HEADER ANTIMICROBIAL PROTEIN 06-JUL-12 4FZL TITLE HIGH RESOLUTION STRUCTURE OF TRUNCATED BACTERIOCIN SYRINGACIN M FROM TITLE 2 PSEUDOMONAS SYRINGAE PV. TOMATO DC3000 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIOCIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 38-276; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS SYRINGAE PV. TOMATO; SOURCE 3 ORGANISM_TAXID: 223283; SOURCE 4 STRAIN: DC3000; SOURCE 5 GENE: PSPTO_0572; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PET21A; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETMDC KEYWDS PHOSPHATASE, CALCIUM BINDING, LIPID II BINDING, ANTIMICROBIAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.W.ROSZAK,R.GRINTER,J.R.COGDELL,D.WALKER REVDAT 2 28-NOV-12 4FZL 1 JRNL REVDAT 1 03-OCT-12 4FZL 0 JRNL AUTH R.GRINTER,A.W.ROSZAK,R.J.COGDELL,J.J.MILNER,D.WALKER JRNL TITL THE CRYSTAL STRUCTURE OF THE LIPID II-DEGRADING BACTERIOCIN JRNL TITL 2 SYRINGACIN M SUGGESTS UNEXPECTED EVOLUTIONARY RELATIONSHIPS JRNL TITL 3 BETWEEN COLICIN M-LIKE BACTERIOCINS. JRNL REF J.BIOL.CHEM. V. 287 38876 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22995910 JRNL DOI 10.1074/JBC.M112.400150 REMARK 2 REMARK 2 RESOLUTION. 1.46 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.46 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 99482 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) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5244 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) : 1.46 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.50 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7091 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.28 REMARK 3 BIN R VALUE (WORKING SET) : 0.3070 REMARK 3 BIN FREE R VALUE SET COUNT : 382 REMARK 3 BIN FREE R VALUE : 0.3560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3645 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 551 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.94 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.67000 REMARK 3 B22 (A**2) : -1.85000 REMARK 3 B33 (A**2) : -0.26000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.90000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.062 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.063 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.064 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.133 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.980 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3945 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2621 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5380 ; 2.097 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6410 ; 1.160 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 523 ; 6.724 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 179 ;38.587 ;24.469 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 609 ;14.792 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;15.945 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 604 ; 0.132 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4527 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 793 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 6566 ; 6.873 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 198 ;40.403 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6835 ;24.144 ; 5.000 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 4FZL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JUL-12. REMARK 100 THE RCSB ID CODE IS RCSB073550. