HEADER MEMBRANE PROTEIN 16-MAY-13 4KRA TITLE SALMONELLA TYPHI OMPF COMPLEX WITH CIPROFLOXACIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: OUTER MEMBRANE PROTEIN F; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR SOURCE 3 TYPHI; SOURCE 4 ORGANISM_TAXID: 90370; SOURCE 5 STRAIN: TY21A; SOURCE 6 GENE: OMPF; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: GJ1158; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET20B(+) KEYWDS BETA BARREL, TRANSPORT, OUTER MEMBRANE, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.MADHURANAYAKI,D.BALASUBRAMANIAM,S.KRISHNASWAMY REVDAT 2 08-NOV-23 4KRA 1 REMARK REVDAT 1 28-MAY-14 4KRA 0 JRNL AUTH T.MADHURANAYAKI,D.BALASUBRAMANIAM,S.KRISHNASWAMY JRNL TITL SALMONELLA TYPHI OMPF COMPLEX WITH CIPROFLOXACIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.32 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 3.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 27137 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) : 0.275 REMARK 3 R VALUE (WORKING SET) : 0.272 REMARK 3 FREE R VALUE : 0.339 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1365 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) : 3.32 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1863 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.4150 REMARK 3 BIN FREE R VALUE SET COUNT : 107 REMARK 3 BIN FREE R VALUE : 0.4160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7666 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 83.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 96.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.24000 REMARK 3 B22 (A**2) : 15.19000 REMARK 3 B33 (A**2) : -9.95000 REMARK 3 B12 (A**2) : 0.00000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.626 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.620 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 39.362 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.894 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.844 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7847 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10668 ; 1.487 ; 1.913 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1011 ; 7.533 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 423 ;42.784 ;25.035 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1046 ;23.212 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;18.819 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1107 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6362 ; 0.004 ; 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): 4978 ; 0.573 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7813 ; 1.064 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2869 ; 0.963 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2852 ; 1.703 ; 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 : 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: U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 4KRA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000079695. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27234 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.320 REMARK 200 RESOLUTION RANGE LOW (A) : 102.358 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : 0.11600 REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.55700 REMARK 200 R SYM FOR SHELL (I) : 0.55700 REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: 3NSG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRI SODIUM CITRATE PH5.6, 0.25M REMARK 280 POTASSIUM SODIUM TARTRATE, 2M AMMONIUM SULPHATE, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 42.58000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.57500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 69.55500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 75.57500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.58000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 69.55500 REMARK 290 SMTRY3 4 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 300 REMARK: BIOLOGICAL UNIT IS AS THE SAME AS ASYMMETRIC UNIT 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: 9110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 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 B 283 REMARK 465 GLY C 8 REMARK 465 GLY C 204 REMARK 465 ASN C 282 REMARK 465 GLY C 283 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 ILE A 3 CD1 REMARK 470 LYS A 6 CG CD CE NZ REMARK 470 ASP A 7 CG OD1 OD2 REMARK 470 LYS A 10 NZ REMARK 470 ASP A 12 CB REMARK 470 LEU A 13 CD1 CD2 REMARK 470 TYR A 14 CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 30 CD CE NZ REMARK 470 LYS A 42 CG CD CE NZ REMARK 470 GLU A 58 CG CD OE1 OE2 REMARK 470 GLN A 70 CG CD OE1 NE2 REMARK 470 LEU A 75 CG CD1 CD2 REMARK 470 LEU A 78 CD1 CD2 REMARK 470 ILE A 99 CD1 REMARK 470 VAL A 100 CG1 CG2 REMARK 470 VAL A 103 CG1 CG2 REMARK 470 LEU A 135 CD1 CD2 REMARK 470 LYS A 158 CG CD CE NZ REMARK 470 TYR A 179 CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 180 OE1 OE2 REMARK 470 ASP A 201 CG OD1 OD2 REMARK 470 ARG A 202 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 212 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 217 CG CD CE NZ REMARK 470 GLU A 231 CG CD OE1 OE2 REMARK 470 ARG A 233 CG CD NE CZ NH1 NH2 REMARK 470 MET A 235 SD CE REMARK 470 ILE A 237 CD1 REMARK 470 VAL A 246 CG1 CG2 REMARK 470 LYS A 251 CG CD CE NZ REMARK 470 GLN A 253 CG CD OE1 NE2 REMARK 470 ILE A 271 CG1 CG2 CD1 REMARK 470 GLN A 275 CG CD OE1 NE2 REMARK 470 LYS A 277 CG CD CE NZ REMARK 470 LYS A 279 CG CD CE NZ REMARK 470 GLN A 280 CG CD OE1 NE2 REMARK 470 LYS A 292 CG CD CE NZ REMARK 470 ILE A 294 CG1 CG2 CD1 REMARK 470 LYS A 304 CD CE NZ REMARK 470 LEU A 316 CG CD1 CD2 REMARK 470 LEU A 317 CD1 CD2 REMARK 470 GLU A 319 