HEADER MEMBRANE PROTEIN/ANTIBIOTIC 30-JUL-12 4GCQ TITLE CRYSTAL STRUCTURE OF E. COLI OMPF PORIN IN COMPLEX WITH CARBENICILLIN CAVEAT 4GCQ CA CHIRALITY ERROR AT ASP A92 AND B92 COMPND MOL_ID: 1; COMPND 2 MOLECULE: OUTER MEMBRANE PROTEIN F; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 23-362; COMPND 5 SYNONYM: OUTER MEMBRANE PROTEIN 1A, OUTER MEMBRANE PROTEIN B, OUTER COMPND 6 MEMBRANE PROTEIN IA, PORIN OMPF; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: OMPF, CMLB, COA, CRY, TOLF, B0929, JW0912; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BETA-BARREL, PROTEIN-DRUG COMPLEX, TRIMER, NON-SPECIFIC CHANNEL, KEYWDS 2 CARBENICILLIN BINDING, OUTER MEMBRANE, MEMBRANE PROTEIN-ANTIBIOTIC KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.K.ZIERVOGEL,B.ROUX REVDAT 2 06-FEB-13 4GCQ 1 JRNL REVDAT 1 19-DEC-12 4GCQ 0 JRNL AUTH B.K.ZIERVOGEL,B.ROUX JRNL TITL THE BINDING OF ANTIBIOTICS IN OMPF PORIN. JRNL REF STRUCTURE V. 21 76 2013 JRNL REFN ISSN 0969-2126 JRNL PMID 23201272 JRNL DOI 10.1016/J.STR.2012.10.014 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.55 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 38925 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.275 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2075 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2893 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.3940 REMARK 3 BIN FREE R VALUE SET COUNT : 159 REMARK 3 BIN FREE R VALUE : 0.4250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5136 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 215 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : -0.01000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.272 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.230 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.180 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.508 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5232 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7106 ; 1.986 ; 1.939 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 664 ; 7.126 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 278 ;39.808 ;24.820 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 722 ;16.507 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;16.557 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 732 ; 0.123 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4236 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 3240 ; 1.051 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5102 ; 1.843 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1992 ; 2.827 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2000 ; 4.267 ; 4.500 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 8 A 340 1 REMARK 3 1 B 8 B 340 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 2533 ; 0.03 ; 0.05 REMARK 3 TIGHT THERMAL 1 A (A**2): 2533 ; 0.12 ; 0.50 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4GCQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-AUG-12. REMARK 100 THE RCSB ID CODE IS RCSB074019. