O HOH A 2028 O HOH A 2070 2.16 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 LYS A 52 CD LYS A 52 CE 0.164 REMARK 500 LYS A 52 CE LYS A 52 NZ 0.332 REMARK 500 ARG B 118 CB ARG B 118 CG 0.339 REMARK 500 ARG B 118 CG ARG B 118 CD 0.317 REMARK 500 ARG B 118 CZ ARG B 118 NH1 0.153 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 ARG A 28 CD - NE - CZ ANGL. DEV. = 13.3 DEGREES REMARK 500 LYS A 52 CD - CE - NZ ANGL. DEV. = -16.1 DEGREES REMARK 500 ARG A 54 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 153 CG - CD - NE ANGL. DEV. = 12.7 DEGREES REMARK 500 ARG A 153 CD - NE - CZ ANGL. DEV. = 8.4 DEGREES REMARK 500 ARG B 118 CA - CB - CG ANGL. DEV. = -16.6 DEGREES REMARK 500 ARG B 118 CB - CG - CD ANGL. DEV. = -17.8 DEGREES REMARK 500 ARG B 118 CG - CD - NE ANGL. DEV. = -15.9 DEGREES REMARK 500 ARG B 118 CD - NE - CZ ANGL. DEV. = 10.1 DEGREES REMARK 500 ARG B 118 NE - CZ - NH2 ANGL. DEV. = -50.0 DEGREES REMARK 500 ARG B 131 CD - NE - CZ ANGL. DEV. = 9.3 DEGREES REMARK 500 ARG B 131 NE - CZ - NH1 ANGL. DEV. = 3.2 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 ILE A 25 -61.61 -101.18 REMARK 500 ILE B 25 -65.95 -100.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 118 0.23 SIDE CHAIN 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 LEU A 92 13.87 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 B2072 DISTANCE = 5.87 ANGSTROMS 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 ZN A1165 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 23 SG REMARK 620 2 CYS A 26 SG 108.4 REMARK 620 3 CYS A 58 SG 116.4 113.5 REMARK 620 4 CYS A 61 SG 108.0 105.7 104.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1165 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 23 SG REMARK 620 2 CYS B 26 SG 106.9 REMARK 620 3 CYS B 58 SG 113.5 114.8 REMARK 620 4 CYS B 61 SG 107.9 107.6 105.8 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 SO4 A1158 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1159 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1160 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1161 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1162 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1164 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1165 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1158 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1159 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1160 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1161 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1162 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1163 