PDB Short entry for 1RVC HEADER HYDROLASE/DNA 21-OCT-94 1RVC TITLE MG2+ BINDING TO THE ACTIVE SITE OF ECO RV ENDONUCLEASE: A TITLE 2 CRYSTALLOGRAPHIC STUDY OF COMPLEXES WITH SUBSTRATE AND PRODUCT DNA AT TITLE 3 2 ANGSTROMS RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*AP*AP*AP*GP*AP*T)-3'); COMPND 3 CHAIN: C, E; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(*AP*TP*CP*TP*T)-3'); COMPND 7 CHAIN: D, F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: PROTEIN (ECO RV (E.C.3.1.21.4)); COMPND 11 CHAIN: A, B; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 7 ORGANISM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN-DNA COMPLEX, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.KOSTREWA,F.K.WINKLER REVDAT 4 14-FEB-24 1RVC 1 REMARK LINK REVDAT 3 24-FEB-09 1RVC 1 VERSN REVDAT 2 01-APR-03 1RVC 1 JRNL REVDAT 1 26-JAN-95 1RVC 0 JRNL AUTH D.KOSTREWA,F.K.WINKLER JRNL TITL MG2+ BINDING TO THE ACTIVE SITE OF ECORV ENDONUCLEASE: A JRNL TITL 2 CRYSTALLOGRAPHIC STUDY OF COMPLEXES WITH SUBSTRATE AND JRNL TITL 3 PRODUCT DNA AT 2 A RESOLUTION. JRNL REF BIOCHEMISTRY V. 34 683 1995 JRNL REFN ISSN 0006-2960 JRNL PMID 7819264 JRNL DOI 10.1021/BI00002A036 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH F.K.WINKLER,D.W.BANNER,C.OEFNER,D.TSERNOGLOU,R.S.BROWN, REMARK 1 AUTH 2 S.P.HEATHMAN,R.K.BRYAN,P.D.MARTIN,K.PETRATOS,K.S.WILSON REMARK 1 TITL THE CRYSTAL STRUCTURE OF ECORV ENDONUCLEASE AND OF ITS REMARK 1 TITL 2 COMPLEXES WITH COGNATE AND NONCOGNATE DNA FRAGMENTS REMARK 1 REF EMBO J. V. 12 1781 1993 REMARK 1 REFN ISSN 0261-4189 REMARK 1 REFERENCE 2 REMARK 1 AUTH F.K.WINKLER REMARK 1 TITL STRUCTURE AND FUNCTION OF RESTRICTION ENDONUCLEASES REMARK 1 REF CURR.OPIN.STRUCT.BIOL. V. 2 93 1992 REMARK 1 REFN ISSN 0959-440X REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 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) (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 26645 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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 : 4046 REMARK 3 NUCLEIC ACID ATOMS : 448 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 219 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL 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 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) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.830 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 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1RVC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000176242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 APPLY THE FOLLOWING TO CHAINS: C, D, E, F, 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: 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 DA C 1 C5' DA C 1 C4' 0.048 REMARK 500 DA C 1 N9 DA C 1 C4 0.041 REMARK 500 DA D 7 N9 DA D 7 C4 0.038 REMARK 500 DT D 8 C5 DT D 8 C7 0.038 REMARK 500 DT D 10 O4' DT D 10 C4' -0.067 REMARK 500 DT D 11 C5 DT D 11 C7 0.051 REMARK 500 DA E 1 C5' DA E 1 C4' 0.080 REMARK 500 DA E 2 P DA E 2 O5' 0.065 REMARK 500 DT F 10 C5 DT F 10 C7 0.074 REMARK 500 DT F 11 C5 DT F 11 C7 0.056 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 DA C 2 O4' - C1' - N9 ANGL. DEV. = -5.8 DEGREES REMARK 500 DA C 3 C3' - O3' - P ANGL. DEV. = 7.9 DEGREES REMARK 500 DG C 4 C1' - O4' - C4' ANGL. DEV. = -6.3 DEGREES REMARK 500 DG C 4 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG C 4 O4' - C1' - N9 ANGL. DEV. = 5.9 DEGREES REMARK 500 DA C 5 O4' - C1' - N9 ANGL. DEV. = -4.3 DEGREES REMARK 500 DA C 5 C6 - N1 - C2 ANGL. DEV. = 4.3 DEGREES REMARK 500 DT C 6 O4' - C1' - N1 ANGL. DEV. = 8.0 DEGREES REMARK 500 DA D 7 O4' - C1' - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 DT D 8 C1' - O4' - C4' ANGL. DEV. = -10.4 DEGREES REMARK 500 DT D 8 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DT D 8 C6 - C5 - C7 ANGL. DEV. = -4.6 DEGREES REMARK 500 DT D 8 C3' - O3' - P ANGL. DEV. = 12.8 DEGREES REMARK 500 DT D 10 O4' - C1' - N1 ANGL. DEV. = -6.9 DEGREES REMARK 500 DT D 11 C4 - C5 - C7 ANGL. DEV. = 4.1 DEGREES REMARK 500 DT D 11 C6 - C5 - C7 ANGL. DEV. = -5.1 DEGREES REMARK 500 DA E 1 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DA E 1 O4' - C1' - N9 ANGL. DEV. = -5.6 DEGREES REMARK 500 DA E 3 C1' - O4' - C4' ANGL. DEV. = -6.1 DEGREES REMARK 500 DA E 3 C4' - C3' - C2' ANGL. DEV. = 5.5 DEGREES REMARK 500 DA E 3 C3' - O3' - P ANGL. DEV. = 9.2 DEGREES REMARK 500 DG E 4 C3' - C2' - C1' ANGL. DEV. = -5.1 DEGREES REMARK 500 DG E 4 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DA E 5 O4' - C1' - C2' ANGL. DEV. = 3.2 DEGREES REMARK 500 DT E 6 O4' - C4' - C3' ANGL. DEV. = -3.1 DEGREES REMARK 500 DT E 6 O4' - C1' - N1 ANGL. DEV. = 3.9 DEGREES REMARK 500 DT F 10 O4' - C1' - N1 ANGL. DEV. = -5.6 DEGREES REMARK 500 DT F 10 C6 - C5 - C7 ANGL. DEV. = -4.0 DEGREES REMARK 500 DT F 11 O4' - C1' - C2' ANGL. DEV. = 3.1 DEGREES REMARK 500 DT F 11 C6 - C5 - C7 ANGL. DEV. = -4.4 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 SER A 112 -117.64 -98.82 REMARK 500 ASN A 117 -28.32 -38.45 REMARK 500 ASN A 154 2.84 -69.41 REMARK 500 THR A 187 68.15 33.19 REMARK 500 LYS A 229 -103.15 -114.67 REMARK 500 ASN B 70 40.91 -105.38 REMARK 500 SER B 112 -115.62 -99.15 REMARK 500 