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-OCT-11 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : SI(220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41715 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 2.100 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 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 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: PHASER V2.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50% PEG 200, 0.1 M SODIUM CACODYLATE, REMARK 280 0.2 M MAGNESIUM CHLORIDE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 KCAL/MOL 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 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 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 BIOMT1 2 -0.500000 -0.866025 0.000000 58.35500 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -101.07382 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 116.71000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 0 REMARK 465 ALA A 1 REMARK 465 GLU A 2 REMARK 465 ILE A 3 REMARK 465 TYR A 4 REMARK 465 ASN A 5 REMARK 465 LYS A 6 REMARK 465 ASP A 7 REMARK 465 GLY B 0 REMARK 465 ALA B 1 REMARK 465 GLU B 2 REMARK 465 ILE B 3 REMARK 465 TYR B 4 REMARK 465 ASN B 5 REMARK 465 LYS B 6 REMARK 465 ASP B 7 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 10 CG CD CE NZ REMARK 480 GLU A 29 CG CD OE1 OE2 REMARK 480 ASP A 92 CB CG OD1 OD2 REMARK 480 GLU A 183 CG CD OE1 OE2 REMARK 480 LYS A 209 CD CE NZ REMARK 480 LYS A 210 CD CE NZ REMARK 480 LYS A 243 CG CD CE NZ REMARK 480 LYS A 253 CD CE NZ REMARK 480 LYS A 279 CD CE NZ REMARK 480 LYS A 323 CD CE NZ REMARK 480 LYS B 10 CG CD CE NZ REMARK 480 GLU B 29 CG CD OE1 OE2 REMARK 480 ASP B 92 CB CG OD1 OD2 REMARK 480 GLU B 183 CG CD OE1 OE2 REMARK 480 LYS B 209 CD CE NZ REMARK 480 LYS B 210 CD CE NZ REMARK 480 LYS B 243 CG CD CE NZ REMARK 480 LYS B 253 CD CE NZ REMARK 480 LYS B 279 CD CE NZ REMARK 480 LYS B 323 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 CB ASP B 92 O HOH B 589 1.98 REMARK 500 CG GLU B 201 O HOH B 561 2.05 REMARK 500 O PHE A 118 O HOH A 594 2.15 REMARK 500 OG1 THR A 245 OG1 THR A 247 2.16 REMARK 500 O HOH B 573 O HOH B 607 2.18 REMARK 500 O HOH B 559 O HOH B 573 2.18 REMARK 500 OG1 THR B 245 OG1 THR B 247 2.19 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 LYS A 10 CB LYS A 10 CG -0.200 REMARK 500 PHE A 144 CZ PHE A 144 CE2 0.120 REMARK 500 GLU A 183 CB GLU A 183 CG -0.168 REMARK 500 LYS A 243 CB LYS A 243 CG -0.235 REMARK 500 LYS A 279 CG LYS A 279 CD -0.302 REMARK 500 LYS A 323 CG LYS A 323 CD -0.315 REMARK 500 LYS B 10 CB LYS B 10 CG -0.173 REMARK 500 LYS B 210 CG LYS B 210 CD 0.322 REMARK 500 LYS B 323 CG LYS B 323 CD -0.301 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 ARG A 82 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 82 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP A 92 CB - CA - C ANGL. DEV. = 17.4 DEGREES REMARK 500 