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-12 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97631 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 106648 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.460 REMARK 200 RESOLUTION RANGE LOW (A) : 50.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.46 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.96600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.900 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% W/V PEG 8000, 30% V/V ETHYLENE REMARK 280 GLYCOL, 0.13 M CACL2, 0.03 M MGCL2, 0.1 M BICINE/TRIS BASE, PH REMARK 280 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K 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 48.04500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -26.31506 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 58.63575 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 LEU A 277 REMARK 465 GLU A 278 REMARK 465 HIS A 279 REMARK 465 HIS A 280 REMARK 465 HIS A 281 REMARK 465 HIS A 282 REMARK 465 HIS A 283 REMARK 465 HIS A 284 REMARK 465 GLY B 38 REMARK 465 HIS B 281 REMARK 465 HIS B 282 REMARK 465 HIS B 283 REMARK 465 HIS B 284 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 620 O HOH B 623 1.94 REMARK 500 O2 EDO B 303 O HOH B 516 2.06 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 HIS A 140 CG HIS A 140 CD2 0.054 REMARK 500 GLU B 92 CD GLU B 92 OE2 0.072 REMARK 500 HIS B 241 CG HIS B 241 CD2 0.062 REMARK 500 HIS B 279 CG HIS B 279 CD2 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 LEU A 149 CA - CB - CG ANGL. DEV. = 16.8 DEGREES REMARK 500 LEU A 253 CB - CG - CD2 ANGL. DEV. = -10.2 DEGREES REMARK 500 ASP B 52 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG B 69 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 LEU B 149 CA - CB - CG ANGL. DEV. = 16.0 DEGREES REMARK 500 LYS B 193 CD - CE - NZ ANGL. DEV. = 21.3 DEGREES REMARK 500 LEU B 249 CB - CG - CD1 ANGL. DEV. = -10.7 DEGREES REMARK 500 LEU B 249 CB - CG - CD2 ANGL. DEV. = 10.5 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 55 53.89 -91.60 REMARK 500 ALA A 175 102.13 -49.32 REMARK 500 HIS B 279 -76.09 -113.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 MET B 39 GLN B 40 129.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 VAL B 191 24.9 L L OUTSIDE RANGE 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 B 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 EDO B 308 O1 REMARK 620 2 HOH B 529 O 95.8 REMARK 620 3 HOH B 528 O 89.7 148.8 REMARK 620 4 HOH B 522 O 174.6 81.9 89.8 REMARK 620 5 ASP B 214 OD2 85.1 133.2 77.8 100.0 REMARK 620 6 EDO B 308 O2 82.7 78.4 71.9 92.0 147.3 REMARK 620 7 ASP B 214 OD1 89.0 78.5 132.4 95.4 54.7 154.