CD OE1 OE2 REMARK 470 MET B 1 CG SD CE REMARK 470 LYS B 6 CG CD CE NZ REMARK 470 LYS B 10 CD CE NZ REMARK 470 LYS B 16 CD CE NZ REMARK 470 ARG B 20 NH1 NH2 REMARK 470 ASP B 28 CG OD1 OD2 REMARK 470 LYS B 30 CG CD CE NZ REMARK 470 LEU B 51 CD1 CD2 REMARK 470 LYS B 62 CE NZ REMARK 470 LEU B 75 CD1 CD2 REMARK 470 LYS B 84 CG CD CE NZ REMARK 470 ILE B 99 CD1 REMARK 470 TYR B 101 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LEU B 135 CD1 CD2 REMARK 470 ASP B 182 CG OD1 OD2 REMARK 470 LYS B 194 CG CD CE NZ REMARK 470 ARG B 202 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 208 NH1 NH2 REMARK 470 LYS B 217 CE NZ REMARK 470 GLU B 231 CG CD OE1 OE2 REMARK 470 GLU B 247 CG CD OE1 OE2 REMARK 470 LYS B 251 CG CD CE NZ REMARK 470 GLN B 253 CG CD OE1 NE2 REMARK 470 LYS B 277 CG CD CE NZ REMARK 470 LYS B 279 CG CD CE NZ REMARK 470 GLN B 280 CG CD OE1 NE2 REMARK 470 LEU B 281 CD1 CD2 REMARK 470 ASN B 282 CG OD1 ND2 REMARK 470 SER B 287 OG REMARK 470 LEU B 290 CG CD1 CD2 REMARK 470 ILE B 294 CD1 REMARK 470 LYS B 304 CG CD CE NZ REMARK 470 ASP B 318 CG OD1 OD2 REMARK 470 GLU B 319 CG CD OE1 OE2 REMARK 470 GLN B 332 CG CD OE1 NE2 REMARK 470 LYS C 6 CG CD CE NZ REMARK 470 LYS C 10 CD CE NZ REMARK 470 LYS C 30 CG CD CE NZ REMARK 470 ILE C 39 CD1 REMARK 470 LYS C 42 CD CE NZ REMARK 470 GLN C 71 CD OE1 NE2 REMARK 470 LEU C 75 CD1 CD2 REMARK 470 LEU C 83 CD1 CD2 REMARK 470 LYS C 84 NZ REMARK 470 LEU C 135 CG CD1 CD2 REMARK 470 ARG C 138 CG CD NE CZ NH1 NH2 REMARK 470 VAL C 146 CG1 CG2 REMARK 470 ASN C 162 OD1 ND2 REMARK 470 ILE C 165 CD1 REMARK 470 VAL C 173 CG1 CG2 REMARK 470 MET C 177 CE REMARK 470 GLU C 180 CG CD OE1 OE2 REMARK 470 LYS C 194 CG CD CE NZ REMARK 470 ARG C 195 CD NE CZ NH1 NH2 REMARK 470 ARG C 202 CG CD NE CZ NH1 NH2 REMARK 470 ILE C 237 CG1 CG2 CD1 REMARK 470 VAL C 246 CG1 CG2 REMARK 470 GLN C 253 CG CD OE1 NE2 REMARK 470 LYS C 277 CG CD CE NZ REMARK 470 LYS C 279 CG CD CE NZ REMARK 470 GLN C 280 CG CD OE1 NE2 REMARK 470 LYS C 304 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 ASP B 289 ND2 ASN B 320 2.19 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 TYR A 4 63.37 156.23 REMARK 500 ASP A 7 -108.86 70.85 REMARK 500 ASN A 9 52.05 -109.84 REMARK 500 SER A 29 68.09 86.48 REMARK 500 LYS A 30 45.78 -85.63 REMARK 500 ASN A 31 126.12 -37.12 REMARK 500 ALA A 37 -164.52 -114.52 REMARK 500 GLN A 38 138.98 169.71 REMARK 500 THR A 49 -33.67 -38.77 REMARK 500 GLN A 56 138.82 -178.26 REMARK 500 ALA A 66 158.06 -48.59 REMARK 500 ALA A 79 105.16 -162.74 REMARK 500 GLU A 87 -21.82 50.08 REMARK 500 TYR A 93 116.64 -170.71 REMARK 500 TYR A 112 -70.85 61.06 REMARK 500 THR A 117 -125.59 -120.28 REMARK 500 TYR A 126 -102.30 47.06 REMARK 500 SER A 129 -150.06 -149.93 REMARK 500 PHE A 142 81.59 47.53 REMARK 500 PHE A 143 20.61 48.64 REMARK 500 ASP A 161 -81.58 -43.47 REMARK 500 SER A 164 -174.41 -66.89 REMARK 500 ASN A 166 13.50 -67.70 REMARK 500 SER A 167 -30.93 -130.51 REMARK 500 ASP A 171 94.69 -40.50 REMARK 500 ASP A 182 -128.95 45.24 REMARK 500 TYR A 190 116.02 -161.23 REMARK 500 ASN A 197 9.03 -60.48 REMARK 500 ASP A 198 62.01 -108.39 REMARK 500 GLN A 200 17.90 -66.44 REMARK 500 ASP A 201 15.03 -65.49 REMARK 500 ARG A 202 -118.29 89.72 REMARK 500 ASN A 205 81.98 -60.65 REMARK 500 ARG A 208 116.37 97.55 REMARK 500 ALA A 220 169.42 170.14 REMARK 500 ASN A 221 52.14 38.05 REMARK 500 ASN A 222 4.77 57.46 REMARK 500 ARG A 233 -92.42 -87.78 REMARK 500 SER A 236 121.64 174.88 REMARK 500 THR A 241 -18.60 -48.30 REMARK 500 ASP A 244 74.58 44.83 REMARK 500 ALA A 249 98.56 54.05 REMARK 500 PHE A 265 17.60 -69.75 REMARK 500 LEU A 267 154.21 -39.05 REMARK 500 LYS A 279 -109.46 -97.68 REMARK 500 GLN A 280 80.74 -56.74 REMARK 500 SER A 287 110.13 -164.91 REMARK 500 PHE A 302 -77.05 -126.79 REMARK 500 LYS A 304 -9.13 -58.48 REMARK 500 ASN A 307 153.33 178.65 REMARK 500 REMARK 500 THIS ENTRY HAS 140 RAMACHANDRAN OUTLIERS. 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 CPF C 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3NSG RELATED DB: PDB REMARK 900 OMPF WITHOUT AMPICILLIN REMARK 900 RELATED ID: 4KR4 RELATED DB: PDB REMARK 900 RELATED ID: 4KR8 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 A SEQUENCE DATABASE REFERENCE FOR THIS PROTEIN WHCIH HAS DERIVED REMARK 999 FROM SALMONELLA TYPHI (STRAIN TY21A) DOES NOT CURRENTLY EXIST. DBREF 4KRA A 1 341 PDB 4KRA 4KRA 1 341 DBREF 4KRA B 1 341 PDB 4KRA 4KRA 1 341 DBREF 4KRA C 1 341 PDB 4KRA 4KRA 1 341 SEQRES 1 A 341 MET GLU ILE TYR ASN LYS ASP GLY ASN LYS LEU ASP LEU SEQRES 2 A 341 TYR GLY LYS ALA VAL GLY ARG HIS VAL TRP THR THR THR SEQRES 3 A 341 GLY ASP SER LYS ASN ALA ASP GLN THR TYR ALA GLN ILE SEQRES 4 A 341 GLY PHE LYS GLY GLU THR GLN ILE ASN THR ASP LEU THR SEQRES 5 A 341 GLY PHE GLY GLN TRP GLU TYR ARG THR LYS ALA ASP ARG SEQRES 6 A 341 ALA GLU GLY GLU GLN GLN ASN SER ASN LEU VAL ARG LEU SEQRES 7 A 341 ALA PHE ALA GLY LEU LYS TYR ALA GLU VAL GLY SER ILE SEQRES 8 A 341 ASP TYR GLY ARG ASN TYR GLY ILE VAL TYR ASP VAL GLU SEQRES 9 A 341 SER TYR THR ASP MET ALA PRO TYR PHE SER GLY GLU THR SEQRES 10 A 341 TRP GLY GLY ALA TYR THR ASP ASN TYR MET THR SER ARG SEQRES 11 A 341 ALA GLY GLY LEU LEU THR TYR ARG ASN SER ASP PHE PHE SEQRES 12 A 341 GLY LEU VAL ASP GLY LEU SER PHE GLY ILE GLN TYR GLN SEQRES 13 A 341 GLY LYS ASN GLN ASP ASN HIS SER ILE ASN SER GLN ASN SEQRES 14 A 341 GLY ASP GLY VAL GLY TYR THR MET ALA TYR GLU PHE ASP SEQRES 15 A 341 GLY PHE GLY VAL THR ALA ALA TYR SER ASN SER LYS ARG SEQRES 16 A 341 THR ASN ASP GLN GLN ASP ARG ASP GLY ASN GLY ASP ARG SEQRES 17 A 341 ALA GLU SER ARG ALA VAL GLY ALA LYS TYR ASP ALA ASN SEQRES 18 A 341 ASN VAL TYR LEU ALA ALA VAL TYR ALA GLU THR ARG ASN SEQRES 19 A 341 MET SER ILE VAL GLU ASN THR VAL THR ASP THR VAL GLU SEQRES 20 A 341 MET ALA ASN LYS THR