ASP A 92 N - CA - CB ANGL. DEV. = 10.8 DEGREES REMARK 500 ARG A 132 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 LYS A 323 CB - CG - CD ANGL. DEV. = 17.2 DEGREES REMARK 500 ARG B 82 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASP B 92 CB - CA - C ANGL. DEV. = 18.6 DEGREES REMARK 500 LYS B 210 CB - CG - CD ANGL. DEV. = -20.4 DEGREES REMARK 500 LYS B 243 CA - CB - CG ANGL. DEV. = -24.2 DEGREES REMARK 500 ARG B 270 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 LYS B 323 CB - CG - CD ANGL. DEV. = 18.0 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 27 -70.37 -38.22 REMARK 500 THR A 77 134.25 -39.89 REMARK 500 ALA A 84 93.87 -164.53 REMARK 500 ALA A 91 -90.86 22.05 REMARK 500 GLU A 117 -47.29 -134.82 REMARK 500 PHE A 118 -150.74 -90.61 REMARK 500 PHE A 128 -109.28 59.31 REMARK 500 PHE A 144 67.99 35.31 REMARK 500 GLU A 183 72.10 26.75 REMARK 500 ASP A 221 72.09 -154.20 REMARK 500 GLU A 284 108.21 -52.66 REMARK 500 ILE A 286 -34.08 -146.84 REMARK 500 ASN A 293 105.68 -169.63 REMARK 500 ASN A 322 122.52 -31.77 REMARK 500 THR B 77 127.44 -33.77 REMARK 500 ALA B 91 -94.68 22.08 REMARK 500 GLU B 117 -48.58 -133.40 REMARK 500 PHE B 118 -144.13 -86.22 REMARK 500 PHE B 128 -107.60 60.69 REMARK 500 PHE B 144 67.71 35.82 REMARK 500 GLU B 183 70.73 27.63 REMARK 500 ASP B 221 70.70 -154.67 REMARK 500 GLU B 284 107.66 -50.61 REMARK 500 ILE B 286 -33.19 -145.61 REMARK 500 ASN B 293 106.24 -170.24 REMARK 500 ASN B 322 123.73 -31.50 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 ASP A 92 10.7 L L OUTSIDE RANGE REMARK 500 ASP B 92 9.7 L L EXPECTING SP3 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0JM A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0JM B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4GCP RELATED DB: PDB REMARK 900 E. COLI OMPF IN COMPLEX WITH AMPICILLIN REMARK 900 RELATED ID: 4GCS RELATED DB: PDB REMARK 900 E. COLI OMPF IN COMPLEX WITH ERTAPENEM DBREF 4GCQ A 1 340 UNP P02931 OMPF_ECOLI 23 362 DBREF 4GCQ B 1 340 UNP P02931 OMPF_ECOLI 23 362 SEQADV 4GCQ GLY A 0 UNP P02931 EXPRESSION TAG SEQADV 4GCQ GLY B 0 UNP P02931 EXPRESSION TAG SEQRES 1 A 341 GLY ALA GLU ILE TYR ASN LYS ASP GLY ASN LYS VAL ASP SEQRES 2 A 341 LEU TYR GLY LYS ALA VAL GLY LEU HIS TYR PHE SER LYS SEQRES 3 A 341 GLY ASN GLY GLU ASN SER TYR GLY GLY ASN GLY ASP MET SEQRES 4 A 341 THR TYR ALA ARG LEU GLY PHE LYS GLY GLU THR GLN ILE SEQRES 5 A 341 ASN SER ASP LEU THR GLY TYR GLY GLN TRP GLU TYR ASN SEQRES 6 A 341 PHE GLN GLY ASN ASN SER GLU GLY ALA ASP ALA GLN THR SEQRES 7 A 341 GLY ASN LYS THR ARG LEU ALA PHE ALA GLY LEU LYS TYR SEQRES 8 A 341 ALA ASP VAL GLY SER PHE ASP TYR GLY ARG ASN TYR GLY SEQRES 9 A 341 VAL VAL TYR ASP ALA LEU GLY TYR THR ASP MET LEU PRO SEQRES 10 A 341 GLU PHE GLY GLY ASP THR ALA TYR SER ASP ASP PHE PHE SEQRES 11 A 341 VAL GLY ARG VAL GLY GLY VAL ALA THR TYR ARG ASN SER SEQRES 12 A 341 ASN PHE PHE GLY LEU VAL ASP GLY LEU ASN PHE ALA VAL SEQRES 13 A 341 GLN TYR LEU GLY LYS ASN GLU ARG ASP THR ALA ARG ARG