PDB Short entry for 5A78 HEADER HYDROLASE/DNA 03-JUL-15 5A78 TITLE CRYSTAL STRUCTURE OF THE HOMING ENDONUCLEASE I-CVUI IN COMPLEX WITH I- TITLE 2 CREI TARGET (C1221) IN THE PRESENCE OF 2 MM MG REVEALING DNA NOT TITLE 3 CLEAVED COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA ENDONUCLEASE I-CVUI; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 23S RRNA INTRON PROTEIN; COMPND 5 EC: 3.1.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 24MER DNA, 5'-D(*TP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*AP COMPND 9 *CP*GP*AP*CP*GP*TP*TP*TP*TP*GP*A)-3'; COMPND 10 CHAIN: C, D; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHLORELLA VULGARIS; SOURCE 3 ORGANISM_TAXID: 3077; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VARIANT: ROSETTA PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET24D; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630 KEYWDS HYDROLASE-DNA COMPLEX, GENE TARGETING, GENETICS, PROTEIN-DNA KEYWDS 2 INTERACTION, HOMING ENDONUCLEASES EXPDTA X-RAY DIFFRACTION AUTHOR R.MOLINA,P.REDONDO,B.LOPEZMENDEZ,M.VILLATE,N.MERINO,F.J.BLANCO, AUTHOR 2 J.VALTON,S.GRIZOT,P.DUCHATEAU,J.PRIETO,G.MONTOYA REVDAT 3 10-JAN-24 5A78 1 REMARK LINK REVDAT 2 09-DEC-15 5A78 1 JRNL REVDAT 1 23-SEP-15 5A78 0 JRNL AUTH R.MOLINA,P.REDONDO,B.LOPEZ-MENDEZ,M.VILLATE,N.MERINO, JRNL AUTH 2 F.J.BLANCO,J.VALTON,S.GRIZOT,P.DUCHATEAU,J.PRIETO,G.MONTOYA JRNL TITL CRYSTAL STRUCTURE OF THE HOMING ENDONUCLEASE I-CVUI PROVIDES JRNL TITL 2 A NEW TEMPLATE FOR GENOME MODIFICATION JRNL REF J.BIOL.CHEM. V. 290 28727 2015 JRNL REFN ISSN 0021-9258 JRNL PMID 26363068 JRNL DOI 10.1074/JBC.M115.678342 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.280 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 15781 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.170 REMARK 3 FREE R VALUE TEST SET COUNT : 3094 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 47.5481 - 6.9980 0.99 1264 149 0.1697 0.1841 REMARK 3 2 6.9980 - 5.5573 0.99 1275 146 0.2180 0.2511 REMARK 3 3 5.5573 - 4.8556 0.99 1246 138 0.1980 0.2508 REMARK 3 4 4.8556 - 4.4120 0.99 1267 143 0.1778 0.2202 REMARK 3 5 4.4120 - 4.0960 0.99 1297 142 0.1869 0.2532 REMARK 3 6 4.0960 - 3.8546 0.99 1274 143 0.1835 0.2775 REMARK 3 7 3.8546 - 3.6616 0.99 1262 135 0.2097 0.2414 REMARK 3 8 3.6616 - 3.5023 0.99 1265 138 0.2030 0.3035 REMARK 3 9 3.5023 - 3.3675 0.98 1274 147 0.2287 0.3024 REMARK 3 10 3.3675 - 3.2513 0.97 1208 125 0.2138 0.2474 REMARK 3 11 3.2513 - 3.1497 0.98 1305 144 0.2243 0.3233 REMARK 3 12 3.1497 - 3.0597 0.97 1197 155 0.2305 0.2969 REMARK 3 13 3.0597 - 2.9791 0.98 1301 127 0.2384 0.2670 REMARK 3 14 2.9791 - 2.9065 0.98 1231 144 0.2600 0.4312 REMARK 3 15 2.9065 - 2.8404 0.99 1281 129 0.2680 0.3923 REMARK 3 16 2.8404 - 2.7799 0.98 1264 141 0.2678 0.4137 REMARK 3 17 2.7799 - 2.7243 0.99 1245 140 0.2867 0.3469 REMARK 3 18 2.7243 - 2.6729 0.96 1221 158 0.2865 0.3943 REMARK 3 19 2.6729 - 2.6252 0.98 1290 129 0.2603 0.3664 REMARK 3 20 2.6252 - 2.5807 0.96 1205 135 0.2634 0.4102 REMARK 3 21 2.5807 - 2.5391 0.95 1243 124 0.3107 0.3794 REMARK 3 22 2.5391 - 2.5000 0.96 1222 162 0.3135 0.4305 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 38.500 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 3600 REMARK 3 ANGLE : 1.551 5062 REMARK 3 CHIRALITY : 0.082 599 REMARK 3 PLANARITY : 0.006 467 REMARK 3 DIHEDRAL : 24.056 1416 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5A78 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1290064273. