HEADER TRANSFERASE 25-SEP-25 9SSH TITLE PENICILLIN-BINDING PROTEIN 1B (PBP-1B) IN COMPLEX WITH CEFTRIAXONE - TITLE 2 STREPTOCOCCUS PNEUMONIAE R6 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PENICILLIN-BINDING PROTEIN 1B; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE R6; SOURCE 3 ORGANISM_TAXID: 171101; SOURCE 4 STRAIN: ATCC; SOURCE 5 GENE: PBP1B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-AMP KEYWDS CELL WALL, PEPTIDOGLYCAN SYNTHESIS ENZYME, INFECTION, DRUG-BINDING KEYWDS 2 PROTEIN, ANTIBIOTICS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.L.FLANDERS,J.R.GILLINGHAM,C.CONTRERAS-MARTEL,A.DESSEN,E.E.CARLSON, AUTHOR 2 E.A.AMBROSE REVDAT 1 18-FEB-26 9SSH 0 JRNL AUTH P.L.FLANDERS,J.R.GILLINGHAM,C.CONTRERAS-MARTEL,A.DESSEN, JRNL AUTH 2 E.E.CARLSON,E.A.AMBROSE JRNL TITL STRUCTURAL AND DYNAMICS ANALYSES OF BETA-LACTAM INHIBITION JRNL TITL 2 OF STREPTOCOCCUS PNEUMONIAE PENICILLIN-BINDING PROTEIN 1B JRNL TITL 3 (PBP1B) GUIDE INTERROGATION OF STRUCTURE-ACTIVITY JRNL TITL 4 RELATIONSHIPS. JRNL REF ACS CHEM.BIOL. 2026 JRNL REFN ESSN 1554-8937 JRNL PMID 41589753 JRNL DOI 10.1021/ACSCHEMBIO.5C00788 REMARK 2 REMARK 2 RESOLUTION. 1.79 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 65507 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.510 REMARK 3 FREE R VALUE TEST SET COUNT : 2299 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) : 1.79 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.84 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4264 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.62 REMARK 3 BIN R VALUE (WORKING SET) : 0.5840 REMARK 3 BIN FREE R VALUE SET COUNT : 151 REMARK 3 BIN FREE R VALUE : 0.6190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3506 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 428 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.82900 REMARK 3 B22 (A**2) : 0.39800 REMARK 3 B33 (A**2) : -1.22800 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): 0.092 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.094 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.101 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.183 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 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): 3645 ; 0.007 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 3339 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4955 ; 1.288 ; 1.809 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7679 ; 0.452 ; 1.750 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 464 ; 6.368 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 23 ;25.001 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 599 ;10.871 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 538 ; 0.067 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4400 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 852 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 827 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 51 ; 0.194 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1840 ; 0.187 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 334 ; 0.146 ; 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): 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): 1827 ; 2.378 ; 2.731 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1827 ; 2.369 ; 2.732 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2285 ; 3.160 ; 4.892 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2286 ; 3.170 ; 4.894 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1818 ; 3.947 ; 3.152 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1819 ; 3.946 ; 3.153 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2664 ; 6.036 ; 5.575 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2665 ; 6.035 ; 5.576 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : Ap 337 Ap 397 REMARK 3 ORIGIN FOR THE GROUP (A): 28.7959 36.3562 7.8664 REMARK 3 T TENSOR REMARK 3 T11: 0.0406 T22: 0.1535 REMARK 3 T33: 0.2313 T12: -0.0573 REMARK 3 T13: 0.0125 T23: -0.0457 REMARK 3 L TENSOR REMARK 3 L11: 2.1800 L22: 0.8430 REMARK 3 L33: 3.5610 L12: 0.4979 REMARK 3 L13: 1.6152 L23: 0.8533 REMARK 3 S TENSOR REMARK 3 S11: -0.0327 S12: -0.1774 S13: 0.0377 REMARK 3 S21: 0.0671 S22: -0.0757 S23: -0.0338 REMARK 3 S31: 0.1082 S32: -0.1239 S33: 0.1084 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : Ap 398 Ap 600 REMARK 3 ORIGIN FOR THE GROUP (A): 17.1333 16.8503 -9.4431 REMARK 3 T TENSOR REMARK 3 T11: 0.0050 T22: 0.1543 REMARK 3 T33: 0.1866 T12: -0.0058 REMARK 3 T13: -0.0053 T23: 0.0166 REMARK 3 L TENSOR REMARK 3 L11: 0.7908 L22: 0.7363 REMARK 3 L33: 0.6650 L12: -0.0407 REMARK 3 L13: 0.1758 L23: 0.0164 REMARK 3 S TENSOR REMARK 3 S11: -0.0024 S12: -0.0893 S13: -0.1124 REMARK 3 S21: 0.0487 S22: -0.0182 S23: 0.0126 REMARK 3 S31: 0.0279 S32: 0.0167 S33: 0.0206 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : Ap 601 Ap 723 REMARK 3 ORIGIN FOR THE GROUP (A): 13.0138 22.0576 -18.3347 REMARK 3 T TENSOR REMARK 3 T11: 0.0055 T22: 0.1545 REMARK 3 T33: 0.1752 T12: -0.0174 REMARK 3 T13: -0.0048 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 1.1538 L22: 1.2150 REMARK 3 L33: 1.2107 L12: -0.4410 REMARK 3 L13: 0.0507 L23: 0.1048 REMARK 3 S TENSOR REMARK 3 S11: -0.0392 S12: 0.0167 S13: 0.0120 REMARK 3 S21: -0.0302 S22: -0.0029 S23: -0.0566 REMARK 3 S31: 0.0035 S32: 0.0505 S33: 0.0421 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : Ap 724 Ap 790 REMARK 3 ORIGIN FOR THE GROUP (A): 19.9628 -7.8418 -29.0682 REMARK 3 T TENSOR REMARK 3 T11: 0.2978 T22: 0.1318 REMARK 3 T33: 0.3138 T12: 0.0600 REMARK 3 T13: -0.0500 T23: -0.1570 REMARK 3 L TENSOR REMARK 3 L11: 2.6315 L22: 3.8912 REMARK 3 L33: 2.6196 L12: 0.6582 REMARK 3 L13: -0.3130 L23: -0.0634 REMARK 3 S TENSOR REMARK 3 S11: -0.0003 S12: 0.4437 S13: -0.7317 REMARK 3 S21: -0.5702 S22: 0.0617 S23: -0.0062 REMARK 3 S31: 0.7038 S32: 0.0641 S33: -0.0613 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9SSH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-SEP-25. REMARK 100 THE DEPOSITION ID IS D_1292151090. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-FEB-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.965459 REMARK 200 MONOCHROMATOR : C(110) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 20200417 REMARK 200 DATA SCALING SOFTWARE : XSCALE 20200417 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65637 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.792 REMARK 200 RESOLUTION RANGE LOW (A) : 44.