SEQRES 14 A 341 SER ASN GLY ASP GLY VAL GLY GLY SER ILE SER TYR GLU SEQRES 15 A 341 TYR GLU GLY PHE GLY ILE VAL GLY ALA TYR GLY ALA ALA SEQRES 16 A 341 ASP ARG THR ASN LEU GLN GLU ALA GLN PRO LEU GLY ASN SEQRES 17 A 341 GLY LYS LYS ALA GLU GLN TRP ALA THR GLY LEU LYS TYR SEQRES 18 A 341 ASP ALA ASN ASN ILE TYR LEU ALA ALA ASN TYR GLY GLU SEQRES 19 A 341 THR ARG ASN ALA THR PRO ILE THR ASN LYS PHE THR ASN SEQRES 20 A 341 THR SER GLY PHE ALA ASN LYS THR GLN ASP VAL LEU LEU SEQRES 21 A 341 VAL ALA GLN TYR GLN PHE ASP PHE GLY LEU ARG PRO SER SEQRES 22 A 341 ILE ALA TYR THR LYS SER LYS ALA LYS ASP VAL GLU GLY SEQRES 23 A 341 ILE GLY ASP VAL ASP LEU VAL ASN TYR PHE GLU VAL GLY SEQRES 24 A 341 ALA THR TYR TYR PHE ASN LYS ASN MET SER THR TYR VAL SEQRES 25 A 341 ASP TYR ILE ILE ASN GLN ILE ASP SER ASP ASN LYS LEU SEQRES 26 A 341 GLY VAL GLY SER ASP ASP THR VAL ALA VAL GLY ILE VAL SEQRES 27 A 341 TYR GLN PHE SEQRES 1 B 341 GLY ALA GLU ILE TYR ASN LYS ASP GLY ASN LYS VAL ASP SEQRES 2 B 341 LEU TYR GLY LYS ALA VAL GLY LEU HIS TYR PHE SER LYS SEQRES 3 B 341 GLY ASN GLY GLU ASN SER TYR GLY GLY ASN GLY ASP MET SEQRES 4 B 341 THR TYR ALA ARG LEU GLY PHE LYS GLY GLU THR GLN ILE SEQRES 5 B 341 ASN SER ASP LEU THR GLY TYR GLY GLN TRP GLU TYR ASN SEQRES 6 B 341 PHE GLN GLY ASN ASN SER GLU GLY ALA ASP ALA GLN THR SEQRES 7 B 341 GLY ASN LYS THR ARG LEU ALA PHE ALA GLY LEU LYS TYR SEQRES 8 B 341 ALA ASP VAL GLY SER PHE ASP TYR GLY ARG ASN TYR GLY SEQRES 9 B 341 VAL VAL TYR ASP ALA LEU GLY TYR THR ASP MET LEU PRO SEQRES 10 B 341 GLU PHE GLY GLY ASP THR ALA TYR SER ASP ASP PHE PHE SEQRES 11 B 341 VAL GLY ARG VAL GLY GLY VAL ALA THR TYR ARG ASN SER SEQRES 12 B 341 ASN PHE PHE GLY LEU VAL ASP GLY LEU ASN PHE ALA VAL SEQRES 13 B 341 GLN TYR LEU GLY LYS ASN GLU ARG ASP THR ALA ARG ARG SEQRES 14 B 341 SER ASN GLY ASP GLY VAL GLY GLY SER ILE SER TYR GLU SEQRES 15 B 341 TYR GLU GLY PHE GLY ILE VAL GLY ALA TYR GLY ALA ALA SEQRES 16 B 341 ASP ARG THR ASN LEU GLN GLU ALA GLN PRO LEU GLY ASN SEQRES 17 B 341 GLY LYS LYS ALA GLU GLN TRP ALA THR GLY LEU LYS TYR SEQRES 18 B 341 ASP ALA ASN ASN ILE TYR LEU ALA ALA ASN TYR GLY GLU SEQRES 19 B 341 THR ARG ASN ALA THR PRO ILE THR ASN LYS PHE THR ASN SEQRES 20 B 341 THR SER GLY PHE ALA ASN LYS THR GLN ASP VAL LEU LEU SEQRES 21 B 341 VAL ALA GLN TYR GLN PHE ASP PHE GLY LEU ARG PRO SER SEQRES 22 B 341 ILE ALA TYR THR LYS SER LYS ALA LYS ASP VAL GLU GLY SEQRES 23 B 341 ILE GLY ASP VAL ASP LEU VAL ASN TYR PHE GLU VAL GLY SEQRES 24 B 341 ALA THR TYR TYR PHE ASN LYS ASN MET SER THR TYR VAL SEQRES 25 B 341 ASP TYR ILE ILE ASN GLN ILE ASP SER ASP ASN LYS LEU SEQRES 26 B 341 GLY VAL GLY SER ASP ASP THR VAL ALA VAL GLY ILE VAL SEQRES 27 B 341 TYR GLN PHE HET 0JM A 401 26 HET 0JM B 401 26 HETNAM 0JM (2S,5R,6R,7R)-6-{[(2R)-2-CARBOXY-2-PHENYLACETYL]AMINO}- HETNAM 2 0JM 7-HYDROXY-3,3-DIMETHYL-4-THIA-1- HETNAM 3 0JM AZABICYCLO[3.2.0]HEPTANE-2-CARBOXYLIC ACID HETSYN 0JM CARBENICILLIN FORMUL 3 0JM 2(C17 H20 N2 O6 S) FORMUL 5 HOH *215(H2 O) HELIX 