PDB Short entry for 2VLN HEADER PROTEIN BINDING 15-JAN-08 2VLN TITLE N75A MUTANT OF E9 DNASE DOMAIN IN COMPLEX WITH IM9 COMPND MOL_ID: 1; COMPND 2 MOLECULE: COLICIN-E9 IMMUNITY PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: IMME9, MICROCIN-E9 IMMUNITY PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: COLICIN E9; COMPND 8 CHAIN: B; COMPND 9 FRAGMENT: DNASE DOMAIN, RESIDUES 450-582; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 8 ORGANISM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN-BINDING, PROTEIN-PROTEIN INTERACTION, METAL-BINDING, KEYWDS 2 ANTIMICROBIAL, BACTERIOCIN IMMUNITY, HYDROLASE, ANTIBIOTIC, KEYWDS 3 BACTERIOCIN, ENDONUCLEASE, ZINC, COLICIN, PLASMID, NUCLEASE, HTH KEYWDS 4 MOTIF, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR A.H.KEEBLE,L.A.JOACHIMIAK,M.J.MATE,N.MEENAN,N.KIRKPATRICK,D.BAKER, AUTHOR 2 C.KLEANTHOUS REVDAT 5 13-DEC-23 2VLN 1 REMARK REVDAT 4 22-APR-15 2VLN 1 REMARK VERSN HETSYN FORMUL REVDAT 3 24-FEB-09 2VLN 1 VERSN REVDAT 2 17-JUN-08 2VLN 1 JRNL REVDAT 1 20-MAY-08 2VLN 0 JRNL AUTH A.H.KEEBLE,L.A.JOACHIMIAK,M.J.MATE,N.MEENAN,N.KIRKPATRICK, JRNL AUTH 2 D.BAKER,C.KLEANTHOUS JRNL TITL EXPERIMENTAL AND COMPUTATIONAL ANALYSES OF THE ENERGETIC JRNL TITL 2 BASIS FOR DUAL RECOGNITION OF IMMUNITY PROTEINS BY COLICIN JRNL TITL 3 ENDONUCLEASES. JRNL REF J.MOL.BIOL. V. 379 745 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 18471830 JRNL DOI 10.1016/J.JMB.2008.03.055 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0001 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 28303 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1523 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1905 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE SET COUNT : 109 REMARK 3 BIN FREE R VALUE : 0.2340 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1670 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 326 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.67000 REMARK 3 B22 (A**2) : -0.94000 REMARK 3 B33 (A**2) : 1.42000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.54000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.088 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.089 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.059 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.642 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1752 ; 0.019 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2359 ; 1.771 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 212 ; 5.566 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 85 ;32.847 ;25.059 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 310 ;12.800 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;16.254 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 241 ; 0.144 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1356 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 904 ; 0.223 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 234 ; 0.252 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 60 ; 0.247 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 36 ; 0.213 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1083 ; 1.304 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1722 ; 2.053 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 745 ; 3.377 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 637 ; 5.312 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2VLN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1290034986. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93400 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29843 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.39000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1EMV REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 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 38.97000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 1790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN B, ASN 523 TO ALA 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 MET A 1 REMARK 465 GLU A 2 REMARK 465 LEU A 3 REMARK 465 LYS A 4 REMARK 465 HIS A 5 REMARK 465 GLY A 86 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 LYS A 35 CE NZ REMARK 470 LYS A 57 CG CD CE NZ REMARK 470 LYS B 21 CB CG CD CE NZ REMARK 470 LYS B 55 CD CE NZ 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 O HOH B 2105 O HOH B 2108 1.57 REMARK 500 O HOH A 2030 O HOH B 2141 1.91 REMARK 500 O HOH A 2108 O HOH A 2109 1.94 REMARK 500 O HOH B 2056 O HOH B 2102 2.03 REMARK 500 O HOH B 2056 O HOH B 2190 2.03 REMARK 500 NH1 ARG B 54 O HOH B 2114 2.04 REMARK 500 OD2 ASP B 51 O HOH B 2109 2.09 REMARK 500 O HOH A 2029 O HOH A 2030 2.12 REMARK 500 OG SER A 28 OE1 GLU A 32 2.13 REMARK 500 O HOH B 2042 O HOH B 2043 2.15 REMARK 500 O HOH B 2019 O HOH B 2178 2.17 REMARK 500 O HOH B 2019 O HOH B 2023 2.17 REMARK 500 O MET B 1 O HOH B 2001 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 O HOH A 2039 O HOH B 2018 2656 1.66 REMARK 500 O HOH A 2117 O HOH B 2043 2656 2.18 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 ASP A 26 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ARG B 5 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG B 5 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ASP B 51 CB - CG - OD2 ANGL. DEV. = 5.7 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 ASP B 29 -129.33 53.53 REMARK 500 ASP B 44 -1.12 72.68 REMARK 500 ASN B 70 41.42 -104.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2022 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH A2041 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A2056 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH B2034 DISTANCE = 6.32 ANGSTROMS REMARK 525 HOH B2063 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH B2077 DISTANCE = 6.12 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLA B 1135 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLA B 1136 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLA B 1137 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2IVZ RELATED DB: PDB REMARK 900 STRUCTURE OF TOLB IN COMPLEX WITH A PEPTIDE OF THE COLICIN E9 T- REMARK 900 DOMAIN REMARK 900 RELATED ID: 1V14 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COLICIN E9, MUTANT HIS103ALA, IN COMPLEX REMARK 900 WITH MG+2 AND DSDNA (RESOLUTION 2.9A) REMARK 900 RELATED ID: 1FSJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE E9 DNASE DOMAIN REMARK 900 RELATED ID: 1V15 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COLICIN E9, MUTANT HIS103ALA, IN COMPLEX REMARK 900 WITH ZN+2 AND DSDNA (RESOLUTION 2.4A) REMARK 900 RELATED ID: 1BXI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE ESCHERICHIA COLI COLICIN E9 DNASEDOMAIN REMARK 900 WITH ITS COGNATE IMMUNITY PROTEIN IM9 REMARK 900 RELATED ID: 1IMP RELATED DB: PDB REMARK 900 COLICIN E9 IMMUNITY PROTEIN IM9, NMR, 21 STRUCTURES REMARK 900 RELATED ID: 1IMQ RELATED DB: PDB REMARK 900 COLICIN E9 IMMUNITY PROTEIN IM9, NMR, MINIMIZEDAVERAGE STRUCTURE REMARK 900 RELATED ID: 1V13 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE MUTANT HIS103ALA OF THE COLICIN E9 DNASE REMARK 900 DOMAIN IN COMPLEX WITH ZN+2 (2.0 ANGSTROMS) REMARK 