GLN ASN LEU GLU VAL VAL ALA GLN SEQRES 21 A 341 TYR GLN PHE ASP PHE GLY LEU ARG PRO ALA ILE SER TYR SEQRES 22 A 341 VAL GLN SER LYS GLY LYS GLN LEU ASN GLY ALA GLY GLY SEQRES 23 A 341 SER ALA ASP LEU ALA LYS TYR ILE GLN ALA GLY ALA THR SEQRES 24 A 341 TYR TYR PHE ASN LYS ASN MET ASN VAL TRP VAL ASP TYR SEQRES 25 A 341 ARG PHE ASN LEU LEU ASP GLU ASN ASP TYR SER SER SER SEQRES 26 A 341 TYR VAL GLY THR ASP ASP GLN ALA ALA VAL GLY ILE THR SEQRES 27 A 341 TYR GLN PHE SEQRES 1 B 341 MET GLU ILE TYR ASN LYS ASP GLY ASN LYS LEU ASP LEU SEQRES 2 B 341 TYR GLY LYS ALA VAL GLY ARG HIS VAL TRP THR THR THR SEQRES 3 B 341 GLY ASP SER LYS ASN ALA ASP GLN THR TYR ALA GLN ILE SEQRES 4 B 341 GLY PHE LYS GLY GLU THR GLN ILE ASN THR ASP LEU THR SEQRES 5 B 341 GLY PHE GLY GLN TRP GLU TYR ARG THR LYS ALA ASP ARG SEQRES 6 B 341 ALA GLU GLY GLU GLN GLN ASN SER ASN LEU VAL ARG LEU SEQRES 7 B 341 ALA PHE ALA GLY LEU LYS TYR ALA GLU VAL GLY SER ILE SEQRES 8 B 341 ASP TYR GLY ARG ASN TYR GLY ILE VAL TYR ASP VAL GLU SEQRES 9 B 341 SER TYR THR ASP MET ALA PRO TYR PHE SER GLY GLU THR SEQRES 10 B 341 TRP GLY GLY ALA TYR THR ASP ASN TYR MET THR SER ARG SEQRES 11 B 341 ALA GLY GLY LEU LEU THR TYR ARG ASN SER ASP PHE PHE SEQRES 12 B 341 GLY LEU VAL ASP GLY LEU SER PHE GLY ILE GLN TYR GLN SEQRES 13 B 341 GLY LYS ASN GLN ASP ASN HIS SER ILE ASN SER GLN ASN SEQRES 14 B 341 GLY ASP GLY VAL GLY TYR THR MET ALA TYR GLU PHE ASP SEQRES 15 B 341 GLY PHE GLY VAL THR ALA ALA TYR SER ASN SER LYS ARG SEQRES 16 B 341 THR ASN ASP GLN GLN ASP ARG ASP GLY ASN GLY ASP ARG SEQRES 17 B 341 ALA GLU SER ARG ALA VAL GLY ALA LYS TYR ASP ALA ASN SEQRES 18 B 341 ASN VAL TYR LEU ALA ALA VAL TYR ALA GLU THR ARG ASN SEQRES 19 B 341 MET SER ILE VAL GLU ASN THR VAL THR ASP THR VAL GLU SEQRES 20 B 341 MET ALA ASN LYS THR GLN ASN LEU GLU VAL VAL ALA GLN SEQRES 21 B 341 TYR GLN PHE ASP PHE GLY LEU ARG PRO ALA ILE SER TYR SEQRES 22 B 341 VAL GLN SER LYS GLY LYS GLN LEU ASN GLY ALA GLY GLY SEQRES 23 B 341 SER ALA ASP LEU ALA LYS TYR ILE GLN ALA GLY ALA THR SEQRES 24 B 341 TYR TYR PHE ASN LYS ASN MET ASN VAL TRP VAL ASP TYR SEQRES 25 B 341 ARG PHE ASN LEU LEU ASP GLU ASN ASP TYR SER SER SER SEQRES 26 B 341 TYR VAL GLY THR ASP ASP GLN ALA ALA VAL GLY ILE THR SEQRES 27 B 341 TYR GLN PHE SEQRES 1 C 341 MET GLU ILE TYR ASN LYS ASP GLY ASN LYS LEU ASP LEU SEQRES 2 C 341 TYR GLY LYS ALA VAL GLY ARG HIS VAL TRP THR THR THR SEQRES 3 C 341 GLY ASP SER LYS ASN ALA ASP GLN THR TYR ALA GLN ILE SEQRES 4 C 341 GLY PHE LYS GLY GLU THR GLN ILE ASN THR ASP LEU THR SEQRES 5 C 341 GLY PHE GLY GLN TRP GLU TYR ARG THR LYS ALA ASP ARG SEQRES 6 C 341 ALA GLU GLY GLU GLN GLN ASN SER ASN LEU VAL ARG LEU SEQRES 7 C 341 ALA PHE ALA GLY LEU LYS TYR ALA GLU VAL GLY SER ILE SEQRES 8 C 341 ASP TYR GLY ARG ASN TYR GLY ILE VAL TYR ASP VAL GLU SEQRES 9 C 341 SER TYR THR ASP MET ALA PRO TYR PHE SER GLY GLU THR SEQRES 10 C 341 TRP