1 1 VAL A 105 GLY A 110 1 6 HELIX 2 2 SER A 142 LEU A 147 1 6 HELIX 3 3 THR A 165 SER A 169 5 5 HELIX 4 4 THR A 197 ALA A 202 1 6 HELIX 5 5 VAL B 105 GLY B 110 1 6 HELIX 6 6 SER B 142 LEU B 147 1 6 HELIX 7 7 THR B 197 ALA B 202 1 6 SHEET 1 A18 GLY A 36 ASP A 37 0 SHEET 2 A18 ASN A 9 PHE A 23 -1 N TYR A 22 O GLY A 36 SHEET 3 A18 THR A 331 PHE A 340 -1 O VAL A 332 N PHE A 23 SHEET 4 A18 MET A 307 ASN A 316 -1 N SER A 308 O VAL A 337 SHEET 5 A18 GLY A 287 TYR A 302 -1 N TYR A 301 O THR A 309 SHEET 6 A18 LEU A 269 VAL A 283 -1 N SER A 278 O LEU A 291 SHEET 7 A18 LYS A 253 TYR A 263 -1 N ALA A 261 O ILE A 273 SHEET 8 A18 ILE A 225 ARG A 235 -1 N TYR A 226 O GLN A 262 SHEET 9 A18 LYS A 210 ALA A 222 -1 N TYR A 220 O LEU A 227 SHEET 10 A18 PHE A 185 ASP A 195 -1 N ALA A 194 O ALA A 211 SHEET 11 A18 GLY A 173 TYR A 182 -1 N ILE A 178 O GLY A 189 SHEET 12 A18 ASN A 152 LEU A 158 -1 N ASN A 152 O SER A 179 SHEET 13 A18 ARG A 132 ASN A 141 -1 N TYR A 139 O VAL A 155 SHEET 14 A18 GLY A 94 TYR A 102 -1 N SER A 95 O ARG A 140 SHEET 15 A18 LYS A 80 TYR A 90 -1 N ALA A 84 O ARG A 100 SHEET 16 A18 LEU A 55 GLN A 66 -1 N GLU A 62 O ARG A 82 SHEET 17 A18 TYR A 40 ASN A 52 -1 N LEU A 43 O TYR A 63 SHEET 18 A18 ASN A 9 PHE A 23 -1 N ASP A 12 O LYS A 46 SHEET 1 B 2 PRO A 239 THR A 241 0 SHEET 2 B 2 SER A 248 PHE A 250 -1 O GLY A 249 N ILE A 240 SHEET 1 C18 GLY B 36 ASP B 37 0 SHEET 2 C18 ASN B 9 PHE B 23 -1 N TYR B 22 O GLY B 36 SHEET 3 C18 THR B 331 PHE B 340 -1 O VAL B 332 N PHE B 23 SHEET 4 C18 MET B 307 ASN B 316 -1 N ILE B 314 O THR B 331 SHEET 5 C18 GLY B 287 ASN B 304 -1 N TYR B 301 O THR B 309 SHEET 6 C18 LEU B 269 VAL B 283 -1 N SER B 278 O VAL B 292 SHEET 7 C18 LYS B 253 TYR B 263 -1 N ALA B 261 O ILE B 273 SHEET 8 C18 ILE B 225 ARG B 235 -1 N TYR B 226 O GLN B 262 SHEET 9 C18 LYS B 210 ALA B 222 -1 N TYR B 220 O LEU B 227 SHEET 10 C18 PHE B 185 ASP B 195 -1 N ALA B 194 O ALA B 211 SHEET 11 C18 GLY B 173 TYR B 182 -1 N ILE B 178 O GLY B 189 SHEET 12 C18 LEU B 151 LEU B 158 -1 N ASN B 152 O SER B 179 SHEET 13 C18 ARG B 132 ASN B 141 -1 N TYR B 139 O VAL B 155 SHEET 14 C18 GLY B 94 TYR B 102 -1 N SER B 95 O ARG B 140 SHEET 15 C18 LYS B 80 TYR B 90 -1 N ALA B 84 O ARG B 100 SHEET 16 C18 LEU B 55 GLN B 66 -1 N GLU B 62 O ARG B 82 SHEET 17 C18 TYR B 40 ASN B 52 -1 N LEU B 43 O TYR B 63 SHEET 18 C18 ASN B 9 PHE B 23 -1 N TYR B 14 O GLY B 44 SHEET 1 D 2 PRO B 239 THR B 241 0 SHEET 2 D 2 SER B 248 PHE B 250 -1 O GLY B 249 N ILE B 240 CISPEP 1 ASN A 27 GLY A 28 0 -5.20 CISPEP 2 ASN B 27 GLY B 28 0 -4.83 SITE 1 AC1 7 GLY A 15 LYS A 16 ARG A 42 LYS A 46 SITE 2 AC1 7 GLN A 60 GLU A 62 ARG A 82 SITE 1 AC2 8 TYR B 14 GLY B 15 LYS B 16 ARG B 42 SITE 2 AC2 8 LYS B 46 GLU B 62 ARG B 82 GLN B 339 CRYST1 116.710 116.710 53.890 90.00 90.00 120.00 P 3 6 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 0.008568 0.004947 0.000000 0.00000 SCALE2 0.000000 0.009894 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018556 0.00000 MASTER 463 0 2 7 40 0 4 6 0 0 0 54 END