PDB Short entry for 2EX5 HEADER HYDROLASE/DNA 07-NOV-05 2EX5 TITLE GROUP I INTRON-ENCODED HOMING ENDONUCLEASE I-CEUI COMPLEXED WITH DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: I-CEUI DNA TARGET SITE; COMPND 3 CHAIN: X; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: I-CEUI DNA TARGET SITE, COMPLEMENTARY STRAND; COMPND 7 CHAIN: Y; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA ENDONUCLEASE I-CEUI; COMPND 11 CHAIN: A, B; COMPND 12 SYNONYM: 23S RRNA INTRON 1 PROTEIN; COMPND 13 EC: 3.1.-.-; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 OTHER_DETAILS: SYNTHESIZED NUCLEIC ACID; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 9 ORGANISM_TAXID: 32630; SOURCE 10 OTHER_DETAILS: SYNTHESIZED NUCLEIC ACID; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: CHLAMYDOMONAS EUGAMETOS; SOURCE 13 ORGANISM_TAXID: 3053; SOURCE 14 GENE: I-CEUI; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 16 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PET30A KEYWDS HOMING ENDONUCLEASE, LAGLIDADG, HOMODIMER, PROTEIN-DNA COMPLEX, KEYWDS 2 HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.C.SPIEGEL,B.L.STODDARD REVDAT 7 03-APR-24 2EX5 1 REMARK REVDAT 6 14-FEB-24 2EX5 1 REMARK REVDAT 5 20-OCT-21 2EX5 1 REMARK SEQADV LINK REVDAT 4 30-JAN-19 2EX5 1 COMPND SOURCE REVDAT 3 18-OCT-17 2EX5 1 REMARK REVDAT 2 24-FEB-09 2EX5 1 VERSN REVDAT 1 23-MAY-06 2EX5 0 JRNL AUTH P.C.SPIEGEL,B.CHEVALIER,D.SUSSMAN,M.TURMEL,C.LEMIEUX, JRNL AUTH 2 B.L.STODDARD JRNL TITL THE STRUCTURE OF I-CEUI HOMING ENDONUCLEASE: EVOLVING JRNL TITL 2 ASYMMETRIC DNA RECOGNITION FROM A SYMMETRIC PROTEIN JRNL TITL 3 SCAFFOLD. JRNL REF STRUCTURE V. 14 869 2006 JRNL REFN ISSN 0969-2126 JRNL PMID 16698548 JRNL DOI 10.1016/J.STR.2006.03.009 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 29588 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.600 REMARK 3 FREE R VALUE TEST SET COUNT : 2959 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3338 REMARK 3 NUCLEIC ACID ATOMS : 1060 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 263 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.41600 REMARK 3 B22 (A**2) : -9.58200 REMARK 3 B33 (A**2) : 11.99800 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 39.28 REMARK 3 REMARK 3 NCS MODEL : NULL 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2EX5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1000035201. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29588 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : 0.07800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.32400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR, CNS REMARK 200 STARTING MODEL: MOLECULAR REPLACEMENT WAS PERFORMED WITH A REMARK 200 STARTING MODEL GENERATED FROM THE LOWER RESOLUTION MAD PHASES. REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 26-36% (V:V) PEG 400, 100 MM TRISHCL, REMARK 280 100 MM KCL, 10 MM CACL2, PH 8.