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15872 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 47.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.41000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.700 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: PDB ENTRY 1G9Y REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 47.53950 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 ALA A 2 REMARK 465 GLN A 3 REMARK 465 PRO A 4 REMARK 465 THR A 5 REMARK 465 SER A 163 REMARK 465 ALA A 164 REMARK 465 ALA A 165 REMARK 465 LEU A 166 REMARK 465 GLU A 167 REMARK 465 HIS A 168 REMARK 465 HIS A 169 REMARK 465 HIS A 170 REMARK 465 HIS A 171 REMARK 465 HIS A 172 REMARK 465 HIS A 173 REMARK 465 ALA B 2 REMARK 465 GLN B 3 REMARK 465 PRO B 4 REMARK 465 THR B 5 REMARK 465 ALA B 164 REMARK 465 ALA B 165 REMARK 465 LEU B 166 REMARK 465 GLU B 167 REMARK 465 HIS B 168 REMARK 465 HIS B 169 REMARK 465 HIS B 170 REMARK 465 HIS B 171 REMARK 465 HIS B 172 REMARK 465 HIS B 173 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 NZ LYS B 143 N2 DG D 615 1.26 REMARK 500 NZ LYS A 143 N2 DG C 515 1.64 REMARK 500 O2 DC C 502 O HOH C 2001 2.00 REMARK 500 O ASP A 21 O HOH A 2002 2.01 REMARK 500 OD2 ASP A 75 O HOH A 2011 2.04 REMARK 500 ND2 ASN A 6 OD1 ASP A 9 2.12 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 NZ LYS A 157 OP1 DT D 620 2445 2.15 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 DG C 515 O3' DG C 515 C3' -0.039 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 LYS A 142 N - CA - CB ANGL. DEV. = -11.7 DEGREES REMARK 500 LEU B 58 C - N - CA ANGL. DEV. = -15.5 DEGREES REMARK 500 ASP B 140 CB - CA - C ANGL. DEV. = -18.3 DEGREES REMARK 500 GLY B 141 N - CA - C ANGL. DEV. = -33.0 DEGREES REMARK 500 LYS B 142 N - CA - C ANGL. DEV. = -29.7 DEGREES REMARK 500 DA C 503 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC C 514 C3' - C2' - C1' ANGL. DEV. = -5.1 DEGREES REMARK 500 DC C 514 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DA C 516 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG C 523 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DC D 614 O4' - C1' - N1 ANGL. DEV. = 3.0 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 CYS A 25 101.35 -165.46 REMARK 500 LYS A 39 14.31 54.12 REMARK 500 LEU A 96 -38.88 -36.09 REMARK 500 GLN A 100 -73.83 -129.36 REMARK 500 ASP A 140 -2.71 -55.60 REMARK 500 LYS A 142 34.09 -148.81 REMARK 500 LYS B 39 -12.79 70.09 REMARK 500 LYS B 142 44.17 -143.86 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 D1625 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 22 O REMARK 620 2 ASP B 23 OD2 82.5 REMARK 620 3 DC D 614 OP1 133.0 90.