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1164 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1165 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1E7D RELATED DB: PDB REMARK 900 ENDONUCLEASE VII (ENDOVII) FROM PHAGE T4 REMARK 900 RELATED ID: 1EN7 RELATED DB: PDB REMARK 900 ENDONUCLEASE VII (ENDOVII) FROM PHAGE T4 DBREF 1E7L A 1 157 UNP P13340 END7_BPT4 1 157 DBREF 1E7L B 1 157 UNP P13340 END7_BPT4 1 157 SEQADV 1E7L ASP A 62 UNP P13340 ASN 62 ENGINEERED MUTATION SEQADV 1E7L ASP B 62 UNP P13340 ASN 62 ENGINEERED MUTATION SEQRES 1 A 157 MET LEU LEU THR GLY LYS LEU TYR LYS GLU GLU LYS GLN SEQRES 2 A 157 LYS PHE TYR ASP ALA GLN ASN GLY LYS CYS LEU ILE CYS SEQRES 3 A 157 GLN ARG GLU LEU ASN PRO ASP VAL GLN ALA ASN HIS LEU SEQRES 4 A 157 ASP HIS ASP HIS GLU LEU ASN GLY PRO LYS ALA GLY LYS SEQRES 5 A 157 VAL ARG GLY LEU LEU CYS ASN LEU CYS ASP ALA ALA GLU SEQRES 6 A 157 GLY GLN MET LYS HIS LYS PHE ASN ARG SER GLY LEU LYS SEQRES 7 A 157 GLY GLN GLY VAL ASP TYR LEU GLU TRP LEU GLU ASN LEU SEQRES 8 A 157 LEU THR TYR LEU LYS SER ASP TYR THR GLN ASN ASN ILE SEQRES 9 A 157 HIS PRO ASN PHE VAL GLY ASP LYS SER LYS GLU PHE SER SEQRES 10 A 157 ARG LEU GLY LYS GLU GLU MET MET ALA GLU MET LEU GLN SEQRES 11 A 157 ARG GLY PHE GLU TYR ASN GLU SER ASP THR LYS THR GLN SEQRES 12 A 157 LEU ILE ALA SER PHE LYS LYS GLN LEU ARG LYS SER LEU SEQRES 13 A 157 LYS SEQRES 1 B 157 MET LEU LEU THR GLY LYS LEU TYR LYS GLU GLU LYS GLN SEQRES 2 B 157 LYS PHE TYR ASP ALA GLN ASN GLY LYS CYS LEU ILE CYS SEQRES 3 B 157 GLN ARG GLU LEU ASN PRO ASP VAL GLN ALA ASN HIS LEU SEQRES 4 B 157 ASP HIS ASP HIS GLU LEU ASN GLY PRO LYS ALA GLY LYS SEQRES 5 B 157 VAL ARG GLY LEU LEU CYS ASN LEU CYS ASP ALA ALA GLU SEQRES 6 B 157 GLY GLN MET LYS HIS LYS PHE ASN ARG SER GLY LEU LYS SEQRES 7 B 157 GLY GLN GLY VAL ASP TYR LEU GLU TRP LEU GLU ASN LEU SEQRES 8 B 157 LEU THR TYR LEU LYS SER ASP TYR THR GLN ASN ASN ILE SEQRES 9 B 157 HIS PRO ASN PHE VAL GLY ASP LYS SER LYS GLU PHE SER SEQRES 10 B 157 ARG LEU GLY LYS GLU GLU MET MET ALA GLU MET LEU GLN SEQRES 11 B 157 ARG GLY PHE GLU TYR ASN GLU SER ASP THR LYS THR GLN SEQRES 12 B 157 LEU ILE ALA SER PHE LYS LYS GLN LEU ARG LYS SER LEU SEQRES 13 B 157 LYS HET SO4 A1158 10 HET SO4 A1159 5 HET SO4 A1160 5 HET SO4 A1161 5 HET SO4 A1162 5 HET SO4 A1163 5 HET SO4 A1164 5 HET ZN A1165 1 HET SO4 B1158 5 HET SO4 B1159 5 HET SO4 B1160 10 HET SO4 B1161 5 HET SO4 B1162 5 HET SO4 B1163 5 HET SO4 B1164 5 HET ZN B1165 1 HETNAM SO4 SULFATE ION HETNAM ZN ZINC ION FORMUL 3 SO4 14(O4 S 2-) FORMUL 10 ZN 2(ZN 2+) FORMUL 