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 427 O REMARK 620 2 LEU A 202 O 76.5 REMARK 620 3 EDO A 302 O2 121.4 147.6 REMARK 620 4 ASN A 204 O 152.5 79.3 75.3 REMARK 620 5 ASP A 232 OD1 119.6 114.7 81.6 82.3 REMARK 620 6 EDO A 302 O1 58.9 134.8 71.7 145.8 84.3 REMARK 620 7 ASP A 232 OD2 73.9 78.6 130.3 113.7 53.7 82.3 REMARK 620 8 HOH A 436 O 79.3 84.2 74.3 85.6 155.1 93.7 150.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 516 O REMARK 620 2 LEU B 202 O 76.1 REMARK 620 3 EDO B 303 O1 127.0 147.0 REMARK 620 4 EDO B 303 O2 55.5 131.5 76.4 REMARK 620 5 ASN B 204 O 158.1 83.0 69.9 145.3 REMARK 620 6 ASP B 232 OD1 109.7 116.4 80.7 81.6 85.2 REMARK 620 7 HOH B 439 O 86.7 81.0 77.8 97.0 83.8 158.1 REMARK 620 8 ASP B 232 OD2 68.1 80.8 127.3 79.5 115.0 49.7 151.8 REMARK 620 N 1 2 3 4 5 6 7 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 309 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XMX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BACTERIOCIN COLICIN M REMARK 900 RELATED ID: 4FZM RELATED DB: PDB REMARK 900 RELATED ID: 4FZN RELATED DB: PDB DBREF 4FZL A 38 276 UNP Q88A25 Q88A25_PSESM 38 276 DBREF 4FZL B 38 276 UNP Q88A25 Q88A25_PSESM 38 276 SEQADV 4FZL LEU A 277 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL GLU A 278 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS A 279 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS A 280 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS A 281 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS A 282 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS A 283 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS A 284 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL LEU B 277 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL GLU B 278 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS B 279 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS B 280 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS B 281 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS B 282 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS B 283 UNP Q88A25 EXPRESSION TAG SEQADV 4FZL HIS B 284 UNP Q88A25 EXPRESSION TAG SEQRES 1 A 247 GLY MET GLN ASN PRO VAL ALA THR VAL LEU LEU LEU GLN SEQRES 2 A 247 GLY ASP LEU TYR CYS SER PRO ASN CYS LEU ALA THR PHE SEQRES 3 A 247 GLN ASP GLN ALA ARG ARG ASP SER PHE GLY ILE GLN SER SEQRES 4 A 247 LYS VAL ALA LEU LYS THR PHE ALA ALA ALA ASP GLN ARG SEQRES 5 A 247 GLU ALA GLU GLY ARG ASP LEU ARG THR ALA TYR ASN GLU SEQRES 6 A 247 ILE ALA THR ASP ILE GLY ARG SER GLN GLN ILE ASN GLU SEQRES 7 A 247 ASN ILE ILE LYS TYR PRO PRO GLY ASN HIS VAL LEU SER SEQRES 8 A 247 GLY GLY LEU MET THR PRO PHE HIS ALA LEU ALA HIS GLY SEQRES 9 A 247 MET PHE GLY LEU GLY ALA PRO LEU THR PHE PRO ILE GLN SEQRES 10 A 247 ASN VAL GLY LEU ASN VAL ASP ILE ARG GLY ILE PRO ASP SEQRES 11 A 247 VAL MET ASN VAL ILE GLN SER ALA ARG PRO VAL GLY THR SEQRES 12 A 247 SER SER LEU ASP VAL ASN PHE ALA TYR ASP VAL GLY LYS SEQRES 13 A 247 ASP SER ASN ALA SER TRP LEU THR LEU GLY ASN ILE THR SEQRES 14 A 247 LEU ARG LEU VAL GLY THR ILE ASP LYS ASN ALA SER GLY SEQRES 15 A 247 ALA TRP THR PHE SER GLY GLU