GLY GLY ALA TYR THR ASP ASN TYR MET THR SER ARG SEQRES 11 C 341 ALA GLY GLY LEU LEU THR TYR ARG ASN SER ASP PHE PHE SEQRES 12 C 341 GLY LEU VAL ASP GLY LEU SER PHE GLY ILE GLN TYR GLN SEQRES 13 C 341 GLY LYS ASN GLN ASP ASN HIS SER ILE ASN SER GLN ASN SEQRES 14 C 341 GLY ASP GLY VAL GLY TYR THR MET ALA TYR GLU PHE ASP SEQRES 15 C 341 GLY PHE GLY VAL THR ALA ALA TYR SER ASN SER LYS ARG SEQRES 16 C 341 THR ASN ASP GLN GLN ASP ARG ASP GLY ASN GLY ASP ARG SEQRES 17 C 341 ALA GLU SER ARG ALA VAL GLY ALA LYS TYR ASP ALA ASN SEQRES 18 C 341 ASN VAL TYR LEU ALA ALA VAL TYR ALA GLU THR ARG ASN SEQRES 19 C 341 MET SER ILE VAL GLU ASN THR VAL THR ASP THR VAL GLU SEQRES 20 C 341 MET ALA ASN LYS THR GLN ASN LEU GLU VAL VAL ALA GLN SEQRES 21 C 341 TYR GLN PHE ASP PHE GLY LEU ARG PRO ALA ILE SER TYR SEQRES 22 C 341 VAL GLN SER LYS GLY LYS GLN LEU ASN GLY ALA GLY GLY SEQRES 23 C 341 SER ALA ASP LEU ALA LYS TYR ILE GLN ALA GLY ALA THR SEQRES 24 C 341 TYR TYR PHE ASN LYS ASN MET ASN VAL TRP VAL ASP TYR SEQRES 25 C 341 ARG PHE ASN LEU LEU ASP GLU ASN ASP TYR SER SER SER SEQRES 26 C 341 TYR VAL GLY THR ASP ASP GLN ALA ALA VAL GLY ILE THR SEQRES 27 C 341 TYR GLN PHE HET CPF C 401 24 HETNAM CPF 1-CYCLOPROPYL-6-FLUORO-4-OXO-7-PIPERAZIN-1-YL-1,4- HETNAM 2 CPF DIHYDROQUINOLINE-3-CARBOXYLIC ACID HETSYN CPF CIPROFLOXACIN FORMUL 4 CPF C17 H18 F N3 O3 HELIX 1 1 TYR A 101 TYR A 106 1 6 HELIX 2 2 SER A 164 GLN A 168 5 5 HELIX 3 3 GLN B 70 ASN B 72 5 3 HELIX 4 4 VAL B 100 ASP B 108 1 9 HELIX 5 5 VAL C 100 SER C 105 1 6 HELIX 6 6 ASP C 141 LEU C 145 5 5 HELIX 7 7 ASN C 197 GLN C 200 5 4 SHEET 1 A 4 LEU A 11 ASP A 12 0 SHEET 2 A 4 TYR A 36 ASN A 48 -1 O LYS A 42 N ASP A 12 SHEET 3 A 4 GLY A 15 THR A 24 -1 N LYS A 16 O GLN A 38 SHEET 4 A 4 ALA A 32 ASP A 33 -1 O ALA A 32 N VAL A 22 SHEET 1 B18 LEU A 11 ASP A 12 0 SHEET 2 B18 TYR A 36 ASN A 48 -1 O LYS A 42 N ASP A 12 SHEET 3 B18 LEU A 51 ARG A 60 -1 O TYR A 59 N ILE A 39 SHEET 4 B18 VAL A 76 TYR A 85 -1 O LYS A 84 N THR A 52 SHEET 5 B18 ASP A 92 TYR A 97 -1 O ARG A 95 N ALA A 79 SHEET 6 B18 ARG A 130 ASN A 139 -1 O LEU A 134 N GLY A 94 SHEET 7 B18 LEU A 149 GLN A 156 -1 O ILE A 153 N TYR A 137 SHEET 8 B18 GLY A 172 GLU A 180 -1 O ALA A 178 N SER A 150 SHEET 9 B18 PHE A 184 SER A 193 -1 O TYR A 190 N TYR A 175 SHEET 10 B18 ALA A 209 ALA A 220 -1 O SER A 211 N SER A 191 SHEET 11 B18 VAL A 223 THR A 232 -1 O LEU A 225 N TYR A 218 SHEET 12 B18 THR A 252 TYR A 261 -1 O GLN A 260 N TYR A 224 SHEET 13 B18 PRO A 269 GLY A 278 -1 O TYR A 273 N VAL A 257 SHEET 14 B18 ALA A 288 TYR A 301 -1 O GLN A 295 N SER A 272 SHEET 15 B18 ASN A 307 ASN A 315 -1 O TYR A 312 N ALA A 296 SHEET 16 B18 GLN A 332 GLN A 340 -1 O ALA A 334 N ASP A 311 SHEET 17 B18 GLY A 15 THR A 24 -1 N GLY A 19 O ILE A 337 SHEET 18 B18 ALA A 32 ASP A 33 -1 O ALA A 32 N VAL A 22 SHEET 1 C 2 VAL A 238 GLU A 239 0 SHEET 2 C 2 VAL A 246 GLU A 247 -1 O GLU A 