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1164 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 23 OD2 REMARK 620 2 HOH A2009 O 97.1 REMARK 620 3 ALA B 22 O 69.6 67.4 REMARK 620 4 DC C 514 OP1 105.0 105.3 169.6 REMARK 620 5 DG D 615 OP2 85.8 133.1 70.2 119.1 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D 1625 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1164 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5A72 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HOMING ENDONUCLEASE I-CVUI IN COMPLEX WITH REMARK 900 ITS TARGET (SRO1.3) IN THE PRESENCE OF 2 MM CA REMARK 900 RELATED ID: 5A73 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HOMING ENDONUCLEASE I-CVUI IN COMPLEX WITH REMARK 900 ITS TARGET (SRO1.3) IN THE PRESENCE OF 2 MM MG REMARK 900 RELATED ID: 5A74 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HOMING ENDONUCLEASE I-CVUI IN COMPLEX WITH REMARK 900 ITS TARGET (SRO1.3) IN THE PRESENCE OF 2 MM MN REMARK 900 RELATED ID: 5A75 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HOMING ENDONUCLEASE I-CVUI IN COMPLEX WITH REMARK 900 ITS TARGET (SRO1.3) IN THE PRESENCE OF 10 MM MG REMARK 900 RELATED ID: 5A77 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HOMING ENDONUCLEASE I-CVUI IN COMPLEX WITH REMARK 900 I-CREI TARGET (C1221) IN THE PRESENCE OF 2 MM MG REVEALING DNA REMARK 900 CLEAVED DBREF 5A78 A 3 162 UNP P56347 DNE1_CHLVU 2 161 DBREF 5A78 B 3 162 UNP P56347 DNE1_CHLVU 2 161 DBREF 5A78 C 501 524 PDB 5A78 5A78 501 524 DBREF 5A78 D 601 624 PDB 5A78 5A78 601 624 SEQADV 5A78 ALA A 2 UNP P56347 EXPRESSION TAG SEQADV 5A78 SER A 163 UNP P56347 EXPRESSION TAG SEQADV 5A78 ALA A 164 UNP P56347 EXPRESSION TAG SEQADV 5A78 ALA A 165 UNP P56347 EXPRESSION TAG SEQADV 5A78 LEU A 166 UNP P56347 EXPRESSION TAG SEQADV 5A78 GLU A 167 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS A 168 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS A 169 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS A 170 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS A 171 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS A 172 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS A 173 UNP P56347 EXPRESSION TAG SEQADV 5A78 GLN A 54 UNP P56347 ARG 53 CONFLICT SEQADV 5A78 ALA B 2 UNP P56347 EXPRESSION TAG SEQADV 5A78 SER B 163 UNP P56347 EXPRESSION TAG SEQADV 5A78 ALA B 164 UNP P56347 EXPRESSION TAG SEQADV 5A78 ALA B 165 UNP P56347 EXPRESSION TAG SEQADV 5A78 LEU B 166 UNP P56347 EXPRESSION TAG SEQADV 5A78 GLU B 167 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS B 168 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS B 169 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS B 170 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS B 171 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS B 172 UNP P56347 EXPRESSION TAG SEQADV 5A78 HIS B 173 UNP P56347 EXPRESSION TAG SEQADV 5A78 GLN B 54 UNP P56347 ARG 53 CONFLICT SEQRES 1 A 172 ALA GLN PRO THR ASN PHE HIS ASP GLN LEU LYS PHE ALA SEQRES 2 A 172 TRP LEU ALA GLY PHE VAL ASP ALA ASP GLY CYS ILE ASN SEQRES 3 A 172 ALA GLN ILE VAL SER ARG GLU ASP TYR LEU LEU LYS TYR SEQRES 4 A 172 GLN VAL ARG VAL SER LEU THR VAL PHE GLN SER THR THR SEQRES 5 A 172 GLN HIS PHE ILE LEU LEU ASP ILE GLN LYS ILE LEU GLY SEQRES 6 A 172 CYS GLY THR VAL ARG LYS ARG ASN ASP GLY MET SER GLU SEQRES 7 A 172 PHE CYS VAL VAL GLY GLY THR SER LEU GLN THR THR LEU SEQRES 8 A 172 GLU LYS LEU LEU PRO TYR LEU