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K 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 25.11700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 84.70700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.58800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 84.70700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.11700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.58800 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: X, Y, 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 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 C7 DT Y 721 O HOH A 1155 1.58 REMARK 500 O4 DT Y 722 O HOH Y 1236 1.84 REMARK 500 OP2 DA X 606 O HOH X 1109 2.02 REMARK 500 O ASP A 170 NE2 GLN A 173 2.07 REMARK 500 OP1 DC X 612 O HOH X 1042 2.08 REMARK 500 O SER A 196 O HOH A 1204 2.08 REMARK 500 O HOH Y 1002 O HOH Y 1144 2.19 REMARK 500 N4 DC X 612 O6 DG Y 715 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O5' DG Y 701 O HOH Y 1234 2674 1.80 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 DT X 604 C5 DT X 604 C7 0.048 REMARK 500 DA X 606 C5 DA X 606 N7 0.058 REMARK 500 DA X 606 C8 DA X 606 N9 0.057 REMARK 500 DC X 607 O3' DC X 607 C3' -0.050 REMARK 500 DG X 609 C6 DG X 609 N1 0.061 REMARK 500 DG X 609 C5 DG X 609 N7 0.036 REMARK 500 DG X 609 C2 DG X 609 N2 0.063 REMARK 500 DC X 611 C2 DC X 611 O2 0.065 REMARK 500 DC X 611 N1 DC X 611 C6 0.037 REMARK 500 DC X 611 C2 DC X 611 N3 0.063 REMARK 500 DC X 612 O3' DC X 612 C3' -0.068 REMARK 500 DC X 612 C4 DC X 612 C5 0.051 REMARK 500 DG X 616 C5' DG X 616 C4' 0.052 REMARK 500 DT X 618 C6 DT X 618 N1 0.056 REMARK 500 DC X 626 C1' DC X 626 N1 0.084 REMARK 500 DG Y 701 C5' DG Y 701 C4' 0.042 REMARK 500 DG Y 701 C6 DG Y 701 N1 0.050 REMARK 500 DG Y 701 N7 DG Y 701 C8 0.050 REMARK 500 DC Y 702 O3' DC Y 702 C3' -0.065 REMARK 500 DT Y 704 C1' DT Y 704 N1 0.092 REMARK 500 DG Y 706 C5 DG Y 706 N7 0.048 REMARK 500 DC Y 707 N3 DC Y 707 C4 0.046 REMARK 500 DT Y 708 C6 DT Y 708 N1 -0.043 REMARK 500 DT Y 708 C5 DT Y 708 C7 0.039 REMARK 500 DA Y 714 N1 DA Y 714 C2 0.065 REMARK 500 DA Y 714 C2 DA Y 714 N3 0.062 REMARK 500 DA Y 714 N3 DA Y 714 C4 0.057 REMARK 500 DG Y 716 C5' DG Y 716 C4' 0.057 REMARK 500 DG Y 716 O3' DG Y 716 C3' 0.089 REMARK 500 DG Y 716 O3' DA Y 717 P -0.087 REMARK 500 DC Y 718 C1' DC Y 718 N1 0.084 REMARK 500 DG Y 720 C4 DG Y 720 C5 -0.049 REMARK 500 DT Y 721 O3' DT Y 721 C3' -0.037 REMARK 500 DT Y 721 N3 DT Y 721 C4 -0.059 REMARK 500 VAL A 91 CB VAL A 91 CG1 0.165 REMARK 500 GLU A 134 CB GLU A 134 CG -0.121 REMARK 500 PHE A 140 CG PHE A 140 CD1 0.110 REMARK 500 PHE