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 4.670 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09100 REMARK 200 FOR THE DATA SET : 9.1500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.77 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 2.34000 REMARK 200 FOR SHELL : 0.540 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM HEPES PH 7.2, 3M NACL, 0.6-0.9M REMARK 280 AMMONIUM SULFATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.29450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.29450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 48.03100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 74.28850 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 48.03100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 74.28850 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 49.29450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 48.03100 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 74.28850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 49.29450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 48.03100 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 74.28850 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -217.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 CL CL A 816 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1238 LIES ON A SPECIAL POSITION. 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 ASP A 298 REMARK 465 ILE A 299 REMARK 465 SER A 300 REMARK 465 SER A 301 REMARK 465 ILE A 302 REMARK 465 SER A 303 REMARK 465 GLU A 304 REMARK 465 ILE A 305 REMARK 465 THR A 306 REMARK 465 TYR A 307 REMARK 465 SER A 308 REMARK 465 ASP A 309 REMARK 465 GLY A 310 REMARK 465 THR A 311 REMARK 465 VAL A 312 REMARK 465 ILE A 313 REMARK 465 ALA A 314 REMARK 465 SER A 315 REMARK 465 ILE A 316 REMARK 465 GLU A 317 REMARK 465 SER A 318 REMARK 465 ASP A 319 REMARK 465 MET A 320 REMARK 465 LEU A 321 REMARK 465 ARG A 322 REMARK 465 GLN A 323 REMARK 465 ASP A 324 REMARK 465 PHE A 325 REMARK 465 LEU A 326 REMARK 465 PRO A 327 REMARK 465 SER A 328 REMARK 465 GLY A 329 REMARK 465 THR A 330 REMARK 465 VAL A 331 REMARK 465 THR A 332 REMARK 465 GLY A 333 REMARK 465 ILE A 334 REMARK 465 SER A 335 REMARK 465 GLN A 336 REMARK 465 PRO A 791 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 442 103.56 -174.09 REMARK 500 ALA A 459 -136.13 57.62 REMARK 500 ALA A 467 -74.45 -107.10 REMARK 500 ALA A 499 -117.50 51.66 REMARK 500 THR A 504 -109.74 -123.28 REMARK 500 ASN A 576 42.75 -88.20 REMARK 500 ASN A 640 80.12 -154.70 REMARK 500 SER A 691 -65.08 -107.66 REMARK 500 ASN A 759 -161.09 -110.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 419 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 9SSD RELATED DB: PDB REMARK 900 PBP1B + PENICILLIN REMARK 900 RELATED ID: 9SSE RELATED DB: PDB REMARK 900 PBP1B + AMPICILLIN REMARK 900 RELATED ID: 9SSF RELATED DB: PDB REMARK 900 PBP1B + METHICILLIN REMARK 900 RELATED ID: 9SSG RELATED DB: PDB REMARK 900 PBP1B + CEPHALEXIN REMARK 900 RELATED ID: 9SSI RELATED DB: PDB REMARK 900 PBP1B + CEFDITOREN DBREF 9SSH A 323 791 UNP O70038 O70038_STREE 323 791 SEQADV 9SSH ASP A 298 UNP O70038 EXPRESSION TAG SEQADV 9SSH ILE A 299 UNP O70038 EXPRESSION TAG SEQADV 9SSH SER A 300 UNP O70038 EXPRESSION TAG SEQADV 9SSH SER A 301 UNP O70038 EXPRESSION TAG SEQADV 9SSH ILE A 302 UNP O70038 EXPRESSION TAG SEQADV 9SSH SER A 303 UNP O70038 EXPRESSION TAG SEQADV 9SSH GLU A 304 UNP O70038 EXPRESSION TAG SEQADV 9SSH ILE A 305 UNP O70038 EXPRESSION