PDB Short entry for 5A92 HEADER HYDROLASE 17-JUL-15 5A92 TITLE 15K X-RAY STRUCTURE WITH CEFOTAXIME: EXPLORING THE MECHANISM OF BETA- TITLE 2 LACTAM RING PROTONATION IN THE CLASS A BETA-LACTAMASE ACYLATION TITLE 3 MECHANISM USING NEUTRON AND X-RAY CRYSTALLOGRAPHY COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE CTX-M-97; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TOHO1 BETA LACTMAMASE; COMPND 5 EC: 3.5.2.6; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, BETA LACTAMASE EXPDTA X-RAY DIFFRACTION AUTHOR V.G.VANDAVASI,K.L.WEISS,J.B.COOPER,P.T.ERSKINE,S.J.TOMANICEK, AUTHOR 2 A.OSTERMANN,T.E.SCHRADER,S.L.GINELL,L.COATES REVDAT 3 03-OCT-18 5A92 1 COMPND REMARK HET HETNAM REVDAT 3 2 1 HETSYN FORMUL LINK ATOM REVDAT 2 27-JAN-16 5A92 1 JRNL REVDAT 1 16-DEC-15 5A92 0 JRNL AUTH V.G.VANDAVASI,K.L.WEISS,J.B.COOPER,P.T.ERSKINE, JRNL AUTH 2 S.J.TOMANICEK,A.OSTERMANN,T.E.SCHRADER,S.L.GINELL,L.COATES JRNL TITL EXPLORING THE MECHANISM OF BETA-LACTAM RING PROTONATION IN JRNL TITL 2 THE CLASS A BETA-LACTAMASE ACYLATION MECHANISM USING NEUTRON JRNL TITL 3 AND X-RAY CRYSTALLOGRAPHY. JRNL REF J.MED.CHEM. V. 59 474 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 26630115 JRNL DOI 10.1021/ACS.JMEDCHEM.5B01215 REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 138524 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.134 REMARK 3 R VALUE (WORKING SET) : 0.133 REMARK 3 FREE R VALUE : 0.154 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 6962 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 31.4278 - 3.2614 0.86 4029 236 0.1567 0.1919 REMARK 3 2 3.2614 - 2.5891 1.00 4508 224 0.1341 0.1444 REMARK 3 3 2.5891 - 2.2619 1.00 4499 240 0.1273 0.1542 REMARK 3 4 2.2619 - 2.0551 1.00 4452 242 0.1134 0.1244 REMARK 3 5 2.0551 - 1.9079 1.00 4415 248 0.1133 0.1417 REMARK 3 6 1.9079 - 1.7954 1.00 4422 255 0.1196 0.1479 REMARK 3 7 1.7954 - 1.7055 1.00 4476 206 0.1195 0.1357 REMARK 3 8 1.7055 - 1.6312 1.00 4406 234 0.1138 0.1494 REMARK 3 9 1.6312 - 1.5684 1.00 4422 220 0.1113 0.1284 REMARK 3 10 1.5684 - 1.5143 1.00 4403 247 0.1109 0.1165 REMARK 3 11 1.5143 - 1.4670 1.00 4398 226 0.1160 0.1393 REMARK 3 12 1.4670 - 1.4250 1.00 4372 220 0.1199 0.1376 REMARK 3 13 1.4250 - 1.3875 1.00 4413 233 0.1244 0.1291 REMARK 3 14 1.3875 - 1.3537 1.00 4387 255 0.1266 0.1506 REMARK 3 15 1.3537 - 1.3229 1.00 4382 228 0.1287 0.1489 REMARK 3 16 1.3229 - 1.2947 1.00 4381 216 0.1312 0.1502 REMARK 3 17 1.2947 - 1.2688 1.00 4382 222 0.1325 0.1531 REMARK 3 18 1.2688 - 1.2449 1.00 4387 229 0.1396 0.1585 REMARK 3 19 1.2449 - 1.2227 1.00 4427 210 0.1409 0.1678 REMARK 3 20 1.2227 - 1.2019 1.00 4388 236 0.1460 0.1617 REMARK 3 21 1.2019 - 1.1826 1.00 4340 241 0.1521 0.1752 REMARK 3 22 1.1826 - 1.1644 1.00 4332 245 0.1531 0.1691 REMARK 3 23 1.1644 - 1.1472 1.00 4426 220 0.1556 0.1860 REMARK 3 24 1.1472 - 1.1311 1.00 4319 216 0.1566 0.1730 REMARK 3 25 1.1311 - 1.1158 1.00 4365 234 0.1587 0.1672 REMARK 3 26 1.1158 - 1.1013 1.00 4380 252 0.1615 0.1883 REMARK 3 27 1.1013 - 1.0875 1.00 4392 236 0.1724 