ASN B 117 -33.49 -34.65 REMARK 500 THR B 187 67.93 30.49 REMARK 500 LYS B 229 -85.84 -125.90 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 D 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA D 7 OP1 REMARK 620 2 HOH D 184 O 110.8 REMARK 620 3 HOH D 240 O 78.9 85.8 REMARK 620 4 HOH D 299 O 107.7 96.5 171.5 REMARK 620 5 GLN A 69 O 137.3 99.6 74.1 97.5 REMARK 620 6 HOH A 486 O 83.3 165.9 96.6 79.2 68.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA D 7 OP2 REMARK 620 2 HOH D 153 O 89.6 REMARK 620 3 GLU A 45 OE2 93.1 173.9 REMARK 620 4 ASP A 74 OD1 94.7 92.1 82.2 REMARK 620 5 ASP A 74 OD2 151.8 91.7 83.3 57.1 REMARK 620 6 HOH A 487 O 101.8 86.8 98.0 163.4 106.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG F 404 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA F 7 OP1 REMARK 620 2 HOH F 126 O 88.1 REMARK 620 3 HOH A 483 O 95.3 79.3 REMARK 620 4 GLN B 69 O 169.7 86.4 92.2 REMARK 620 5 HOH B 460 O 87.4 79.8 158.9 83.0 REMARK 620 6 HOH B 476 O 100.2 168.7 92.2 86.5 108.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA F 7 OP2 REMARK 620 2 HOH F 291 O 85.6 REMARK 620 3 GLU B 45 OE2 94.9 171.8 REMARK 620 4 ASP B 74 OD2 158.5 87.3 89.3 REMARK 620 5 ASP B 74 OD1 99.1 83.2 88.7 59.9 REMARK 620 6 HOH B 481 O 97.3 92.8 95.2 103.3 162.7 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG F 404 DBREF 1RVC A 2 245 UNP P04390 T2E5_ECOLI 1 244 DBREF 1RVC B 2 245 UNP P04390 T2E5_ECOLI 1 244 DBREF 1RVC C 1 6 PDB 1RVC 1RVC 1 6 DBREF 1RVC D 7 11 PDB 1RVC 1RVC 7 11 DBREF 1RVC E 1 6 PDB 1RVC 1RVC 1 6 DBREF 1RVC F 7 11 PDB 1RVC 1RVC 7 11 SEQRES 1 C 6 DA DA DA DG DA DT SEQRES 1 D 5 DA DT DC DT DT SEQRES 1 E 6 DA DA DA DG DA DT SEQRES 1 F 5 DA DT DC DT DT SEQRES 1 A 244 SER LEU ARG SER ASP LEU ILE ASN ALA LEU TYR ASP GLU SEQRES 2 A 244 ASN GLN LYS TYR ASP VAL CYS GLY ILE ILE SER ALA GLU SEQRES 3 A 244 GLY LYS ILE TYR PRO LEU GLY SER ASP THR LYS VAL LEU SEQRES 4 A 244 SER THR ILE PHE GLU LEU PHE SER ARG PRO ILE ILE ASN SEQRES 5 A 244 LYS ILE ALA GLU LYS HIS GLY TYR ILE VAL GLU GLU PRO SEQRES 6 A 244 LYS GLN GLN ASN HIS TYR PRO ASP PHE THR LEU TYR LYS SEQRES 7 A 244 PRO SER GLU PRO ASN LYS LYS ILE ALA ILE ASP ILE LYS SEQRES 8 A 244 THR THR TYR THR ASN LYS GLU ASN GLU LYS ILE LYS PHE SEQRES 9 A 244 THR LEU GLY GLY TYR THR SER PHE ILE ARG ASN ASN THR SEQRES 10 A 244 LYS ASN ILE VAL TYR PRO PHE ASP GLN TYR ILE ALA HIS SEQRES 11 A 244 TRP ILE ILE GLY TYR VAL TYR THR ARG VAL ALA THR ARG SEQRES 12 A 244 LYS SER SER LEU LYS THR TYR ASN ILE ASN GLU LEU ASN SEQRES 13 A 244 GLU ILE PRO LYS PRO TYR LYS GLY VAL LYS VAL PHE LEU SEQRES 14 A 244 GLN ASP LYS TRP VAL