GLN LEU LYS ARG ALA GLN SEQRES 9 A 172 ALA LYS LEU VAL LEU GLN ILE ILE LYS LYS LEU PRO ASN SEQRES 10 A 172 THR LYS ASP PRO SER VAL LEU MET GLU ALA ALA LEU LEU SEQRES 11 A 172 ALA ASP LYS VAL GLY LEU LEU THR ASP GLY LYS LYS ARG SEQRES 12 A 172 THR ILE LEU ALA GLU ASN VAL ARG GLU CYS LEU LYS LYS SEQRES 13 A 172 LEU GLY HIS VAL VAL SER ALA ALA LEU GLU HIS HIS HIS SEQRES 14 A 172 HIS HIS HIS SEQRES 1 B 172 ALA GLN PRO THR ASN PHE HIS ASP GLN LEU LYS PHE ALA SEQRES 2 B 172 TRP LEU ALA GLY PHE VAL ASP ALA ASP GLY CYS ILE ASN SEQRES 3 B 172 ALA GLN ILE VAL SER ARG GLU ASP TYR LEU LEU LYS TYR SEQRES 4 B 172 GLN VAL ARG VAL SER LEU THR VAL PHE GLN SER THR THR SEQRES 5 B 172 GLN HIS PHE ILE LEU LEU ASP ILE GLN LYS ILE LEU GLY SEQRES 6 B 172 CYS GLY THR VAL ARG LYS ARG ASN ASP GLY MET SER GLU SEQRES 7 B 172 PHE CYS VAL VAL GLY GLY THR SER LEU GLN THR THR LEU SEQRES 8 B 172 GLU LYS LEU LEU PRO TYR LEU GLN LEU LYS ARG ALA GLN SEQRES 9 B 172 ALA LYS LEU VAL LEU GLN ILE ILE LYS LYS LEU PRO ASN SEQRES 10 B 172 THR LYS ASP PRO SER VAL LEU MET GLU ALA ALA LEU LEU SEQRES 11 B 172 ALA ASP LYS VAL GLY LEU LEU THR ASP GLY LYS LYS ARG SEQRES 12 B 172 THR ILE LEU ALA GLU ASN VAL ARG GLU CYS LEU LYS LYS SEQRES 13 B 172 LEU GLY HIS VAL VAL SER ALA ALA LEU GLU HIS HIS HIS SEQRES 14 B 172 HIS HIS HIS SEQRES 1 C 24 DT DC DA DA DA DA DC DG DT DC DG DT DA SEQRES 2 C 24 DC DG DA DC DG DT DT DT DT DG DA SEQRES 1 D 24 DT DC DA DA DA DA DC DG DT DC DG DT DA SEQRES 2 D 24 DC DG DA DC DG DT DT DT DT DG DA HET MG B1164 1 HET MG D1625 1 HETNAM MG MAGNESIUM ION FORMUL 5 MG 2(MG 2+) FORMUL 7 HOH *22(H2 O) HELIX 1 1 ASN A 6 ASP A 23 1 18 HELIX 2 2 HIS A 55 GLY A 66 1 12 HELIX 3 3 GLY A 84 LEU A 96 1 13 HELIX 4 4 LYS A 102 LYS A 114 1 13 HELIX 5 5 LYS A 115 THR A 119 5 5 HELIX 6 6 ASP A 121 LEU A 137 1 17 HELIX 7 7 LEU A 147 LEU A 158 1 12 HELIX 8 8 ASN B 6 ASP B 23 1 18 HELIX 9 9 HIS B 55 GLY B 66 1 12 HELIX 10 10 GLY B 84 LEU B 96 1 13 HELIX 11 11 LYS B 102 LEU B 116 1 15 HELIX 12 12 PRO B 117 THR B 119 5 3 HELIX 13 13 ASP B 121 LEU B 138 1 18 HELIX 14 14 LEU B 147 LEU B 158 1 12 SHEET 1 AA 4 GLY A 24 SER A 32 0 SHEET 2 AA 4 TYR A 40 SER A 51 -1 O GLN A 41 N VAL A 31 SHEET 3 AA 4 MET A 77 VAL A 83 -1 O SER A 78 N GLN A 50 SHEET 4 AA 4 THR A 69 LYS A 72 -1 O THR A 69 N CYS A 81 SHEET 1 BA 4 GLY B 24 SER B 32 0 SHEET 2 BA 4 TYR B 40 SER B 51 -1 O GLN B 41 N VAL B 31 SHEET 3 BA 4 MET B 77 VAL B 83 -1 O SER B 78 N GLN B 50 SHEET 4 BA 4 THR B 69 LYS B 72 -1 O THR B 69 N CYS B 81 LINK O ALA A 22 MG MG D1625 1555 1555 2.19 LINK OD2 ASP A 23 MG MG B1164 1555 1555 2.46 LINK O HOH A2009 MG MG B1164 1555 1555 2.56 LINK O ALA B 22 MG MG B1164 1555 1555 2.29 LINK OD2 ASP B 23 MG MG D1625 1555 1555 2.91 LINK MG MG B1164 OP1 DC C 514 1555 1555 2.12 LINK MG MG B1164 OP2 DG D 615 1555 1555 2.91 LINK OP1 DC D 614 MG MG D1625 1555 1555 2.15 SITE 1 AC1 5 ALA A 22 ASP A 23 ASP B 23 DG C 515 SITE 2 AC1 5 DC D 614 SITE 1 AC2 5 ASP A 23 HOH A2009 ALA B 22 DC C 514 SITE 2 AC2 5 DG D 615 CRYST1 48.573 95.079 52.145 90.00 103.71 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 0.020588 0.000000 0.005023 0.00000 SCALE2 0.000000 0.010518 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019740 0.00000