HEADER HYDROLASE 17-OCT-19 6T5Y TITLE CRYSTAL STRUCTURE OF AMPC FROM E.COLI WITH ZIDEBACTAM (WCK 5107) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CEPHALOSPORINASE; COMPND 5 EC: 3.5.2.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: AMPC, AMPA, B4150, JW4111; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI STR. K-12 SUBSTR. W3110; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 316407 KEYWDS BETA LACTAMASE, ANTIBIOTIC RESISTANCE, DIAZABICYCLOOCTANE, DBO, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.A.LANG,T.M.LEISSING,C.J.SCHOFIELD,J.BREM REVDAT 4 24-JAN-24 6T5Y 1 REMARK REVDAT 3 03-FEB-21 6T5Y 1 JRNL REVDAT 2 02-DEC-20 6T5Y 1 JRNL REVDAT 1 18-NOV-20 6T5Y 0 JRNL AUTH P.A.LANG,T.M.LEISSING,M.G.P.PAGE,C.J.SCHOFIELD,J.BREM JRNL TITL STRUCTURAL INVESTIGATIONS OF THE INHIBITION OF ESCHERICHIA JRNL TITL 2 COLI AMPC BETA-LACTAMASE BY DIAZABICYCLOOCTANES. JRNL REF ANTIMICROB.AGENTS CHEMOTHER. V. 65 2021 JRNL REFN ESSN 1098-6596 JRNL PMID 33199391 JRNL DOI 10.1128/AAC.02073-20 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15.2_3472 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 109025 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.133 REMARK 3 R VALUE (WORKING SET) : 0.132 REMARK 3 FREE R VALUE : 0.149 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 5371 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 61.6080 - 4.0389 1.00 3821 189 0.1682 0.1788 REMARK 3 2 4.0389 - 3.2059 1.00 3592 192 0.1374 0.1422 REMARK 3 3 3.2059 - 2.8006 1.00 3553 177 0.1385 0.1397 REMARK 3 4 2.8006 - 2.5446 1.00 3553 156 0.1341 0.1443 REMARK 3 5 2.5446 - 2.3622 1.00 3504 192 0.1205 0.1253 REMARK 3 6 2.3622 - 2.2229 1.00 3448 188 0.1141 0.1430 REMARK 3 7 2.2229 - 2.1116 1.00 3465 205 0.1156 0.1226 REMARK 3 8 2.1116 - 2.0196 1.00 3493 168 0.1156 0.1535 REMARK 3 9 2.0196 - 1.9419 1.00 3453 169 0.1117 0.1356 REMARK 3 10 1.9419 - 1.8749 1.00 3454 184 0.1086 0.1261 REMARK 3 11 1.8749 - 1.8162 1.00 3486 162 0.1108 0.1278 REMARK 3 12 1.8162 - 1.7643 1.00 3409 185 0.1069 0.1507 REMARK 3 13 1.7643 - 1.7179 1.00 3448 183 0.1087 0.1306 REMARK 3 14 1.7179 - 1.6760 1.00 3434 170 0.1023 0.1477 REMARK 3 15 1.6760 - 1.6379 1.00 3436 166 0.1007 0.1289 REMARK 3 16 1.6379 - 1.6030 1.00 3447 166 0.1035 0.1306 REMARK 3 17 1.6030 - 1.5709 1.00 3419 180 0.1057 0.1458 REMARK 3 18 1.5709 - 1.5413 1.00 3425 184 0.1093 0.1261 REMARK 3 19 1.5413 - 1.5138 1.00 3426 164 0.1118 0.1414 REMARK 3 20 1.5138 - 1.4881 1.00 3422 174 0.1192 0.1687 REMARK 3 21 1.4881 - 1.4641 1.00 3393 194 0.1248 0.1522 REMARK 3 22 1.4641 - 1.4416 1.00 3440 158 0.1270 0.1535 REMARK 3 23 1.4416 - 1.4204 1.00 3368 188 0.1286 0.1559 REMARK 3 24 1.4204 - 1.4003 1.00 3412 193 0.1500 0.1853 REMARK 3 25 1.4003 - 1.3814 1.00 3396 158 0.1571 0.2126 REMARK 3 26 1.3814 - 1.3635 1.00 3396 188 0.1650 0.1920 REMARK 3 27 1.3635 - 1.3464 1.00 3396 191 0.1658 0.1936 REMARK 3 28 1.3464 - 1.3302 1.00 3407 192 0.1709 0.1871 REMARK 3 29 1.3302 - 1.3147 1.00 3373 170 0.1843 0.2337 REMARK 3 30 1.3147 - 1.3000 1.00 3385 185 0.1984 0.2138 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) : 0.100 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 12.610 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.35 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 6T5Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1292104897. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-OCT-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97624 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 109248 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 68.880 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 75.60 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 73.20 REMARK 200 R MERGE FOR SHELL (I) : 3.11000 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 2.8.1 REMARK 200 STARTING MODEL: 1IEM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% W/V PEG6000, 0.01 ZNCL2, 0.1 M MES REMARK 280 PH=6.0, PH 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 3 2 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 Y+1/4,X+3/4,-Z+3/4 REMARK 290 14555 -Y+1/4,-X+1/4,-Z+1/4 REMARK 290 15555 Y+3/4,-X+3/4,Z+1/4 REMARK 290 16555 -Y+3/4,X+1/4,Z+3/4 REMARK 290 17555 X+1/4,Z+3/4,-Y+3/4 REMARK 290 18555 -X+3/4,Z+1/4,Y+3/4 REMARK 290 19555 -X+1/4,-Z+1/4,-Y+1/4 REMARK 290 20555 X+3/4,-Z+3/4,Y+1/4 REMARK 290 21555 Z+1/4,Y+3/4,-X+3/4 REMARK 290 22555 Z+3/4,-Y+3/4,X+1/4 REMARK 290 23555 -Z+3/4,Y+1/4,X+3/4 REMARK 290 24555 -Z+1/4,-Y+1/4,-X+1/4 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 68.88000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.88000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 68.88000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.88000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 68.88000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 68.88000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 68.88000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 68.88000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 68.88000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 68.88000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 68.88000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 68.88000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 68.88000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 68.88000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 68.88000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 68.88000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 68.88000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 68.88000 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 34.44000 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 103.32000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 103.32000 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 34.44000 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 34.44000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 34.44000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 103.32000 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 103.32000 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 34.44000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 103.32000 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 34.44000 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 103.32000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 34.44000 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 103.32000 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 103.32000 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 103.32000 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 34.44000 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 103.32000 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 34.44000 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 34.44000 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 34.44000 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 103.32000 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 103.32000 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 34.44000 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 34.44000 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 103.32000 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 