ILE ALA GLY ASP LEU ALA GLY SER SEQRES 15 A 244 GLY ASN THR THR ASN ILE GLY SER ILE HIS ALA HIS TYR SEQRES 16 A 244 LYS ASP PHE VAL GLU GLY LYS GLY ILE PHE ASP SER GLU SEQRES 17 A 244 ASP GLU PHE LEU ASP TYR TRP ARG ASN TYR GLU ARG THR SEQRES 18 A 244 SER GLN LEU ARG ASN ASP LYS TYR ASN ASN ILE SER GLU SEQRES 19 A 244 TYR ARG ASN TRP ILE TYR ARG GLY ARG LYS SEQRES 1 B 244 SER LEU ARG SER ASP LEU ILE ASN ALA LEU TYR ASP GLU SEQRES 2 B 244 ASN GLN LYS TYR ASP VAL CYS GLY ILE ILE SER ALA GLU SEQRES 3 B 244 GLY LYS ILE TYR PRO LEU GLY SER ASP THR LYS VAL LEU SEQRES 4 B 244 SER THR ILE PHE GLU LEU PHE SER ARG PRO ILE ILE ASN SEQRES 5 B 244 LYS ILE ALA GLU LYS HIS GLY TYR ILE VAL GLU GLU PRO SEQRES 6 B 244 LYS GLN GLN ASN HIS TYR PRO ASP PHE THR LEU TYR LYS SEQRES 7 B 244 PRO SER GLU PRO ASN LYS LYS ILE ALA ILE ASP ILE LYS SEQRES 8 B 244 THR THR TYR THR ASN LYS GLU ASN GLU LYS ILE LYS PHE SEQRES 9 B 244 THR LEU GLY GLY TYR THR SER PHE ILE ARG ASN ASN THR SEQRES 10 B 244 LYS ASN ILE VAL TYR PRO PHE ASP GLN TYR ILE ALA HIS SEQRES 11 B 244 TRP ILE ILE GLY TYR VAL TYR THR ARG VAL ALA THR ARG SEQRES 12 B 244 LYS SER SER LEU LYS THR TYR ASN ILE ASN GLU LEU ASN SEQRES 13 B 244 GLU ILE PRO LYS PRO TYR LYS GLY VAL LYS VAL PHE LEU SEQRES 14 B 244 GLN ASP LYS TRP VAL ILE ALA GLY ASP LEU ALA GLY SER SEQRES 15 B 244 GLY ASN THR THR ASN ILE GLY SER ILE HIS ALA HIS TYR SEQRES 16 B 244 LYS ASP PHE VAL GLU GLY LYS GLY ILE PHE ASP SER GLU SEQRES 17 B 244 ASP GLU PHE LEU ASP TYR TRP ARG ASN TYR GLU ARG THR SEQRES 18 B 244 SER GLN LEU ARG ASN ASP LYS TYR ASN ASN ILE SER GLU SEQRES 19 B 244 TYR ARG ASN TRP ILE TYR ARG GLY ARG LYS HET MG D 402 1 HET MG F 404 1 HET MG A 401 1 HET MG B 403 1 HETNAM MG MAGNESIUM ION FORMUL 7 MG 4(MG 2+) FORMUL 11 HOH *219(H2 O) HELIX 1 1 SER A 2 TYR A 18 1 17 HELIX 2 2 ASP A 36 HIS A 59 1 24 HELIX 3 3 PRO A 124 ASP A 126 5 3 HELIX 4 4 LYS A 145 LYS A 149 5 5 HELIX 5 5 ASN A 154 ILE A 159 5 6 HELIX 6 6 LYS A 173 ILE A 176 1 4 HELIX 7 7 HIS A 195 GLY A 202 1 8 HELIX 8 8 SER A 208 ASN A 218 1 11 HELIX 9 9 THR A 222 ASN A 227 1 6 HELIX 10 10 ASN A 232 ARG A 242 1 11 HELIX 11 11 SER B 2 TYR B 18 1 17 HELIX 12 12 ASP B 36 HIS B 59 1 24 HELIX 13 13 PRO B 124 ASP B 126 5 3 HELIX 14 14 ASN B 154 ILE B 159 5 6 HELIX 15 15 LYS B 173 ILE B 176 1 4 HELIX 16 16 HIS B 195 GLY B 202 1 8 HELIX 17 17 SER B 208 ASN B 218 1 11 HELIX 18 18 THR B 222 ASN B 227 1 6 HELIX 19 19 ASN B 232 ARG B 242 1 11 SHEET 1 A 6 TYR A 151 ASN A 152 0 SHEET 2 A 6 LYS A 29 PRO A 32 -1 N ILE A 30 O TYR A 151 SHEET 3 A 6 VAL A 20 SER A 25 -1 O ILE A 23 N TYR A 31 SHEET 4 A 6 VAL B 20 SER B 25 -1 N CYS