ILE ARG ALA PHE ASN ASP SEQRES 16 A 247 VAL TYR ASP ALA ASN PRO SER ASN HIS ARG GLY TRP LEU SEQRES 17 A 247 GLY GLU ASN LEU THR SER LEU LEU SER ALA VAL PRO PHE SEQRES 18 A 247 THR SER TYR SER ILE GLU ILE PRO GLY SER LEU PRO VAL SEQRES 19 A 247 THR VAL SER GLY ASN LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 247 GLY MET GLN ASN PRO VAL ALA THR VAL LEU LEU LEU GLN SEQRES 2 B 247 GLY ASP LEU TYR CYS SER PRO ASN CYS LEU ALA THR PHE SEQRES 3 B 247 GLN ASP GLN ALA ARG ARG ASP SER PHE GLY ILE GLN SER SEQRES 4 B 247 LYS VAL ALA LEU LYS THR PHE ALA ALA ALA ASP GLN ARG SEQRES 5 B 247 GLU ALA GLU GLY ARG ASP LEU ARG THR ALA TYR ASN GLU SEQRES 6 B 247 ILE ALA THR ASP ILE GLY ARG SER GLN GLN ILE ASN GLU SEQRES 7 B 247 ASN ILE ILE LYS TYR PRO PRO GLY ASN HIS VAL LEU SER SEQRES 8 B 247 GLY GLY LEU MET THR PRO PHE HIS ALA LEU ALA HIS GLY SEQRES 9 B 247 MET PHE GLY LEU GLY ALA PRO LEU THR PHE PRO ILE GLN SEQRES 10 B 247 ASN VAL GLY LEU ASN VAL ASP ILE ARG GLY ILE PRO ASP SEQRES 11 B 247 VAL MET ASN VAL ILE GLN SER ALA ARG PRO VAL GLY THR SEQRES 12 B 247 SER SER LEU ASP VAL ASN PHE ALA TYR ASP VAL GLY LYS SEQRES 13 B 247 ASP SER ASN ALA SER TRP LEU THR LEU GLY ASN ILE THR SEQRES 14 B 247 LEU ARG LEU VAL GLY THR ILE ASP LYS ASN ALA SER GLY SEQRES 15 B 247 ALA TRP THR PHE SER GLY GLU ILE ARG ALA PHE ASN ASP SEQRES 16 B 247 VAL TYR ASP ALA ASN PRO SER ASN HIS ARG GLY TRP LEU SEQRES 17 B 247 GLY GLU ASN LEU THR SER LEU LEU SER ALA VAL PRO PHE SEQRES 18 B 247 THR SER TYR SER ILE GLU ILE PRO GLY SER LEU PRO VAL SEQRES 19 B 247 THR VAL SER GLY ASN LEU GLU HIS HIS HIS HIS HIS HIS HET CA A 301 1 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET EDO A 307 4 HET CL A 308 1 HET EDO A 309 4 HET CA B 301 1 HET MG B 302 1 HET EDO B 303 4 HET EDO B 304 4 HET EDO B 305 4 HET EDO B 306 4 HET EDO B 307 4 HET EDO B 308 4 HET CL B 309 1 HETNAM CA CALCIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 CA 2(CA 2+) FORMUL 4 EDO 13(C2 H6 O2) FORMUL 10 CL 2(CL 1-) FORMUL 13 MG MG 2+ FORMUL 21 HOH *551(H2 O) HELIX 1 1 ASN A 41 GLN A 50 1 10 HELIX 2 2 GLN A 50 CYS A 55 1 6 HELIX 3 3 ASN A 58 SER A 71 1 14 HELIX 4 4 GLY A 73 GLU A 92 1 20 HELIX 5 5 ASP A 95 GLY A 108 1 14 HELIX 6 6 ASN A 114 ILE A 118 5 5 HELIX 7 7 MET A 132 GLY A 144 1 13 HELIX 8 8 PRO A 152 GLY A 157 1 6 HELIX 9 9 ASP A 161 GLY A 164 5 4 HELIX 10 10 ILE A 165 GLN A 173 1 9 HELIX 11 11 GLY A 192 ASP A 194 5 3 HELIX 12 12 SER A 195 GLY A 203 1 9 HELIX 13 13 ASN A 237 ASN A 240 5 4 HELIX 14 14 HIS A 241 GLY A 246 1 6 HELIX 15 15 GLY A 246 SER A 254 1 9 HELIX 16 16 ASN B 41 CYS B 55 1 15 HELIX 17 17 ASN B 58 SER B 71 1 14 HELIX 18 18 GLY B 73 GLU B 92 1 20 HELIX 19 19 ASP B 95 GLY B 108 1 14 HELIX 20 20 ASN B 114 ILE B 118 5 5 HELIX 21 21 MET B 132 GLY B 144 1 13 HELIX 22 22 PRO B 152 VAL B 156 5 5 HELIX 23 23 ASP B 161 GLY B 164 5 4 HELIX 24 24 ILE B 165 ALA B 175 1 11 HELIX 25 25 GLY B 192 ASP B 194 5 3 HELIX 26 26 SER B 195 GLY B 203 1 9 HELIX 27 27 ASN B 237 ASN B 240 5 4 HELIX 28 28 HIS B 241 ALA B 255 1 15 SHEET 1 A 3 LEU A 149 THR A 150 0 SHEET 2 A 3 TYR A 261 GLU A 264 1 O GLU A 264 N LEU A 149 SHEET 3 A 3 ASP