900 RELATED ID: 1E0H RELATED DB: PDB REMARK 900 INHIBITOR PROTEIN IM9 BOUND TO ITS PARTNER E9 DNASE REMARK 900 RELATED ID: 1EMV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF COLICIN E9 DNASE DOMAIN WITH ITSCOGNATE REMARK 900 IMMUNITY PROTEIN IM9 (1.7 ANGSTROMS) REMARK 900 RELATED ID: 1FR2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE E9 DNASE DOMAIN WITH A MUTANTIMMUNITY REMARK 900 PROTEIN IM9(E41A) REMARK 900 RELATED ID: 2VLO RELATED DB: PDB REMARK 900 K97A MUTANT OF E9 DNASE DOMAIN IN COMPLEX WITH IM9 REMARK 900 RELATED ID: 2VLQ RELATED DB: PDB REMARK 900 F86A MUTANT OF E9 DNASE DOMAIN IN COMPLEX WITH IM9 REMARK 900 RELATED ID: 2VLP RELATED DB: PDB REMARK 900 R54A MUTANT OF E9 DNASE DOMAIN IN COMPLEX WITH IM9 REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUE ASN75 MUTATED TO ALA DBREF 2VLN A 1 86 UNP P13479 IMM9_ECOLX 1 86 DBREF 2VLN B 1 1 PDB 2VLN 2VLN 1 1 DBREF 2VLN B 2 134 UNP P09883 CEA9_ECOLX 450 582 SEQADV 2VLN ALA B 75 UNP P09883 ASN 523 ENGINEERED MUTATION SEQRES 1 A 86 MET GLU LEU LYS HIS SER ILE SER ASP TYR THR GLU ALA SEQRES 2 A 86 GLU PHE LEU GLN LEU VAL THR THR ILE CYS ASN ALA ASP SEQRES 3 A 86 THR SER SER GLU GLU GLU LEU VAL LYS LEU VAL THR HIS SEQRES 4 A 86 PHE GLU GLU MET THR GLU HIS PRO SER GLY SER ASP LEU SEQRES 5 A 86 ILE TYR TYR PRO LYS GLU GLY ASP ASP ASP SER PRO SER SEQRES 6 A 86 GLY ILE VAL ASN THR VAL LYS GLN TRP ARG ALA ALA ASN SEQRES 7 A 86 GLY LYS SER GLY PHE LYS GLN GLY SEQRES 1 B 134 MET GLU SER LYS ARG ASN LYS PRO GLY LYS ALA THR GLY SEQRES 2 B 134 LYS GLY LYS PRO VAL GLY ASP LYS TRP LEU ASP ASP ALA SEQRES 3 B 134 GLY LYS ASP SER GLY ALA PRO ILE PRO ASP ARG ILE ALA SEQRES 4 B 134 ASP LYS LEU ARG ASP LYS GLU PHE LYS SER PHE ASP ASP SEQRES 5 B 134 PHE ARG LYS ALA VAL TRP GLU GLU VAL SER LYS ASP PRO SEQRES 6 B 134 GLU LEU SER LYS ASN LEU ASN PRO SER ALA LYS SER SER SEQRES 7 B 134 VAL SER LYS GLY TYR SER PRO PHE THR PRO LYS ASN GLN SEQRES 8 B 134 GLN VAL GLY GLY ARG LYS VAL TYR GLU LEU HIS HIS ASP SEQRES 9 B 134 LYS PRO ILE SER GLN GLY GLY GLU VAL TYR ASP MET ASP SEQRES 10 B 134 ASN ILE ARG VAL THR THR PRO LYS ARG HIS ILE ASP ILE SEQRES 11 B 134 HIS ARG GLY LYS HET MLA B1135 7 HET MLA B1136 7 HET MLA B1137 7 HETNAM MLA MALONIC ACID HETSYN MLA DICARBOXYLIC ACID C3; PROPANEDIOLIC ACID; HETSYN 2 MLA METHANEDICARBOXYLIC ACID FORMUL 3 MLA 3(C3 H4 O4) FORMUL 6 HOH *326(H2 O) HELIX 1 1 SER A 6 TYR A 10 5 5 HELIX 2 2 THR A 11 ALA A 25 1 15 HELIX 3 3 SER A 29 GLU A 45 1 17 HELIX 4 4 SER A 50 TYR A 55 1 6 HELIX 5 5 SER A 63 ASN A 78 1 16 HELIX 6 6 SER B 3 LYS B 7 5 5 HELIX 7 7 LEU B 23 LYS B 28 5 6 HELIX 8 8 PRO B 35 ARG B 43 1 9 HELIX 9 9 SER B 49 ASP B 64 1 16 HELIX 10 10 ASP B 64 LYS B 69 1 6 HELIX 11 11 ASN B 72 LYS B 81 1 10 HELIX 12 12 PRO B 88 GLN B 92 5 5 HELIX 13 13 PRO B 106 GLY B 110 5 5 HELIX 14 14 THR B 123 GLY B 133 1 11 SHEET 1 BA 2 GLY B 9 LYS B 10 0 SHEET 2 BA 2 GLU B 46 PHE B 47 -1 O PHE B 47 N GLY B 9 SHEET 1 BB 3 ALA B 32 PRO B 33 0 SHEET 2 BB 3 ILE B 119 THR B 122 -1 O VAL B 121 N ALA B 32 SHEET 3 BB 3 GLU B 100 HIS B 103 -1 O GLU B 100 N THR B 122 SITE 1 AC1 7 HIS B 102 ASP B 104 ARG B 120 THR B 122 SITE 2 AC1 7 HIS B 127 HOH B2203 HOH B2204 SITE 1 AC2 6 GLU B 2 SER B 3 LYS B 4 ARG B 5 SITE 2 AC2 6 ILE B 107 HOH B2205 SITE 1 AC3 7 ARG B 5 HIS B 102 HIS B 103 HOH B2012 SITE 2 AC3 7 HOH B2206 HOH B2207 HOH B2208 CRYST1 36.280 77.940 41.728 90.00 100.07 90.00 P 1 21 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 0.027563 0.000000 0.004895 0.00000 SCALE2 0.000000 0.012830 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024340 0.00000