0.1855 REMARK 3 28 1.0875 - 1.0744 1.00 4386 225 0.1761 0.1708 REMARK 3 29 1.0744 - 1.0619 1.00 4323 229 0.1821 0.2088 REMARK 3 30 1.0619 - 1.0500 1.00 4350 237 0.1880 0.2043 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.070 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 13.320 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.015 2159 REMARK 3 ANGLE : 1.701 2963 REMARK 3 CHIRALITY : 0.091 342 REMARK 3 PLANARITY : 0.011 384 REMARK 3 DIHEDRAL : 13.781 814 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5A92 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1290064373. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 15 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.67 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 138609 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 38.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 5.400 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.1 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 65.46333 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 32.73167 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 32.73167 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 65.46333 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 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 HOH A2030 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2096 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2191 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2192 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2453 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 ALA A 26 REMARK 465 ASN A 27 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 CYS A 69 CA CB SG 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 A 2257 O HOH A 2474 1.92 REMARK 500 O HOH A 2409 O HOH A 2410 1.98 REMARK 500 O HOH A 2039 O HOH A 2452 2.02 REMARK 500 O HOH A 2434 O HOH A 2435 2.07 REMARK 500 O HOH A 2416 O HOH A 2417 2.07 REMARK 500 ND2 ASN A 276 O HOH A 2465 2.08 REMARK 500 O HOH A 2057 O HOH A 2089 2.10 REMARK 500 O HOH A 2299 O HOH A 2300 2.10 REMARK 500 O HOH A 2314 O HOH A 2355 2.11 REMARK 500 O HOH A 2492 O HOH A 2494 2.12 REMARK 500 O HOH A 2391 O HOH A 2441 2.13 REMARK 500 O HOH A 2202 O HOH A 2205 2.13 REMARK 500 O HOH A 2164 O HOH A 2369 2.14 REMARK 500 O HOH A 2473 O HOH A 2474 2.14 REMARK 500 O HOH A 2426 O HOH A 2440 2.14 REMARK 500 O HOH A 2103 O HOH A 2145 2.15 REMARK 500 ND1 HIS A 288 O HOH A 2016 2.15 REMARK 500 O HOH A 2359 O HOH A 2371 2.15 REMARK 500 O HOH A 2420 O HOH A 2428 2.15 REMARK 500 O HOH A 2288 O HOH A 2296 2.16 REMARK 500 O HOH A 2115 O HOH A 2116 2.17 REMARK 500 O HOH A 2267 O HOH A 2478 2.17 REMARK 500 OE1 GLU A 34 O HOH A 2018 2.18 REMARK 500 O HOH A 2060 O HOH A 2061 2.18 REMARK 500 N4 CEF A 1295 O HOH A 2493 2.18 REMARK 500 O HOH A 2231 O HOH A 2232 2.19 REMARK 500 O HOH A 2085 O HOH A 2197 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2172 O HOH A 2410 3455 1.99 REMARK 500 O HOH A 2173 O HOH A 2485 3455 2.06 REMARK 500 O HOH A 2179 