PDB Short entry for 1STX HEADER HYDROLASE/DNA 25-MAR-04 1STX TITLE STRUCTURE OF THE K38A MUTANT OF ECORV BOUND TO COGNATE DNA AND MN2+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: 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: 5'-D(P*AP*TP*CP*TP*T)-3'; COMPND 7 CHAIN: D, F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: TYPE II RESTRICTION ENZYME ECORV; COMPND 11 CHAIN: A, B; COMPND 12 SYNONYM: ENDONUCLEASE ECORV; R.ECORV; TYPE II SITE-SPECIFIC COMPND 13 DEOXYRIBONUCLEASE ECORV; COMPND 14 EC: 3.1.21.4; COMPND 15 ENGINEERED: YES; COMPND 16 MUTATION: YES; COMPND 17 OTHER_DETAILS: COMPLEXED WITH CLEAVED DNA DUPLEX 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 GENE: ECORVR; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 EXPRESSION_SYSTEM_STRAIN: MM294; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PBSRV KEYWDS RESTRICTION ENZYME; ECORV; DNA; X-RAY CRYSTALLOGRAPHY, HYDROLASE-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.C.HORTON,J.J.PERONA REVDAT 6 14-FEB-24 1STX 1 REMARK REVDAT 5 27-OCT-21 1STX 1 REMARK SEQADV LINK REVDAT 4 11-OCT-17 1STX 1 REMARK REVDAT 3 24-FEB-09 1STX 1 VERSN REVDAT 2 27-JUL-04 1STX 1 JRNL REVDAT 1 06-APR-04 1STX 0 JRNL AUTH N.C.HORTON,J.J.PERONA JRNL TITL DNA CLEAVAGE BY ECORV ENDONUCLEASE: TWO METAL IONS IN THREE JRNL TITL 2 METAL ION BINDING SITES JRNL REF BIOCHEMISTRY V. 43 6841 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15170321 JRNL DOI 10.1021/BI0499056 REMARK 2 REMARK 2 RESOLUTION. 2.10 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 : CNS 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)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 32988 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 SET) : 0.201 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 683 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 : 3969 REMARK 3 NUCLEIC ACID ATOMS : 448 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 383 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) : 8.83200 REMARK 3 B22 (A**2) : -0.14100 REMARK 3 B33 (A**2) : -8.69100 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -5.62900 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) : 0.021 REMARK 3 BOND ANGLES (DEGREES) : 2.010 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) : 1.390 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.225 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.967 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.872 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 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 1STX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-MAR-04. REMARK 100 THE DEPOSITION ID IS D_1000021986. 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 : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS II REMARK 200 INTENSITY-INTEGRATION SOFTWARE : R-AXIS REMARK 200 DATA SCALING SOFTWARE : R-AXIS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32988 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17% PEG 4000, 0.1M HEPES PH 7.5, 0.15M REMARK 280 NACL 50MM MNCL2, VAPOR DIFFUSION, TEMPERATURE 290K 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 29.34500 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: 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASP A 13 CG OD1 OD2 REMARK 470 LYS A 17 CE NZ REMARK 470 LYS A 98 CG CD CE NZ REMARK 470 ARG A 144 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 145 CG CD CE NZ REMARK 470 LYS A 203 CD CE NZ REMARK 470 GLN B 16 CD OE1 NE2 REMARK 470 LYS B 67 CD CE NZ REMARK 470 LYS B 98 CG CD CE NZ REMARK 470 GLU B 99 CG CD OE1 OE2 REMARK 470 ASN B 100 CG OD1 ND2 REMARK 470 ARG B 140 NE CZ NH1 NH2 REMARK 470 ARG B 144 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 145 CG CD CE NZ REMARK 470 LYS B 149 CD CE NZ REMARK 470 LYS B 197 CG CD CE NZ REMARK 470 GLN B 224 CG CD OE1 NE2 REMARK 470 ARG B 242 CD NE CZ NH1 NH2 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 OP2 DA F 7 O HOH F 63 2.09 REMARK 500 OE2 GLU B 45 O HOH F 63 2.12 REMARK 500 OD1 ASP B 74 O HOH F 63 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 DA C 3 O3' DA C 3 C3' -0.038 REMARK 500 DT F 8 C4 DT F 8 C5 0.058 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 DT C 6 O3' - P - OP2 ANGL. DEV. = 6.9 DEGREES REMARK 500 DA D 7 OP1 - P - OP2 ANGL. DEV. = -12.0 DEGREES REMARK 500 DA F 7 OP1 - P - OP2 ANGL. DEV. = -13.0 DEGREES REMARK 500 DC F 9 O3' - P - OP2 ANGL. DEV. = 7.1 DEGREES REMARK 500 VAL A 137 CB - CA - C ANGL. DEV. = -14.0 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 ASN A 100 -122.25 76.95 REMARK 500 GLU A 101 152.05 68.27 REMARK 500 SER A 112 -107.13 -105.40 REMARK 500 ILE A 153 0.15 -65.39 REMARK 500 PRO A 162 36.31 -84.41 REMARK 500 THR A 187 65.17 27.27 REMARK 500 LYS A 229 -80.28 -119.59 REMARK 500 ASN B 70 54.57 33.71 REMARK 500 TYR B 78 163.68 179.99 REMARK 500 GLU B 82 49.44 -144.79 REMARK 500 ASN B 100 9.28 55.49 REMARK 500 SER B 112 -111.89 -109.31 REMARK 500 ALA B 142 125.53 98.61 REMARK 500 ILE B 153 -19.53 -46.80 REMARK 500 PRO B 162 39.40 -82.82 REMARK 500 THR B 187 68.22 32.13 REMARK 500 ASN B 227 -73.72 -29.80 REMARK 500 ASP B 228 60.86 -109.83 REMARK 500 LYS B 229 -81.62 -138.91 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 DT D 8 0.07 SIDE CHAIN REMARK 500 TYR B 95 0.07 SIDE CHAIN 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 MN A1003 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA D 7 OP1 REMARK 620 2 GLU A 45 OE2 102.0 REMARK 620 3 ASP A 74 OD2 155.7 90.1 REMARK 620 4 ILE A 91 O 101.9 83.2 100.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A1004 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA D 7 OP3 REMARK 620 2 GLU A 45 OE1 129.5 REMARK 620 3 ASP A 74 OD1 94.8 92.7 REMARK 620 4 HOH A1186 O 65.6 154.5 63.6 REMARK 620 5 HOH A1187 O 145.8 83.6 72.4 80.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1006 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT D 11 OP1 REMARK 620 2 HIS B 71 NE2 93.5 REMARK 620 3 HOH B1108 O 89.1 99.9 REMARK 620 4 HOH B1109 O 158.9 71.2 79.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1002 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA F 7 OP2 REMARK 620 2 HOH F 276 O 92.5 REMARK 620 3 GLU B 45 OE1 71.9 135.9 REMARK 620 4 ASP B 74 OD2 97.2 130.0 93.4 REMARK 620 5 ILE B 91 O 149.4 83.6 90.0 108.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A1005 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT F 11 OP1 REMARK 620 2 HIS A 71 NE2 90.8 REMARK 620 3 HOH A1103 O 95.0 102.6 REMARK 620 4 HOH A1133 O 172.1 84.6 79.8 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 MN B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1007 DBREF 1STX A 2 245 UNP P04390 T2E5_ECOLI 1 244 DBREF 1STX B 2 245 UNP P04390 T2E5_ECOLI 1 244 DBREF 1STX C 1 6 PDB 1STX 1STX 1 6 DBREF 1STX D 7 11 PDB 1STX 1STX 7 11 DBREF 1STX E 1 6 PDB 1STX 1STX 1 6 DBREF 1STX F 7 11 PDB 1STX 1STX 7 11 SEQADV 1STX ALA A 38 UNP P04390 LYS 37 ENGINEERED MUTATION