A 140 CZ PHE A 140 CE2 0.119 REMARK 500 GLU B 106 CG GLU B 106 CD -0.105 REMARK 500 LYS B 191 CE LYS B 191 NZ 0.170 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 DC X 601 O4' - C1' - N1 ANGL. DEV. = -11.0 DEGREES REMARK 500 DC X 601 C3' - O3' - P ANGL. DEV. = 7.3 DEGREES REMARK 500 DG X 602 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DG X 602 C5' - C4' - O4' ANGL. DEV. = 8.5 DEGREES REMARK 500 DG X 602 O4' - C1' - N9 ANGL. DEV. = 5.6 DEGREES REMARK 500 DG X 602 N1 - C2 - N2 ANGL. DEV. = 6.2 DEGREES REMARK 500 DG X 602 N3 - C2 - N2 ANGL. DEV. = -7.9 DEGREES REMARK 500 DG X 602 N1 - C6 - O6 ANGL. DEV. = 5.4 DEGREES REMARK 500 DG X 602 C5 - C6 - O6 ANGL. DEV. = -4.5 DEGREES REMARK 500 DA X 603 P - O5' - C5' ANGL. DEV. = -10.2 DEGREES REMARK 500 DA X 603 O4' - C1' - N9 ANGL. DEV. = 8.2 DEGREES REMARK 500 DT X 604 O4' - C1' - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 DT X 604 N1 - C2 - O2 ANGL. DEV. = 4.8 DEGREES REMARK 500 DT X 604 N3 - C2 - O2 ANGL. DEV. = -7.2 DEGREES REMARK 500 DT X 604 C3' - O3' - P ANGL. DEV. = 10.1 DEGREES REMARK 500 DA X 605 O4' - C1' - N9 ANGL. DEV. = -4.8 DEGREES REMARK 500 DA X 605 C5 - C6 - N1 ANGL. DEV. = -3.0 DEGREES REMARK 500 DA X 606 O3' - P - O5' ANGL. DEV. = 14.8 DEGREES REMARK 500 DA X 606 O5' - C5' - C4' ANGL. DEV. = -10.3 DEGREES REMARK 500 DA X 606 C1' - O4' - C4' ANGL. DEV. = -7.4 DEGREES REMARK 500 DA X 606 O4' - C1' - C2' ANGL. DEV. = -7.6 DEGREES REMARK 500 DA X 606 C4 - C5 - N7 ANGL. DEV. = 3.1 DEGREES REMARK 500 DA X 606 C5 - N7 - C8 ANGL. DEV. = -4.0 DEGREES REMARK 500 DC X 607 O3' - P - OP1 ANGL. DEV. = 7.8 DEGREES REMARK 500 DC X 607 O5' - P - OP1 ANGL. DEV. = -9.7 DEGREES REMARK 500 DC X 607 O5' - P - OP2 ANGL. DEV. = 8.3 DEGREES REMARK 500 DC X 607 O4' - C1' - N1 ANGL. DEV. = 11.4 DEGREES REMARK 500 DC X 607 C4 - C5 - C6 ANGL. DEV. = 3.1 DEGREES REMARK 500 DG X 608 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG X 608 C3' - O3' - P ANGL. DEV. = 11.3 DEGREES REMARK 500 DG X 609 O4' - C1' - N9 ANGL. DEV. = 5.1 DEGREES REMARK 500 DG X 609 N1 - C2 - N3 ANGL. DEV. = -3.7 DEGREES REMARK 500 DG X 609 C2 - N3 - C4 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG X 609 C4 - C5 - C6 ANGL. DEV. = -3.6 DEGREES REMARK 500 DG X 609 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG X 609 C6 - C5 - N7 ANGL. DEV. = 4.1 DEGREES REMARK 500 DG X 609 N3 - C2 - N2 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG X 609 N1 - C6 - O6 ANGL. DEV. = -5.2 DEGREES REMARK 500 DT X 610 C5' - C4' - O4' ANGL. DEV. = 8.3 DEGREES REMARK 500 DT X 610 N3 - C2 - O2 ANGL. DEV. = -4.1 DEGREES REMARK 500 DT X 610 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 DC X 611 OP1 - P - OP2 ANGL. DEV. = 12.2 DEGREES REMARK 500 DC X 611 O5' - P - OP2 