B 21 O ILE A 24 SHEET 5 A 6 LYS B 29 PRO B 32 -1 O LYS B 29 N SER B 25 SHEET 6 A 6 TYR B 151 ASN B 152 -1 O TYR B 151 N ILE B 30 SHEET 1 B 5 ILE A 62 GLU A 64 0 SHEET 2 B 5 PHE A 75 TYR A 78 -1 N THR A 76 O GLU A 64 SHEET 3 B 5 LYS A 86 THR A 96 -1 N ILE A 87 O LEU A 77 SHEET 4 B 5 TYR A 128 ARG A 140 1 N ILE A 129 O LYS A 86 SHEET 5 B 5 TYR A 163 ASP A 172 -1 N LYS A 164 O THR A 139 SHEET 1 C 3 THR A 106 GLY A 109 0 SHEET 2 C 3 ASN A 188 SER A 191 -1 O ILE A 189 N LEU A 107 SHEET 3 C 3 ALA A 177 SER A 183 -1 N GLY A 178 O GLY A 190 SHEET 1 D 5 ILE B 62 GLU B 64 0 SHEET 2 D 5 PHE B 75 TYR B 78 -1 N THR B 76 O GLU B 64 SHEET 3 D 5 LYS B 86 THR B 96 -1 N ILE B 87 O LEU B 77 SHEET 4 D 5 TYR B 128 ARG B 140 1 N ILE B 129 O LYS B 86 SHEET 5 D 5 TYR B 163 ASP B 172 -1 N LYS B 164 O THR B 139 SHEET 1 E 3 THR B 106 GLY B 109 0 SHEET 2 E 3 ASN B 188 SER B 191 -1 N ILE B 189 O GLY B 108 SHEET 3 E 3 ALA B 177 SER B 183 -1 N GLY B 178 O GLY B 190 LINK OP1 DA D 7 MG MG D 402 1555 1555 1.84 LINK OP2 DA D 7 MG MG A 401 1555 1555 1.92 LINK O HOH D 153 MG MG A 401 1555 1555 2.06 LINK O HOH D 184 MG MG D 402 1555 1555 2.07 LINK O HOH D 240 MG MG D 402 1555 1555 2.25 LINK O HOH D 299 MG MG D 402 1555 1555 2.13 LINK MG MG D 402 O GLN A 69 1555 1555 2.38 LINK MG MG D 402 O HOH A 486 1555 1555 2.40 LINK OP1 DA F 7 MG MG F 404 1555 1555 1.90 LINK OP2 DA F 7 MG MG B 403 1555 1555 2.02 LINK O HOH F 126 MG MG F 404 1555 1555 2.31 LINK O HOH F 291 MG MG B 403 1555 1555 2.11 LINK MG MG F 404 O HOH A 483 1555 1555 2.23 LINK MG MG F 404 O GLN B 69 1555 1555 2.06 LINK MG MG F 404 O HOH B 460 1555 1555 2.31 LINK MG MG F 404 O HOH B 476 1555 1555 1.94 LINK OE2 GLU A 45 MG MG A 401 1555 1555 2.27 LINK OD1 ASP A 74 MG MG A 401 1555 1555 2.24 LINK OD2 ASP A 74 MG MG A 401 1555 1555 2.32 LINK MG MG A 401 O HOH A 487 1555 1555 2.04 LINK OE2 GLU B 45 MG MG B 403 1555 1555 1.99 LINK OD2 ASP B 74 MG MG B 403 1555 1555 2.25 LINK OD1 ASP B 74 MG MG B 403 1555 1555 2.15 LINK MG MG B 403 O HOH B 481 1555 1555 1.99 CISPEP 1 TYR A 72 PRO A 73 0 -0.69 CISPEP 2 TYR B 72 PRO B 73 0 -0.72 SITE 1 AC1 5 GLU A 45 ASP A 74 HOH A 487 DA D 7 SITE 2 AC1 5 HOH D 153 SITE 1 AC2 6 GLN A 69 HOH A 486 DA D 7 HOH D 184 SITE 2 AC2 6 HOH D 240 HOH D 299 SITE 1 AC3 5 GLU B 45 ASP B 74 HOH B 481 DA F 7 SITE 2 AC3 5 HOH F 291 SITE 1 AC4 6 HOH A 483 GLN B 69 HOH B 460 HOH B 476 SITE 2 AC4 6 DA F 7 HOH F 126 CRYST1 49.290 50.340 63.880 96.66 108.76 108.41 P 1 2 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 0.020288 0.006753 0.008788 0.00000 SCALE2 0.000000 0.020936 0.005225 0.00000 SCALE3 0.000000 0.000000 0.017040 0.00000