SEQADV 1STX ALA B 38 UNP P04390 LYS 37 ENGINEERED MUTATION 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 ALA 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 ALA 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 MN A1003 1 HET MN A1004 1 HET MN A1005 1 HET MN A1007 1 HET MN B1002 1 HET MN B1006 1 HETNAM MN MANGANESE (II) ION FORMUL 7 MN 6(MN 2+) FORMUL 13 HOH *383(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 ARG A 144 LYS A 149 5 6 HELIX 5 5 GLU A 155 ILE A 159 5 5 HELIX 6 6 LYS A 173 ALA A 177 1 5 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 ARG B 144 LYS B 149 5 6 HELIX 15 15 ASN B 154 ILE B 159 5 6 HELIX 16 16 LYS B 173 ILE B 176 1 4 HELIX 17 17 HIS B 195 GLY B 202 1 8 HELIX 18 18 SER B 208 TYR B 219 1 12 HELIX 19 19 THR B 222 ASP B 228 1 7 HELIX 20 20 ASN B 232 ARG B 242 1 11 SHEET 1 A 5 ILE A 30 PRO A 32 0 SHEET 2 A 5 VAL A 20 SER A 25 -1 N ILE A 23 O TYR A 31 SHEET 3 A 5 VAL B 20 SER B 25 -1 O CYS B 21 N ILE A 24 SHEET 4 A 5 LYS B 29 TYR B 31 -1 O TYR B 31 N ILE B 23 SHEET 5 A 5 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 O TYR A 78 N ILE A 62 SHEET 3 B 5 LYS A 86 THR A 96 -1 O ILE A 87 N LEU A 77 SHEET 4 B 5 TYR A 128 ARG A 140 1 O TRP A 132 N ALA A 88 SHEET 5 B 5 TYR A 163 ASP A 172 -1 O LYS A 164 N THR A 139 SHEET 1 C 2 THR A 106 GLY A 109 0 SHEET 2 C 2 ASN A 188 GLY A 190 -1 O ILE A 189 N GLY A 108 SHEET 1 D 5 ILE B 62 GLU B 64 0 SHEET 2 D 5 PHE B 75 TYR B 78 -1 O TYR B 78 N ILE B 62 SHEET 3 D 5 LYS B 86 THR B 96 -1 O ILE B 89 N PHE B 75 SHEET 4 D 5 TYR B 128 ARG B 140 1 O TRP B 132 N ALA B 88 SHEET 5 D 5 TYR B 163 ASP B 172 -1 O GLN B 171 N ILE B 133 SHEET 1 E 3 THR B 106 GLY B 109 0 SHEET 2 E 3 ASN B 188 SER B 191 -1 O ILE B 189 N LEU B 107 SHEET 3 E 3 ALA B 177 SER B 183 -1 N GLY B 178 O GLY B 190 LINK OP1 DA D 7 MN MN A1003 1555 1555 1.92 LINK OP3 DA D 7 MN MN A1004 1555 1555 2.15 LINK OP1 DT D 11 MN MN B1006 1555 1555 2.54 LINK OP2 DA F 7 MN MN B1002 1555 1555 2.26 LINK OP1 DT F 11 MN MN A1005 1555 1555 2.39 LINK O HOH F 276 MN MN B1002 1555 1555 2.34 LINK OE2 GLU A 45 MN MN A1003 1555 1555 2.05 LINK OE1 GLU A 45 MN MN A1004 1555 1555 2.34 LINK NE2 HIS A 71 MN MN A1005 1555 1555 2.23 LINK OD2 ASP A 74 MN MN A1003 1555 1555 2.29 LINK OD1 ASP A 74 MN MN A1004 1555 1555 2.21 LINK O ILE A 91 MN MN A1003 1555 1555 2.53 LINK O LYS A 102 MN MN A1007 1555 1555 1.92 LINK MN MN A1004 O HOH A1186 1555 1555 2.51 LINK MN MN A1004 O HOH A1187 1555 1555 2.42 LINK MN MN A1005 O HOH A1103 1555 1555 2.44 LINK MN MN A1005 O HOH A1133 1555 1555 2.47 LINK OE1 GLU B 45 MN MN B1002 1555 1555 2.14 LINK NE2 HIS B 71 MN MN B1006 1555 1555 2.22 LINK OD2 ASP B 74 MN MN B1002 1555 1555 2.18 LINK O ILE B 91 MN MN B1002 1555 1555 2.40 LINK MN MN B1006 O HOH B1108 1555 1555 2.45 LINK MN MN B1006 O HOH B1109 1555 1555 2.70 CISPEP 1 TYR A 72 PRO A 73 0 -1.45 CISPEP 2 TYR B 72 PRO B 73 0 -4.02 SITE 1 AC1 6 GLU B 45 ASP B 74 ASP B 90 ILE B 91 SITE 2 AC1 6 DA F 7 HOH F 276 SITE 1 AC2 6 GLU A 45 ASP A 74 ASP A 90 ILE A 91 SITE 2 AC2 6 MN A1004 DA D 7 SITE 1 AC3 6 GLU A 45 ASP A 74 MN A1003 HOH A1186 SITE 2 AC3 6 HOH A1187 DA D 7 SITE 1 AC4 5 GLN A 68 HIS A 71 HOH A1103 HOH A1133 SITE 2 AC4 5 DT F 11 SITE 1 AC5 4 HIS B 71 HOH B1108 HOH B1109 DT D 11 SITE 1 AC6 2 LYS A 102 HIS A 193 CRYST1 63.710 58.690 82.100 90.00 107.70 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 0.015696 0.000000 0.005009 0.00000 SCALE2 0.000000 0.017039 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012786 0.00000