TAG SEQADV 9SSH THR A 306 UNP O70038 EXPRESSION TAG SEQADV 9SSH TYR A 307 UNP O70038 EXPRESSION TAG SEQADV 9SSH SER A 308 UNP O70038 EXPRESSION TAG SEQADV 9SSH ASP A 309 UNP O70038 EXPRESSION TAG SEQADV 9SSH GLY A 310 UNP O70038 EXPRESSION TAG SEQADV 9SSH THR A 311 UNP O70038 EXPRESSION TAG SEQADV 9SSH VAL A 312 UNP O70038 EXPRESSION TAG SEQADV 9SSH ILE A 313 UNP O70038 EXPRESSION TAG SEQADV 9SSH ALA A 314 UNP O70038 EXPRESSION TAG SEQADV 9SSH SER A 315 UNP O70038 EXPRESSION TAG SEQADV 9SSH ILE A 316 UNP O70038 EXPRESSION TAG SEQADV 9SSH GLU A 317 UNP O70038 EXPRESSION TAG SEQADV 9SSH SER A 318 UNP O70038 EXPRESSION TAG SEQADV 9SSH ASP A 319 UNP O70038 EXPRESSION TAG SEQADV 9SSH MET A 320 UNP O70038 EXPRESSION TAG SEQADV 9SSH LEU A 321 UNP O70038 EXPRESSION TAG SEQADV 9SSH ARG A 322 UNP O70038 EXPRESSION TAG SEQADV 9SSH GLN A 336 UNP O70038 ARG 336 ENGINEERED MUTATION SEQADV 9SSH GLY A 656 UNP O70038 ASN 656 ENGINEERED MUTATION SEQADV 9SSH GLN A 686 UNP O70038 ARG 686 ENGINEERED MUTATION SEQADV 9SSH GLN A 687 UNP O70038 ARG 687 ENGINEERED MUTATION SEQRES 1 A 494 ASP ILE SER SER ILE SER GLU ILE THR TYR SER ASP GLY SEQRES 2 A 494 THR VAL ILE ALA SER ILE GLU SER ASP MET LEU ARG GLN SEQRES 3 A 494 ASP PHE LEU PRO SER GLY THR VAL THR GLY ILE SER GLN SEQRES 4 A 494 ASP TYR LEU TYR PHE THR THR LEU ALA GLU ALA GLN GLU SEQRES 5 A 494 ARG MET TYR ASP TYR LEU ALA GLN ARG ASP ASN VAL SER SEQRES 6 A 494 ALA LYS GLU LEU LYS ASN GLU ALA THR GLN LYS PHE TYR SEQRES 7 A 494 ARG ASP LEU ALA ALA LYS GLU ILE GLU ASN GLY GLY TYR SEQRES 8 A 494 LYS ILE THR THR THR ILE ASP GLN LYS ILE HIS SER ALA SEQRES 9 A 494 MET GLN SER ALA VAL ALA ASP TYR GLY TYR LEU LEU ASP SEQRES 10 A 494 ASP GLY THR GLY ARG VAL GLU VAL GLY ASN VAL LEU MET SEQRES 11 A 494 ASP ASN GLN THR GLY ALA ILE LEU GLY PHE VAL GLY GLY SEQRES 12 A 494 ARG ASN TYR GLN GLU ASN GLN ASN ASN HIS ALA PHE ASP SEQRES 13 A 494 THR LYS ARG SER PRO ALA SER THR THR LYS PRO LEU LEU SEQRES 14 A 494 ALA TYR GLY ILE ALA ILE ASP GLN GLY LEU MET GLY SER SEQRES 15 A 494 GLU THR ILE LEU SER ASN TYR PRO THR ASN PHE ALA ASN SEQRES 16 A 494 GLY ASN PRO ILE MET TYR ALA ASN SER LYS GLY THR GLY SEQRES 17 A 494 MET MET THR LEU GLY GLU ALA LEU ASN TYR SER TRP ASN SEQRES 18 A 494 ILE PRO ALA TYR TRP THR TYR ARG MET LEU ARG GLU ASN SEQRES 19 A 494 GLY VAL ASP VAL LYS GLY TYR MET GLU LYS MET GLY TYR SEQRES 20 A 494 GLU ILE PRO GLU TYR GLY ILE GLU SER LEU PRO MET GLY SEQRES 21 A 494 GLY GLY ILE GLU VAL THR VAL ALA GLN HIS THR ASN GLY SEQRES 22 A 494 TYR GLN THR LEU ALA ASN ASN GLY VAL TYR HIS GLN LYS SEQRES 23 A 494 HIS VAL ILE SER LYS ILE GLU ALA ALA ASP GLY ARG VAL SEQRES 24 A 494 VAL TYR GLU TYR GLN ASP LYS PRO VAL GLN VAL TYR SER SEQRES 25 A 494 LYS ALA THR ALA THR ILE MET GLN GLY LEU LEU ARG GLU SEQRES 26 A 494 VAL LEU SER SER ARG VAL THR THR THR PHE LYS SER ASN SEQRES 27 A 494 LEU THR SER LEU ASN PRO THR LEU ALA ASN ALA ASP TRP SEQRES 28 A 494 ILE GLY LYS THR GLY THR THR GLY GLN ASP GLU ASN MET SEQRES 29 A 494 TRP LEU MET LEU SER THR PRO ARG LEU THR LEU GLY GLY SEQRES 30 A 494 TRP ILE GLY HIS ASP ASP ASN HIS SER LEU SER GLN GLN SEQRES 31 A 494 ALA GLY TYR SER ASN ASN SER ASN TYR MET ALA HIS LEU SEQRES 32 A 494 VAL ASN ALA ILE GLN GLN ALA SER PRO SER ILE TRP GLY SEQRES 33 A 494 ASN GLU ARG PHE ALA LEU ASP PRO SER VAL VAL LYS SER SEQRES 34 A 494 GLU