103.32000 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 103.32000 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 103.32000 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 34.44000 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 103.32000 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 34.44000 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 103.32000 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 34.44000 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 34.44000 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 34.44000 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: 470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 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 ZN ZN A 603 LIES ON A SPECIAL POSITION. REMARK 375 CL CL A 604 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1038 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1054 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1070 LIES ON A SPECIAL POSITION. 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 GLN A 6 CD OE1 NE2 REMARK 470 GLN A 7 CD OE1 NE2 REMARK 470 LYS A 51 CD CE NZ REMARK 470 GLN A 57 CD OE1 NE2 REMARK 470 LYS A 99 CG CD CE NZ REMARK 470 ASN A 102 CG OD1 ND2 REMARK 470 GLU A 124 CG CD OE1 OE2 REMARK 470 LYS A 126 CG CD CE NZ REMARK 470 ARG A 133 CD NE CZ NH1 NH2 REMARK 470 GLN A 139 CD OE1 NE2 REMARK 470 LYS A 164 CD CE NZ REMARK 470 GLN A 172 CD OE1 NE2 REMARK 470 LYS A 183 CE NZ REMARK 470 LYS A 197 CE NZ REMARK 470 ARG A 204 NE CZ NH1 NH2 REMARK 470 GLU A 205 CD OE1 OE2 REMARK 470 LYS A 207 CD CE NZ REMARK 470 SER A 212 OG REMARK 470 LYS A 246 NZ REMARK 470 LYS A 290 CG CD CE NZ REMARK 470 LYS A 299 CD CE NZ REMARK 470 LYS A 332 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 O HOH A 1035 O HOH A 1049 2.06 REMARK 500 O HOH A 922 O HOH A 998 2.09 REMARK 500 NH2 ARG A 309 O HOH A 701 2.15 REMARK 500 O HOH A 783 O HOH A 829 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 981 O HOH A 988 15445 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 VAL A 178 -60.05 -122.87 REMARK 500 TYR A 221 13.34 -156.23 REMARK 500 ASN A 341 39.39 -99.22 REMARK 500 ASN A 341 41.13 -99.22 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 A1101 DISTANCE = 5.96 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 603 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 13 NE2 REMARK 620 2 HIS A 13 NE2 0.0 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue C8V A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 604 DBREF 6T5Y A 4 361 UNP P00811 AMPC_ECOLI 20 377 SEQRES 1 A 358 ALA PRO GLN GLN ILE ASN ASP ILE VAL HIS ARG THR ILE SEQRES 2 A 358 THR PRO LEU ILE GLU GLN GLN LYS ILE PRO GLY MET ALA SEQRES 3 A 358 VAL ALA VAL ILE TYR GLN GLY LYS PRO TYR TYR PHE THR SEQRES 4 A 358 TRP GLY TYR ALA ASP ILE ALA LYS LYS GLN PRO VAL THR SEQRES 5 A 358 GLN GLN THR LEU PHE GLU LEU GLY SER VAL SER LYS THR SEQRES 6 A 358 PHE THR GLY VAL LEU GLY GLY ASP ALA ILE ALA ARG GLY SEQRES 7 A 358 GLU ILE LYS LEU SER ASP PRO THR THR LYS TYR TRP PRO SEQRES 8 A 358 GLU LEU THR ALA LYS GLN TRP ASN GLY ILE THR LEU LEU SEQRES 9 A 358 HIS LEU ALA THR TYR THR ALA GLY GLY LEU PRO LEU GLN SEQRES 10 A 358 VAL PRO ASP GLU VAL LYS SER SER SER ASP LEU LEU ARG SEQRES 11 A 358 PHE TYR GLN ASN TRP GLN PRO ALA TRP ALA PRO GLY THR SEQRES 12 A 358 GLN ARG LEU TYR ALA ASN SER SER ILE GLY LEU PHE GLY SEQRES 13 A 358 ALA LEU ALA VAL LYS PRO SER GLY LEU SER PHE GLU GLN SEQRES 14 A 358 ALA MET GLN THR ARG VAL PHE GLN PRO LEU LYS LEU ASN SEQRES 15 A 358 HIS THR TRP ILE ASN VAL PRO PRO ALA GLU GLU LYS ASN SEQRES 16 A 358 TYR ALA TRP GLY TYR ARG GLU GLY LYS ALA VAL HIS