ANGL. DEV. = -7.0 DEGREES REMARK 500 DC X 611 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DC X 612 O4' - C1' - N1 ANGL. DEV. = 6.1 DEGREES REMARK 500 DC X 612 C5 - C4 - N4 ANGL. DEV. = 4.2 DEGREES REMARK 500 DT X 613 C4' - C3' - C2' ANGL. DEV. = -4.2 DEGREES REMARK 500 DT X 613 O4' - C1' - N1 ANGL. DEV. = 6.0 DEGREES REMARK 500 DT X 613 N3 - C2 - O2 ANGL. DEV. = -4.4 DEGREES REMARK 500 DT X 613 C4 - C5 - C7 ANGL. DEV. = 4.4 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 192 ANGLE DEVIATIONS. 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 ALA A 121 21.22 -164.31 REMARK 500 GLN B 45 64.64 63.03 REMARK 500 GLU B 48 142.17 -37.86 REMARK 500 PHE B 81 -154.65 -113.32 REMARK 500 ARG B 93 138.86 -174.71 REMARK 500 ASN B 96 -28.46 -39.42 REMARK 500 ALA B 121 21.94 -154.81 REMARK 500 ASP B 174 -179.07 -62.06 REMARK 500 GLN B 195 149.72 -39.84 REMARK 500 GLU B 198 135.83 -35.73 REMARK 500 LEU B 203 -87.37 -59.78 REMARK 500 GLU B 204 -56.66 -13.93 REMARK 500 ASP B 208 41.95 -78.93 REMARK 500 PHE B 209 -17.93 -155.73 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 CA X 802 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA X 615 O3' REMARK 620 2 DG X 616 OP2 55.3 REMARK 620 3 DG Y 715 O3' 82.0 84.4 REMARK 620 4 DG Y 716 OP2 78.4 120.7 51.6 REMARK 620 5 GLY A 65 O 134.0 170.6 97.6 66.8 REMARK 620 6 GLU A 66 OE1 142.0 92.2 75.1 108.5 79.6 REMARK 620 7 GLU B 66 OE2 121.8 106.6 156.0 130.1 68.3 83.1 REMARK 620 8 GLU B 66 OE1 73.6 102.0 144.1 97.1 81.7 138.8 55.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 801 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH X1097 O REMARK 620 2 ASP A 86 OD1 85.1 REMARK 620 3 ASP A 86 OD2 83.6 48.7 REMARK 620 4 HOH A1003 O 151.8 74.3 96.4 REMARK 620 5 HOH A1077 O 101.6 117.7 70.4 104.9 REMARK 620 6 HOH A1078 O 96.4 151.3 160.1 92.9 90.2 REMARK 620 7 HOH A1137 O 77.6 69.3 116.3 77.2 172.9 82.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 803 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH X1175 O REMARK 620 2 HOH Y1096 O 77.1 REMARK 620 3 HOH Y1103 O 85.7 67.8 REMARK 620 4 ASP B 86 OD1 104.4 160.2 131.8 REMARK 620 5 ASP B 86 OD2 103.8 154.5 86.7 45.0 REMARK 620 6 HOH B1173 O 75.6 96.0 157.9 65.9 109.0 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 CA A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA X 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 803 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AF5 RELATED DB: PDB REMARK 900 LAGLIDADG HOMING ENDONUCLEASE REMARK 900 RELATED ID: 1BP7 RELATED DB: PDB REMARK 900 LAGLIDADG HOMING ENDONUCLEASE REMARK 900 RELATED ID: 1G9Y RELATED DB: PDB REMARK 900 LAGLIDADG HOMING ENDONUCLEASEE REMARK 900 RELATED ID: 1G9Z RELATED DB: PDB REMARK 900 LAGLIDADG HOMING ENDONUCLEASE REMARK 