A 232 TYR A 234 -1 N TYR A 234 O TYR A 261 SHEET 1 B 4 GLY A 179 ASP A 190 0 SHEET 2 B 4 ASN A 204 LYS A 215 -1 O ILE A 213 N SER A 181 SHEET 3 B 4 TRP A 221 ALA A 229 -1 O THR A 222 N ASP A 214 SHEET 4 B 4 LEU A 269 GLY A 275 -1 O VAL A 273 N PHE A 223 SHEET 1 C 3 LEU B 149 THR B 150 0 SHEET 2 C 3 TYR B 261 GLU B 264 1 O GLU B 264 N LEU B 149 SHEET 3 C 3 ASP B 232 TYR B 234 -1 N TYR B 234 O TYR B 261 SHEET 1 D 4 GLY B 179 ASP B 190 0 SHEET 2 D 4 ASN B 204 LYS B 215 -1 O LEU B 209 N VAL B 185 SHEET 3 D 4 ALA B 220 ALA B 229 -1 O THR B 222 N ASP B 214 SHEET 4 D 4 LEU B 269 ASN B 276 -1 O VAL B 273 N PHE B 223 LINK MG MG B 302 O1 EDO B 308 1555 1555 1.94 LINK MG MG B 302 O HOH B 529 1555 1555 1.94 LINK CA CA A 301 O HOH A 427 1555 1555 2.01 LINK CA CA B 301 O HOH B 516 1555 1555 2.02 LINK MG MG B 302 O HOH B 528 1555 1555 2.13 LINK MG MG B 302 O HOH B 522 1555 1555 2.22 LINK OD2 ASP B 214 MG MG B 302 1555 1555 2.22 LINK O LEU A 202 CA CA A 301 1555 1555 2.23 LINK O LEU B 202 CA CA B 301 1555 1555 2.27 LINK CA CA B 301 O1 EDO B 303 1555 1555 2.30 LINK CA CA A 301 O2 EDO A 302 1555 1555 2.35 LINK CA CA B 301 O2 EDO B 303 1555 1555 2.36 LINK O ASN B 204 CA CA B 301 1555 1555 2.38 LINK O ASN A 204 CA CA A 301 1555 1555 2.39 LINK OD1 ASP A 232 CA CA A 301 1555 1555 2.39 LINK CA CA A 301 O1 EDO A 302 1555 1555 2.41 LINK OD1 ASP B 232 CA CA B 301 1555 1555 2.42 LINK CA CA B 301 O HOH B 439 1555 1555 2.45 LINK OD2 ASP A 232 CA CA A 301 1555 1555 2.47 LINK CA CA A 301 O HOH A 436 1555 1555 2.48 LINK MG MG B 302 O2 EDO B 308 1555 1555 2.50 LINK OD1 ASP B 214 MG MG B 302 1555 1555 2.52 LINK OD2 ASP B 232 CA CA B 301 1555 1555 2.57 SITE 1 AC1 6 LEU A 202 ASN A 204 ASP A 232 EDO A 302 SITE 2 AC1 6 HOH A 427 HOH A 436 SITE 1 AC2 6 ASN A 204 ASP A 232 VAL A 233 CA A 301 SITE 2 AC2 6 HOH A 427 HOH A 436 SITE 1 AC3 5 ARG A 208 ARG A 228 ALA A 229 PHE A 230 SITE 2 AC3 5 HOH A 581 SITE 1 AC4 1 ARG A 208 SITE 1 AC5 4 LEU A 183 ASP A 184 VAL A 185 HOH A 419 SITE 1 AC6 4 ASN A 159 VAL A 160 ASP A 161 HOH A 517 SITE 1 AC7 2 PRO A 257 PHE A 258 SITE 1 AC8 6 GLN A 112 ILE A 113 ASN A 114 HOH A 678 SITE 2 AC8 6 ILE B 74 EDO B 304 SITE 1 AC9 3 TYR A 189 ASP A 190 HOH A 691 SITE 1 BC1 6 LEU B 202 ASN B 204 ASP B 232 EDO B 303 SITE 2 BC1 6 HOH B 439 HOH B 516 SITE 1 BC2 5 ASP B 214 EDO B 308 HOH B 522 HOH B 528 SITE 2 BC2 5 HOH B 529 SITE 1 BC3 7 ASN B 204 ASP B 232 VAL B 233 CA B 301 SITE 2 BC3 7 HOH B 439 HOH B 441 HOH B 516 SITE 1 BC4 8 GLN A 112 ASN A 114 CL A 308 HOH A 460 SITE 2 BC4 8 GLY B 73 LYS B 77 GLU B 115 HOH B 649 SITE 1 BC5 4 ARG B 208 ARG B 228 ALA B 229 HOH B 527 SITE 1 BC6 5 ASP B 214 ASN B 216 ALA B 220 TRP B 221 SITE 2 BC6 5 THR B 222 SITE 1 BC7 4 THR B 212 THR B 222 SER B 224 HOH B 599 SITE 1 BC8 5 THR B 180 ASP B 214 MG B 302 HOH B 528 SITE 2 BC8 5 HOH B 529 SITE 1 BC9 4 ILE A 74 GLN B 112 ILE B 113 ASN B 114 CRYST1 55.810 96.090 64.270 90.00 114.17 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 0.017918 0.000000 0.008041 0.00000 SCALE2 0.000000 0.010407 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017054 0.00000 MASTER 493 0 18 28 14 0 28 6 0 0 0 38 END