VAL SEQRES 17 A 358 SER PRO GLY ALA LEU ASP ALA GLU ALA TYR GLY VAL LYS SEQRES 18 A 358 SER THR ILE GLU ASP MET ALA ARG TRP VAL GLN SER ASN SEQRES 19 A 358 LEU LYS PRO LEU ASP ILE ASN GLU LYS THR LEU GLN GLN SEQRES 20 A 358 GLY ILE GLN LEU ALA GLN SER ARG TYR TRP GLN THR GLY SEQRES 21 A 358 ASP MET TYR GLN GLY LEU GLY TRP GLU MET LEU ASP TRP SEQRES 22 A 358 PRO VAL ASN PRO ASP SER ILE ILE ASN GLY SER ASP ASN SEQRES 23 A 358 LYS ILE ALA LEU ALA ALA ARG PRO VAL LYS ALA ILE THR SEQRES 24 A 358 PRO PRO THR PRO ALA VAL ARG ALA SER TRP VAL HIS LYS SEQRES 25 A 358 THR GLY ALA THR GLY GLY PHE GLY SER TYR VAL ALA PHE SEQRES 26 A 358 ILE PRO GLU LYS GLU LEU GLY ILE VAL MET LEU ALA ASN SEQRES 27 A 358 LYS ASN TYR PRO ASN PRO ALA ARG VAL ASP ALA ALA TRP SEQRES 28 A 358 GLN ILE LEU ASN ALA LEU GLN HET PEG A 601 14 HET C8V A 602 52 HET ZN A 603 1 HET CL A 604 1 HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM C8V (2S,5R)-1-FORMYL-N'-[(3R)-PIPERIDINE-3-CARBONYL]-5- HETNAM 2 C8V [(SULFOOXY)AMINO]PIPERIDINE-2-CARBOHYDRAZIDE HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETSYN C8V OPEN FORM - ZIDEBACTAM FORMUL 2 PEG C4 H10 O3 FORMUL 3 C8V C13 H23 N5 O7 S FORMUL 4 ZN ZN 2+ FORMUL 5 CL CL 1- FORMUL 6 HOH *401(H2 O) HELIX 1 AA1 PRO A 5 LYS A 24 1 20 HELIX 2 AA2 VAL A 65 ARG A 80 1 16 HELIX 3 AA3 PRO A 88 TRP A 93 1 6 HELIX 4 AA4 ALA A 98 ASN A 102 5 5 HELIX 5 AA5 THR A 105 THR A 111 1 7 HELIX 6 AA6 SER A 127 TRP A 138 1 12 HELIX 7 AA7 ALA A 151 VAL A 163 1 13 HELIX 8 AA8 LYS A 164 GLY A 167 5 4 HELIX 9 AA9 SER A 169 VAL A 178 1 10 HELIX 10 AB1 PRO A 192 TYR A 199 5 8 HELIX 11 AB2 LEU A 216 TYR A 221 1 6 HELIX 12 AB3 THR A 226 LYS A 239 1 14 HELIX 13 AB4 PRO A 240 ILE A 243 5 4 HELIX 14 AB5 GLU A 245 GLN A 256 1 12 HELIX 15 AB6 ASN A 279 SER A 287 1 9 HELIX 16 AB7 ASP A 288 LEU A 293 1 6 HELIX 17 AB8 PRO A 330 GLU A 333 5 4 HELIX 18 AB9 PRO A 345 GLN A 361 1 17 SHEET 1 AA110 GLN A 52 PRO A 53 0 SHEET 2 AA110 LYS A 37 ASP A 47 -1 N ALA A 46 O GLN A 52 SHEET 3 AA110 GLY A 27 TYR A 34 -1 N VAL A 30 O PHE A 41 SHEET 4 AA110 LEU A 334 ALA A 340 -1 O LEU A 339 N ALA A 29 SHEET 5 AA110 PHE A 322 ILE A 329 -1 N ILE A 329 O LEU A 334 SHEET 6 AA110 SER A 311 THR A 319 -1 N GLY A 317 O SER A 324 SHEET 7 AA110 GLU A 272 ASP A 275 -1 N GLU A 272 O HIS A 314 SHEET 8 AA110 MET A 265 GLN A 267 -1 N TYR A 266 O MET A 273 SHEET 9 AA110 ARG A 258 THR A 262 -1 N THR A 262 O MET A 265 SHEET 10 AA110 LYS A 299 THR A 305 -1 O LYS A 299 N GLN A 261 SHEET 1 AA2 3 PHE A 60 GLU A 61 0 SHEET 2 AA2 3 LYS A 224 SER A 225 -1 O SER A 225 N PHE A 60 SHEET 3 AA2 3 THR A 187 TRP A 188 -1 N TRP A 188 O LYS A 224 SHEET 1 AA3 2 GLN A 147 ARG A 148 0 SHEET 2 AA3 2 ARG A 296 PRO A 297 -1 O ARG A 296 N ARG A 148 SHEET 1 AA4 2 GLY A 202 ARG A 204 0 SHEET 2 AA4 2 LYS A 207 VAL A 209 -1 O VAL A 209 N GLY A 202 LINK OG ASER A 64 CAGAC8V A 602 1555 1555 1.37 LINK OG BSER A 64 CAGBC8V A 602 1555 1555 1.38 LINK NE2 HIS A 13 ZN ZN A 603 1555 1555 2.03 LINK NE2 HIS A 13 ZN ZN A 603 1555 5555 2.03 CISPEP 1 TRP A 276 PRO A 277 0 3.24 CISPEP 2 THR A 302 PRO A 303 0 -5.37 SITE 1 AC1 3 TRP A 93 LEU A 131 HOH A 846 SITE 1 AC2 16 GLY A 63 SER A 64 GLN A 120 TYR A 150 SITE 2 AC2 16 ASN A 152 TYR A 221 ASN A 289 LYS A 315 SITE 3 AC2 16 THR A 316 GLY A 317 ALA A 318 ASN A 346 SITE 4 AC2 16 HOH A 722 HOH A 738 HOH A 741 HOH A 826 SITE 1 AC3 2 HIS A 13 CL A 604 SITE 1 AC4 3 HIS A 13 ZN A 603 HOH A1070 CRYST1 137.760 137.760 137.760 90.00 90.00 90.00 P 43 3 2 24 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 0.007259 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007259 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007259 0.00000