900 RELATED ID: 1M5X RELATED DB: PDB REMARK 900 LAGLIDADG HOMING ENDONUCLEASE REMARK 900 RELATED ID: 1MOW RELATED DB: PDB REMARK 900 LAGLIDADG HOMING ENDONUCLEASE DBREF 2EX5 A 5 211 UNP P32761 DNE1_CHLEU 5 211 DBREF 2EX5 B 5 211 UNP P32761 DNE1_CHLEU 5 211 DBREF 2EX5 X 601 626 PDB 2EX5 2EX5 601 626 DBREF 2EX5 Y 701 726 PDB 2EX5 2EX5 701 726 SEQADV 2EX5 ARG A 93 UNP P32761 GLN 93 ENGINEERED MUTATION SEQADV 2EX5 ARG B 93 UNP P32761 GLN 93 ENGINEERED MUTATION SEQRES 1 X 26 DC DG DA DT DA DA DC DG DG DT DC DC DT SEQRES 2 X 26 DA DA DG DG DT DA DG DC DG DA DA DG DC SEQRES 1 Y 26 DG DC DT DT DC DG DC DT DA DC DC DT DT SEQRES 2 Y 26 DA DG DG DA DC DC DG DT DT DA DT DC DG SEQRES 1 A 207 ILE LEU LYS PRO GLY GLU LYS LEU PRO GLN ASP LYS LEU SEQRES 2 A 207 GLU GLU LEU LYS LYS ILE ASN ASP ALA VAL LYS LYS THR SEQRES 3 A 207 LYS ASN PHE SER LYS TYR LEU ILE ASP LEU ARG LYS LEU SEQRES 4 A 207 PHE GLN ILE ASP GLU VAL GLN VAL THR SER GLU SER LYS SEQRES 5 A 207 LEU PHE LEU ALA GLY PHE LEU GLU GLY GLU ALA SER LEU SEQRES 6 A 207 ASN ILE SER THR LYS LYS LEU ALA THR SER LYS PHE GLY SEQRES 7 A 207 LEU VAL VAL ASP PRO GLU PHE ASN VAL THR ARG HIS VAL SEQRES 8 A 207 ASN GLY VAL LYS VAL LEU TYR LEU ALA LEU GLU VAL PHE SEQRES 9 A 207 LYS THR GLY ARG ILE ARG HIS LYS SER GLY SER ASN ALA SEQRES 10 A 207 THR LEU VAL LEU THR ILE ASP ASN ARG GLN SER LEU GLU SEQRES 11 A 207 GLU LYS VAL ILE PRO PHE TYR GLU GLN TYR VAL VAL ALA SEQRES 12 A 207 PHE SER SER PRO GLU LYS VAL LYS ARG VAL ALA ASN PHE SEQRES 13 A 207 LYS ALA LEU LEU GLU LEU PHE ASN ASN ASP ALA HIS GLN SEQRES 14 A 207 ASP LEU GLU GLN LEU VAL ASN LYS ILE LEU PRO ILE TRP SEQRES 15 A 207 ASP GLN MET ARG LYS GLN GLN GLY GLN SER ASN GLU GLY SEQRES 16 A 207 PHE PRO ASN LEU GLU ALA ALA GLN ASP PHE ALA ARG SEQRES 1 B 207 ILE LEU LYS PRO GLY GLU LYS LEU PRO GLN ASP LYS LEU SEQRES 2 B 207 GLU GLU LEU LYS LYS ILE ASN ASP ALA VAL LYS LYS THR SEQRES 3 B 207 LYS ASN PHE SER LYS TYR LEU ILE ASP LEU ARG LYS LEU SEQRES 4 B 207 PHE GLN ILE ASP GLU VAL GLN VAL THR SER GLU SER LYS SEQRES 5 B 207 LEU PHE LEU ALA GLY PHE LEU GLU GLY GLU ALA SER LEU SEQRES 6 B 207 ASN ILE SER THR LYS LYS LEU ALA THR SER LYS PHE GLY SEQRES 7 B 207 LEU VAL VAL ASP PRO GLU PHE ASN VAL THR ARG HIS VAL SEQRES 8 B 207 ASN GLY VAL LYS VAL LEU TYR LEU ALA LEU GLU VAL PHE SEQRES 9 B 207 LYS THR GLY ARG ILE ARG HIS LYS SER GLY SER ASN ALA SEQRES 10 B 207 THR LEU VAL LEU THR ILE ASP ASN ARG GLN SER LEU GLU SEQRES 11 B 207 GLU LYS VAL ILE PRO PHE TYR GLU GLN TYR VAL VAL ALA SEQRES 12 B 207 PHE SER SER PRO GLU LYS VAL LYS ARG VAL ALA ASN PHE SEQRES 13 B 207 LYS ALA LEU LEU GLU LEU PHE ASN ASN ASP ALA HIS GLN SEQRES 14 B 207 ASP LEU GLU GLN LEU VAL ASN LYS ILE LEU PRO ILE TRP SEQRES 15 B 207 ASP GLN MET ARG LYS GLN GLN GLY GLN SER ASN GLU