O HOH A 2390 5565 2.11 REMARK 500 O HOH A 2151 O HOH A 2250 5555 2.13 REMARK 500 O HOH A 2064 O HOH A 2441 5565 2.18 REMARK 500 O HOH A 2177 O HOH A 2416 3455 2.18 REMARK 500 O HOH A 2025 O HOH A 2171 5565 2.19 REMARK 500 O HOH A 2208 O HOH A 2250 4565 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 CYS A 69 -142.21 51.00 REMARK 500 CYS A 69 -142.66 51.55 REMARK 500 VAL A 103 -137.15 -123.81 REMARK 500 TYR A 105 110.20 -161.98 REMARK 500 ASN A 106 60.73 -157.65 REMARK 500 ASN A 106 61.91 -158.33 REMARK 500 ASN A 114 -1.88 80.35 REMARK 500 SER A 220 -129.13 -100.11 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 TYR A 264 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2137 DISTANCE = 6.66 ANGSTROMS REMARK 525 HOH A2167 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A2178 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH A2498 DISTANCE = 8.84 ANGSTROMS REMARK 525 HOH A2499 DISTANCE = 8.02 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 (2R)-2-[(1R)-1-{[(2Z)-2-(2-AMINO-1, REMARK 600 3-THIAZOL-4-YL)-2-(METHOXYIMINO)ACETYL]AMINO}-2-OXOETHYL]-5-METHYLI REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1292 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1293 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1294 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: Binding site for Ligand PCZ A1295 bound to SER A REMARK 800 70 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5A90 RELATED DB: PDB REMARK 900 100K NEUTRON LIGAND FREE: EXPLORING THE MECHANISM OF BETA-LACTAM REMARK 900 RING PROTONATION IN THE CLASS A BETA- LACTAMASE ACYLATION MECHANISM REMARK 900 USING NEUTRON AND X-RAY CRYSTALLOGRAPHY REMARK 900 RELATED ID: 5A91 RELATED DB: PDB REMARK 900 15K X-RAY LIGAND FREE: EXPLORING THE MECHANISM OF BETA-LACTAM RING REMARK 900 PROTONATION IN THE CLASS A BETA- LACTAMASE ACYLATION MECHANISM REMARK 900 USING NEUTRON AND X-RAY CRYSTALLOGRAPHY REMARK 900 RELATED ID: 5A93 RELATED DB: PDB REMARK 900 293K JOINT X-RAY NEUTRON WITH CEFOTAXIME: EXPLORING THE MECHANISM REMARK 900 OF BETA-LACTAM RING PROTONATION IN THE CLASS A BETA-LACTAMASE REMARK 900 ACYLATION MECHANISM USING NEUTRON AND X-RAY CRYSTALLOGRAPHY DBREF 5A92 A 26 290 UNP E1ANH6 BLC97_ECOLX 30 291 SEQADV 5A92 ALA A 166 UNP E1ANH6 GLU 169 ENGINEERED MUTATION SEQADV 5A92 ASN A 274 UNP E1ANH6 SER 275 CONFLICT SEQADV 5A92 ASN A 276 UNP E1ANH6 ARG 277 CONFLICT SEQRES 1 A 262 ALA ASN SER VAL GLN GLN GLN LEU GLU ALA LEU GLU LYS SEQRES 2 A 262 SER SER GLY GLY ARG LEU GLY VAL ALA LEU ILE ASN THR SEQRES 3 A 262 ALA ASP ASN SER GLN ILE LEU TYR ARG ALA ASP GLU ARG SEQRES 4 A 262 PHE ALA MET CYS SER THR SER LYS VAL MET ALA ALA ALA SEQRES 5 A 262 ALA VAL LEU LYS GLN SER GLU SER ASP LYS HIS LEU LEU SEQRES 6 A 262 ASN GLN ARG VAL GLU ILE LYS LYS SER ASP LEU VAL ASN SEQRES 7 A 262 TYR ASN PRO ILE ALA GLU LYS HIS VAL ASN GLY THR MET SEQRES 8 A 262 THR LEU ALA GLU LEU GLY ALA ALA ALA LEU GLN TYR SER SEQRES 9 A 262 ASP ASN THR ALA MET ASN LYS LEU ILE ALA HIS LEU GLY SEQRES 10 A 262 GLY PRO