HEADER HYDROLASE 20-JUL-98 1BSG TITLE BETA-LACTAMASE FROM STREPTOMYCES ALBUS G COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA LACTAMASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PENICILLINASE; COMPND 5 EC: 3.5.2.6 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES ALBUS; SOURCE 3 ORGANISM_TAXID: 1962; SOURCE 4 STRAIN: G KEYWDS HYDROLASE, ANTIBIOTIC RESISTANCE, PENICILLIN EXPDTA X-RAY DIFFRACTION AUTHOR E.FONZE,P.CHARLIER,O.DIDEBERG REVDAT 4 07-FEB-24 1BSG 1 REMARK SEQADV REVDAT 3 13-JUL-11 1BSG 1 VERSN REVDAT 2 24-FEB-09 1BSG 1 VERSN REVDAT 1 13-JAN-99 1BSG 0 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH O.DIDEBERG,P.CHARLIER,J.P.WERY,P.DEHOTTAY,J.DUSART, REMARK 1 AUTH 2 T.ERPICUM,J.M.FRERE,J.M.GHUYSEN REMARK 1 TITL THE CRYSTAL STRUCTURE OF THE BETA-LACTAMASE OF STREPTOMYCES REMARK 1 TITL 2 ALBUS G AT 0.3 NM RESOLUTION. REMARK 1 REF BIOCHEM.J. V. 245 911 1987 REMARK 1 REFN ISSN 0264-6021 REMARK 1 PMID 3499147 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 100000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.1000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 78.8 REMARK 3 NUMBER OF REFLECTIONS : 16921 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.93 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 58.66 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1541 REMARK 3 BIN R VALUE (WORKING SET) : 0.1767 REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2018 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 241 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 8.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.18 REMARK 3 ESD FROM SIGMAA (A) : 0.14 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.412 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.250 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.380 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.010 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.870 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.530 ; 2.500 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PARHCSDX.PRO REMARK 3 PARAMETER FILE 2 : TIP3P.PARAMETER REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPHCSDX.PRO REMARK 3 TOPOLOGY FILE 2 : TIP3P.TOPOLOGY REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BSG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000172053. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR 3.851 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 20.31500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.30500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.78500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.30500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.31500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 21.78500 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 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 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 69 -141.60 56.18 REMARK 500 ARG A 86 -62.85 -102.91 REMARK 500 ALA A 106 63.44 -150.52 REMARK 500 ARG A 220 -119.50 -111.34 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 ACT A 299 DBREF 1BSG A 27 291 UNP P14559 BLAC_STRAL 47 314 SEQADV 1BSG A UNP P14559 GLY 128 DELETION SEQADV 1BSG A UNP P14559 ALA 140 DELETION SEQADV 1BSG GLY A 116 UNP P14559 GLN 141 CONFLICT SEQADV 1BSG MET A 117 UNP P14559 LEU 142 CONFLICT SEQRES 1 A 266 SER ASP ALA GLU ARG ARG LEU ALA GLY LEU GLU ARG ALA SEQRES 2 A 266 SER GLY ALA ARG LEU GLY VAL TYR ALA TYR ASP THR GLY SEQRES 3 A 266 SER GLY ARG THR VAL ALA TYR ARG ALA ASP GLU LEU PHE SEQRES 4 A 266 PRO MET CYS SER VAL PHE LYS THR LEU SER SER ALA ALA SEQRES 5 A 266 VAL LEU ARG ASP LEU ASP ARG ASN GLY GLU PHE LEU SER SEQRES 6 A 266 ARG ARG ILE LEU TYR THR GLN ASP ASP VAL GLU GLN ALA SEQRES 7 A 266 ASP GLY ALA PRO GLU THR GLY LYS PRO GLN ASN LEU ALA SEQRES 8 A 266 ASN GLY MET THR VAL GLU GLU LEU CYS GLU VAL SER ILE SEQRES 9 A 266 THR ALA SER ASP ASN CYS ALA ALA ASN LEU MET LEU ARG SEQRES 10 A 266 GLU LEU GLY GLY PRO ALA ALA VAL THR ARG PHE VAL ARG SEQRES 11 A 266 SER LEU GLY ASP ARG VAL THR ARG LEU ASP ARG TRP GLU SEQRES 12 A 266 PRO GLU LEU ASN SER ALA GLU PRO GLY ARG VAL THR ASP SEQRES 13 A 266 THR THR SER PRO ARG ALA ILE THR ARG THR TYR GLY ARG SEQRES 14 A 266 LEU VAL LEU GLY ASP ALA LEU ASN PRO ARG ASP ARG ARG SEQRES 15 A 266 LEU LEU THR SER TRP LEU LEU ALA ASN THR THR SER GLY SEQRES 16 A 266 ASP ARG PHE ARG ALA GLY LEU PRO ASP ASP TRP THR LEU SEQRES 17 A 266 GLY ASP LYS THR GLY ALA GLY ARG TYR GLY THR ASN ASN SEQRES 18 A 266 ASP ALA GLY VAL THR TRP PRO PRO GLY ARG ALA PRO ILE SEQRES 19 A 266 VAL LEU THR VAL LEU THR ALA LYS THR GLU GLN ASP ALA SEQRES 20 A 266 ALA ARG ASP ASP GLY LEU VAL ALA ASP ALA ALA ARG VAL SEQRES 21 A 266 LEU ALA GLU THR LEU GLY HET ACT A 299 4 HETNAM ACT ACETATE ION FORMUL 2 ACT C2 H3 O2 1- FORMUL 3 HOH *241(H2 O) HELIX 1 1 ASP A 28 SER A 40 1 13 HELIX 2 2 CYS A 69 ASP A 83 5 15 HELIX 3 3 GLN A 99 ALA A 103 1 7 HELIX 4 4 PRO A 111A ASN A 115 1 6 HELIX 5 5 VAL A 119 THR A 128 1 10 HELIX 6 6 ASN A 132 LEU A 142 1 11 HELIX 7 7 PRO A 145 LEU A 155 1 11 HELIX 8 8 GLU A 168 ASN A 170 5 3 HELIX 9 9 PRO A 183 VAL A 194 1 12 HELIX 10 10 PRO A 201 LEU A 212 1 12 HELIX 11 11 PHE A 221 GLY A 224 1 4 HELIX 12 12 ASP A 276 THR A 289 1 14 SHEET 1 A 5 THR A 56 TYR A 59 0 SHEET 2 A 5 ARG A 43 ASP A 50 -1 N ALA A 48 O VAL A 57 SHEET 3 A 5 PRO A 258 ALA A 266 -1 N ALA A 266 O ARG A 43 SHEET 4 A 5 ASN A 244 TRP A 251 -1 N THR A 250 O ILE A 259 SHEET 5 A 5 THR A 230 ALA A 237 -1 N GLY A 236 O ASN A 245 SHEET 1 B 2 LEU A 65 PRO A 67 0 SHEET 2 B 2 THR A 180 SER A 182 -1 N THR A 181 O PHE A 66 CISPEP 1 GLU A 166 PRO A 167 0 -0.02 SITE 1 AC1 8 ARG A 188 ARG A 192 ALA A 287 GLU A 288 SITE 2 AC1 8 LEU A 290 GLY A 291 HOH A 373 HOH A 455 CRYST1 40.630 43.570 138.610 90.00 90.00 90.00 P 21 21 21 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 0.024612 0.000000 0.000000 0.00000 SCALE2 0.000000 0.022952 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007214 0.00000