VAL LEU LYS SER THR GLY GLN LYS PRO GLY LYS VAL SEQRES 35 A 494 SER VAL GLU GLY LYS GLU VAL GLU VAL THR GLY SER THR SEQRES 36 A 494 VAL THR SER TYR TRP ALA ASN LYS SER GLY ALA PRO ALA SEQRES 37 A 494 THR SER TYR ARG PHE ALA ILE GLY GLY SER ASP ALA ASP SEQRES 38 A 494 TYR GLN ASN ALA TRP SER SER ILE VAL GLY SER LEU PRO HET CEF A 801 26 HET CL A 802 1 HET CL A 803 1 HET CL A 804 1 HET CL A 805 1 HET CL A 806 1 HET CL A 807 1 HET CL A 808 1 HET CL A 809 1 HET CL A 810 1 HET CL A 811 1 HET CL A 812 1 HET CL A 813 1 HET CL A 814 1 HET CL A 815 1 HET CL A 816 1 HET CL A 817 1 HET CL A 818 1 HET CL A 819 1 HET CL A 820 1 HET CL A 821 1 HET CL A 822 1 HET CL A 823 1 HET CL A 824 1 HET CL A 825 1 HETNAM CEF CEFOTAXIME, C3' CLEAVED, OPEN, BOUND FORM HETNAM CL CHLORIDE ION FORMUL 2 CEF C14 H15 N5 O5 S2 FORMUL 3 CL 24(CL 1-) FORMUL 27 HOH *428(H2 O) HELIX 1 AA1 ASP A 337 ASP A 359 1 23 HELIX 2 AA2 LYS A 364 LYS A 367 5 4 HELIX 3 AA3 ASN A 368 GLY A 386 1 19 HELIX 4 AA4 ASP A 395 GLY A 410 1 16 HELIX 5 AA5 TYR A 411 ASP A 414 5 4 HELIX 6 AA6 PRO A 458 THR A 461 5 4 HELIX 7 AA7 THR A 462 ALA A 467 1 6 HELIX 8 AA8 ALA A 467 GLN A 474 1 8 HELIX 9 AA9 LEU A 509 SER A 516 1 8 HELIX 10 AB1 ASN A 518 ASN A 531 1 14 HELIX 11 AB2 ASP A 534 MET A 542 1 9 HELIX 12 AB3 SER A 553 GLY A 557 5 5 HELIX 13 AB4 THR A 563 ASN A 576 1 14 HELIX 14 AB5 SER A 609 ARG A 627 1 19 HELIX 15 AB6 THR A 631 ASN A 640 1 10 HELIX 16 AB7 ASN A 640 ASN A 645 1 6 HELIX 17 AB8 GLY A 656 ASP A 658 5 3 HELIX 18 AB9 SER A 691 SER A 708 1 18 HELIX 19 AC1 SER A 775 GLY A 788 1 14 SHEET 1 AA1 3 LYS A 389 THR A 392 0 SHEET 2 AA1 3 ILE A 586 GLU A 590 -1 O LYS A 588 N THR A 391 SHEET 3 AA1 3 VAL A 596 GLU A 599 -1 O TYR A 598 N ILE A 589 SHEET 1 AA2 5 ILE A 434 VAL A 438 0 SHEET 2 AA2 5 GLU A 421 ASP A 428 -1 N LEU A 426 O GLY A 436 SHEET 3 AA2 5 LEU A 670 GLY A 677 -1 O THR A 671 N MET A 427 SHEET 4 AA2 5 ASN A 660 SER A 666 -1 N LEU A 665 O LEU A 672 SHEET 5 AA2 5 ILE A 649 THR A 654 -1 N ILE A 649 O SER A 666 SHEET 1 AA3 2 ILE A 482 SER A 484 0 SHEET 2 AA3 2 MET A 506 THR A 508 -1 O MET A 507 N LEU A 483 SHEET 1 AA4 2 VAL A 579 TYR A 580 0 SHEET 2 AA4 2 VAL A 605 GLN A 606 -1 O VAL A 605 N TYR A 580 SHEET 1 AA5 2 VAL A 724 LEU A 729 0 SHEET 2 AA5 2 THR A 752 TRP A 757 -1 O SER A 755 N SER A 726 SHEET 1 AA6 2 GLY A 737 VAL A 741 0 SHEET 2 AA6 2 LYS A 744 VAL A 748 -1 O VAL A 746 N VAL A 739 LINK OG SER A 460 C8 CEF A 801 1555 1555 1.34 CRYST1 96.062 148.577 98.589 90.00 90.00 90.00 C 2 2 21 8 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 0.010410 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006731 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010143 0.00000 CONECT 999 3551 CONECT 3540 3541 3549 CONECT 3541 3540 3542 CONECT 3542 3541 3543 3544 CONECT 3543 3542 CONECT 3544 3542 3545 3548 CONECT 3545 3544 3546 3547 CONECT 3546 3545 CONECT 3547 3545 CONECT 3548 3544 3549 CONECT 3549 3540 3548 3550 CONECT 3550 3549 3551 3553 CONECT 3551 999 3550 3552 CONECT 3552 3551 CONECT 3553 3550 3554 CONECT 3554 3553 3555 3556 CONECT 3555 3554 CONECT 3556 3554 3557 3560 CONECT 3557 3556 3558 CONECT 3558 3557 3559 CONECT 3559 3558 CONECT 3560 3556 3561 3565 CONECT 3561 3560 3562 CONECT 3562 3561 3563 CONECT 3563 3562 3564 3565 CONECT 3564 3563 CONECT 3565 3560 3563 MASTER 437 0 25 19 16 0 0 6 3984 1 27 38 END