ASP LYS VAL THR ALA PHE ALA ARG SER LEU GLY SEQRES 11 A 262 ASP GLU THR PHE ARG LEU ASP ARG THR ALA PRO THR LEU SEQRES 12 A 262 ASN THR ALA ILE PRO GLY ASP PRO ARG ASP THR THR THR SEQRES 13 A 262 PRO LEU ALA MET ALA GLN THR LEU LYS ASN LEU THR LEU SEQRES 14 A 262 GLY LYS ALA LEU ALA GLU THR GLN ARG ALA GLN LEU VAL SEQRES 15 A 262 THR TRP LEU LYS GLY ASN THR THR GLY SER ALA SER ILE SEQRES 16 A 262 ARG ALA GLY LEU PRO LYS SER TRP VAL VAL GLY ASP LYS SEQRES 17 A 262 THR GLY SER GLY ASP TYR GLY THR THR ASN ASP ILE ALA SEQRES 18 A 262 VAL ILE TRP PRO GLU ASN HIS ALA PRO LEU VAL LEU VAL SEQRES 19 A 262 THR TYR PHE THR GLN PRO GLU GLN LYS ALA GLU ASN ARG SEQRES 20 A 262 ASN ASP ILE LEU ALA ALA ALA ALA LYS ILE VAL THR HIS SEQRES 21 A 262 GLY PHE HET SO4 A1291 5 HET SO4 A1292 5 HET SO4 A1293 5 HET SO4 A1294 5 HET CEF A1295 42 HET SO4 A1296 5 HETNAM SO4 SULFATE ION HETNAM CEF CEFOTAXIME, C3' CLEAVED, OPEN, BOUND FORM FORMUL 2 SO4 5(O4 S 2-) FORMUL 6 CEF C14 H15 N5 O5 S2 FORMUL 8 HOH *499(H2 O) HELIX 1 1 SER A 28 GLY A 41 1 14 HELIX 2 2 CYS A 69 THR A 71 5 3 HELIX 3 3 SER A 72 GLU A 85 1 14 HELIX 4 4 LYS A 98 LEU A 102 5 5 HELIX 5 5 ILE A 108 VAL A 113 5 6 HELIX 6 6 LEU A 119 SER A 130 1 12 HELIX 7 7 ASP A 131 GLY A 143 1 13 HELIX 8 8 GLY A 144 LEU A 155 1 12 HELIX 9 9 PRO A 167 THR A 171 5 5 HELIX 10 10 THR A 182 GLY A 196 1 15 HELIX 11 11 ALA A 200 GLY A 213 1 14 HELIX 12 12 SER A 220 LEU A 225 5 6 HELIX 13 13 ARG A 275 HIS A 288 1 14 SHEET 1 AA 5 GLN A 56 TYR A 60 0 SHEET 2 AA 5 ARG A 43 ASN A 50 -1 O VAL A 46 N TYR A 60 SHEET 3 AA 5 LEU A 259 THR A 266 -1 O VAL A 260 N ILE A 49 SHEET 4 AA 5 THR A 244 TRP A 251 -1 O THR A 244 N PHE A 265 SHEET 5 AA 5 VAL A 230 SER A 237 -1 O VAL A 230 N TRP A 251 SHEET 1 AB 2 PHE A 66 ALA A 67 0 SHEET 2 AB 2 THR A 180 THR A 181 -1 O THR A 181 N PHE A 66 SHEET 1 AC 2 ARG A 94 GLU A 96 0 SHEET 2 AC 2 THR A 116 THR A 118 -1 O MET A 117 N VAL A 95 LINK OG SER A 70 C8 CEF A1295 1555 1555 1.35 CISPEP 1 ALA A 166 PRO A 167 0 4.23 SITE 1 AC1 10 TRP A 229 PRO A 252 GLU A 254 ASN A 255 SITE 2 AC1 10 HIS A 256 PHE A 290 HOH A2450 HOH A2480 SITE 3 AC1 10 HOH A2481 HOH A2482 SITE 1 AC2 11 LYS A 82 ALA A 198 ASN A 274 ASN A 276 SITE 2 AC2 11 ASP A 277 HOH A2409 HOH A2466 HOH A2467 SITE 3 AC2 11 HOH A2483 HOH A2484 HOH A2485 SITE 1 AC3 6 ALA A 52 ARG A 178 HOH A2069 HOH A2350 SITE 2 AC3 6 HOH A2486 HOH A2487 SITE 1 AC4 7 LYS A 88 HIS A 89 ASN A 92 HOH A2183 SITE 2 AC4 7 HOH A2185 HOH A2187 HOH A2490 SITE 1 AC5 7 HIS A 112 LYS A 227 SER A 228 HOH A2245 SITE 2 AC5 7 HOH A2252 HOH A2421 HOH A2497 SITE 1 AC6 17 CYS A 69 SER A 70 ASN A 104 TYR A 105 SITE 2 AC6 17 SER A 130 ASN A 132 PRO A 167 ASN A 170 SITE 3 AC6 17 LYS A 234 THR A 235 GLY A 236 SER A 237 SITE 4 AC6 17 HOH A2305 HOH A2308 HOH A2431 HOH A2433 SITE 5 AC6 17 HOH A2493 CRYST1 72.547 72.547 98.195 90.00 90.00 120.00 P 32 2 1 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 0.013784 0.007958 0.000000 0.00000 SCALE2 0.000000 0.015917 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010184 0.00000