GLY SEQRES 16 B 207 PHE PRO ASN LEU GLU ALA ALA GLN ASP PHE ALA ARG HET CA X 802 1 HET CA A 801 1 HET CA B 803 1 HETNAM CA CALCIUM ION FORMUL 5 CA 3(CA 2+) FORMUL 8 HOH *263(H2 O) HELIX 1 1 PRO A 13 LYS A 31 1 19 HELIX 2 2 ASN A 32 GLN A 45 1 14 HELIX 3 3 THR A 52 GLU A 66 1 15 HELIX 4 4 GLY A 97 LYS A 109 1 13 HELIX 5 5 ASN A 129 LYS A 136 1 8 HELIX 6 6 LYS A 136 VAL A 145 1 10 HELIX 7 7 SER A 150 ASN A 169 1 20 HELIX 8 8 ASP A 170 GLN A 173 5 4 HELIX 9 9 ASP A 174 LYS A 181 1 8 HELIX 10 10 LYS A 181 ARG A 190 1 10 HELIX 11 11 ASN A 202 ARG A 211 1 10 HELIX 12 12 PRO B 13 LYS B 31 1 19 HELIX 13 13 ASN B 32 GLN B 45 1 14 HELIX 14 14 THR B 52 GLU B 66 1 15 HELIX 15 15 GLY B 97 LYS B 109 1 13 HELIX 16 16 ASN B 129 LYS B 136 1 8 HELIX 17 17 LYS B 136 VAL B 145 1 10 HELIX 18 18 VAL B 146 SER B 149 5 4 HELIX 19 19 SER B 150 ASN B 168 1 19 HELIX 20 20 LYS B 181 MET B 189 1 9 HELIX 21 21 ASN B 202 ASP B 208 1 7 SHEET 1 A 4 ALA A 67 LYS A 75 0 SHEET 2 A 4 LEU A 83 HIS A 94 -1 O ASP A 86 N SER A 72 SHEET 3 A 4 THR A 122 ILE A 127 -1 O LEU A 125 N VAL A 91 SHEET 4 A 4 ARG A 112 HIS A 115 -1 N ARG A 114 O VAL A 124 SHEET 1 B 4 ALA B 67 LYS B 75 0 SHEET 2 B 4 LEU B 83 HIS B 94 -1 O GLU B 88 N ASN B 70 SHEET 3 B 4 THR B 122 ILE B 127 -1 O LEU B 125 N VAL B 91 SHEET 4 B 4 ARG B 112 HIS B 115 -1 N ARG B 114 O VAL B 124 LINK O3' DA X 615 CA CA X 802 1555 1555 3.04 LINK OP2 DG X 616 CA CA X 802 1555 1555 2.24 LINK CA CA X 802 O3' DG Y 715 1555 1555 3.15 LINK CA CA X 802 OP2 DG Y 716 1555 1555 2.22 LINK CA CA X 802 O GLY A 65 1555 1555 3.20 LINK CA CA X 802 OE1 GLU A 66 1555 1555 2.38 LINK CA CA X 802 OE2 GLU B 66 1555 1555 2.43 LINK CA CA X 802 OE1 GLU B 66 1555 1555 2.44 LINK O HOH X1097 CA CA A 801 1555 1555 2.41 LINK O HOH X1175 CA CA B 803 1555 1555 2.99 LINK O HOH Y1096 CA CA B 803 1555 1555 2.38 LINK O HOH Y1103 CA CA B 803 1555 1555 2.68 LINK OD1 ASP A 86 CA CA A 801 1555 1555 2.61 LINK OD2 ASP A 86 CA CA A 801 1555 1555 2.69 LINK CA CA A 801 O HOH A1003 1555 1555 2.55 LINK CA CA A 801 O HOH A1077 1555 1555 2.27 LINK CA CA A 801 O HOH A1078 1555 1555 2.57 LINK CA CA A 801 O HOH A1137 1555 1555 2.71 LINK OD1 ASP B 86 CA CA B 803 1555 1555 2.92 LINK OD2 ASP B 86 CA CA B 803 1555 1555 2.73 LINK CA CA B 803 O HOH B1173 1555 1555 2.61 SITE 1 AC1 6 ASP A 86 HOH A1003 HOH A1077 HOH A1078 SITE 2 AC1 6 HOH A1137 HOH X1097 SITE 1 AC2 7 GLY A 65 GLU A 66 GLU B 66 DA X 615 SITE 2 AC2 7 DG X 616 DG Y 715 DG Y 716 SITE 1 AC3 5 ASP B 86 HOH B1173 HOH X1175 HOH Y1096 SITE 2 AC3 5 HOH Y1103 CRYST1 50.234 69.176 169.414 90.00 90.00 90.00 P 21 21 21 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 0.019910 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014460 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005900 0.00000