247 N VAL A 238 SHEET 1 D18 ASN B 31 ASP B 33 0 SHEET 2 D18 TYR B 14 THR B 24 -1 N VAL B 22 O ALA B 32 SHEET 3 D18 GLN B 332 TYR B 339 -1 O ILE B 337 N GLY B 19 SHEET 4 D18 MET B 306 ASN B 315 -1 N ARG B 313 O GLN B 332 SHEET 5 D18 ASP B 289 TYR B 301 -1 N TYR B 300 O VAL B 308 SHEET 6 D18 LEU B 267 LYS B 277 -1 N ALA B 270 O GLY B 297 SHEET 7 D18 THR B 252 TYR B 261 -1 N ALA B 259 O ILE B 271 SHEET 8 D18 VAL B 223 THR B 232 -1 N ALA B 226 O VAL B 258 SHEET 9 D18 GLU B 210 ALA B 220 -1 N ALA B 220 O VAL B 223 SHEET 10 D18 PHE B 184 SER B 193 -1 N SER B 191 O SER B 211 SHEET 11 D18 GLY B 172 PHE B 181 -1 N VAL B 173 O ASN B 192 SHEET 12 D18 SER B 150 GLN B 156 -1 N GLN B 156 O GLY B 172 SHEET 13 D18 LEU B 134 ASN B 139 -1 N LEU B 135 O TYR B 155 SHEET 14 D18 SER B 90 TYR B 93 -1 N ASP B 92 O THR B 136 SHEET 15 D18 ASN B 74 LYS B 84 -1 N LEU B 83 O ILE B 91 SHEET 16 D18 THR B 52 LYS B 62 -1 N PHE B 54 O GLY B 82 SHEET 17 D18 TYR B 36 GLN B 46 -1 N ALA B 37 O THR B 61 SHEET 18 D18 TYR B 14 THR B 24 -1 N LYS B 16 O GLN B 38 SHEET 1 E 2 ASN B 96 TYR B 97 0 SHEET 2 E 2 ARG B 130 ALA B 131 -1 O ALA B 131 N ASN B 96 SHEET 1 F 2 ILE B 237 ASN B 240 0 SHEET 2 F 2 THR B 245 MET B 248 -1 O THR B 245 N ASN B 240 SHEET 1 G 3 LEU C 11 TYR C 14 0 SHEET 2 G 3 TYR C 36 GLN C 46 -1 O LYS C 42 N ASP C 12 SHEET 3 G 3 ALA C 17 VAL C 18 -1 N VAL C 18 O TYR C 36 SHEET 1 H18 LEU C 11 TYR C 14 0 SHEET 2 H18 TYR C 36 GLN C 46 -1 O LYS C 42 N ASP C 12 SHEET 3 H18 LEU C 51 LYS C 62 -1 O GLY C 53 N THR C 45 SHEET 4 H18 ASN C 74 TYR C 85 -1 O LYS C 84 N THR C 52 SHEET 5 H18 GLY C 89 ARG C 95 -1 O ARG C 95 N ALA C 79 SHEET 6 H18 LEU C 134 ASN C 139 -1 O ARG C 138 N SER C 90 SHEET 7 H18 LEU C 149 GLN C 156 -1 O ILE C 153 N TYR C 137 SHEET 8 H18 ASN C 169 PHE C 181 -1 O ALA C 178 N SER C 150 SHEET 9 H18 PHE C 184 ARG C 195 -1 O TYR C 190 N TYR C 175 SHEET 10 H18 ARG C 208 ALA C 220 -1 O LYS C 217 N GLY C 185 SHEET 11 H18 VAL C 223 THR C 232 -1 O LEU C 225 N TYR C 218 SHEET 12 H18 LYS C 251 TYR C 261 -1 O GLU C 256 N VAL C 228 SHEET 13 H18 ALA C 270 LYS C 279 -1 O GLN C 275 N LEU C 255 SHEET 14 H18 ASP C 289 ASN C 303 -1 O GLY C 297 N ALA C 270 SHEET 15 H18 MET C 306 ASN C 315 -1 O MET C 306 N ASN C 303 SHEET 16 H18 GLN C 332 THR C 338 -1 O THR C 338 N ASN C 307 SHEET 17 H18 HIS C 21 TRP C 23 -1 N TRP C 23 O ALA C 333 SHEET 18 H18 ASN C 31 ASP C 33 -1 O ALA C 32 N VAL C 22 SHEET 1 I 2 ILE C 237 VAL C 238 0 SHEET 2 I 2 GLU C 247 MET C 248 -1 O GLU C 247 N VAL C 238 SITE 1 AC1 11 TYR C 36 ARG C 60 ARG C 77 TYR C 112 SITE 2 AC1 11 PHE C 113 SER C 114 GLY C 115 GLU C 116 SITE 3 AC1 11 GLY C 120 ALA C 121 ARG C 130 CRYST1 85.160 139.110 151.150 90.00 90.00 90.00 P 21 21 21 12 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 0.011743 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007189 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006616 0.00000