19 HOH *428(H2 O) HELIX 1 1 GLY A 5 GLN A 19 1 15 HELIX 2 2 ASP A 33 ASN A 37 5 5 HELIX 3 3 CYS A 58 SER A 75 1 18 HELIX 4 4 LEU A 77 GLY A 81 5 5 HELIX 5 5 ASP A 83 SER A 97 1 15 HELIX 6 6 PRO A 106 ARG A 118 1 13 HELIX 7 7 GLY A 120 ARG A 131 1 12 HELIX 8 8 THR A 140 LEU A 156 1 17 HELIX 9 9 LYS B 6 GLN B 19 1 14 HELIX 10 10 ASP B 33 ASN B 37 5 5 HELIX 11 11 CYS B 58 SER B 75 1 18 HELIX 12 12 LEU B 77 GLY B 81 5 5 HELIX 13 13 ASP B 83 SER B 97 1 15 HELIX 14 14 ASN B 107 ARG B 118 1 12 HELIX 15 15 GLY B 120 ARG B 131 1 12 HELIX 16 16 THR B 140 LYS B 157 1 18 SHEET 1 A 2 HIS A 38 HIS A 41 0 SHEET 2 A 2 VAL A 53 LEU A 57 -1 N ARG A 54 O ASP A 40 SHEET 1 B 2 HIS B 38 HIS B 41 0 SHEET 2 B 2 VAL B 53 LEU B 57 -1 N ARG B 54 O ASP B 40 LINK SG CYS A 23 ZN ZN A1165 1555 1555 2.34 LINK SG CYS A 26 ZN ZN A1165 1555 1555 2.35 LINK SG CYS A 58 ZN ZN A1165 1555 1555 2.31 LINK SG CYS A 61 ZN ZN A1165 1555 1555 2.32 LINK SG CYS B 23 ZN ZN B1165 1555 1555 2.37 LINK SG CYS B 26 ZN ZN B1165 1555 1555 2.35 LINK SG CYS B 58 ZN ZN B1165 1555 1555 2.36 LINK SG CYS B 61 ZN ZN B1165 1555 1555 2.31 SITE 1 AC1 13 HIS A 41 ASP A 42 HIS A 43 ARG A 54 SITE 2 AC1 13 GLU A 65 LYS A 69 HOH A2074 HOH A2179 SITE 3 AC1 13 HOH A2180 HOH A2181 HOH A2182 HOH A2183 SITE 4 AC1 13 HOH A2185 SITE 1 AC2 5 GLY A 120 LYS A 121 LYS A 141 HOH A2186 SITE 2 AC2 5 ARG B 118 SITE 1 AC3 8 HIS A 41 HIS A 43 HOH A2100 HOH A2187 SITE 2 AC3 8 HOH A2188 HOH A2190 HOH A2191 ASN B 107 SITE 1 AC4 4 HIS A 70 ASN A 73 ARG A 74 GLU A 122 SITE 1 AC5 4 LYS A 121 THR A 140 LYS A 141 HOH A2167 SITE 1 AC6 4 GLU A 44 LEU A 45 ASN A 46 HOH A2192 SITE 1 AC7 3 HIS A 70 LYS A 71 ARG A 74 SITE 1 AC8 4 CYS A 23 CYS A 26 CYS A 58 CYS A 61 SITE 1 AC9 7 TYR B 8 LYS B 12 HIS B 38 LEU B 39 SITE 2 AC9 7 HOH B2224 HOH B2225 HOH B2233 SITE 1 BC1 5 VAL B 109 LYS B 149 ARG B 153 HOH B2155 SITE 2 BC1 5 HOH B2227 SITE 1 BC2 12 HIS B 41 ASP B 42 HIS B 43 ARG B 54 SITE 2 BC2 12 GLU B 65 LYS B 69 HOH B2070 HOH B2228 SITE 3 BC2 12 HOH B2229 HOH B2230 HOH B2231 HOH B2232 SITE 1 BC3 5 ASN A 107 HIS B 38 HIS B 41 HIS B 43 SITE 2 BC3 5 HOH B2233 SITE 1 BC4 5 ARG A 118 GLY B 120 LYS B 121 LYS B 141 SITE 2 BC4 5 HOH B2234 SITE 1 BC5 4 LYS B 121 THR B 140 LYS B 141 HOH B2235 SITE 1 BC6 5 HIS B 70 ASN B 73 ARG B 74 GLU B 122 SITE 2 BC6 5 HOH B2175 SITE 1 BC7 4 CYS B 23 CYS B 26 CYS B 58 CYS B 61 CRYST1 58.240 35.830 91.930 90.00 103.93 90.00 P 1 21 1 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 0.017170 0.000000 0.004259 0.00000 SCALE2 0.000000 0.027909 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011207 0.00000