HEADER PROTEIN BINDING/ANTIBIOTIC 25-SEP-18 6MKH TITLE CRYSTAL STRUCTURE OF PENCILLIN BINDING PROTEIN 4 (PBP4) FROM TITLE 2 ENTEROCOCCUS FAECALIS IN THE IMIPENEM-BOUND FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PENCILLIN BINDING PROTEIN 4 (PBP4); COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PENICILLIN-BINDING PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROCOCCUS FAECALIS; SOURCE 3 ORGANISM_TAXID: 1351; SOURCE 4 GENE: PBP4, A6B47_10405, DAI13_12160; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS PBP, ANTIBIOTIC, INHIBITOR, IMIPENEM, PENICILLIN-BINDING PROTEIN, KEYWDS 2 PROTEIN BINDING-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.D.D'ANDREA,T.M.MOON,W.PETI,R.PAGE REVDAT 5 03-APR-24 6MKH 1 COMPND HETNAM REVDAT 4 18-DEC-19 6MKH 1 REMARK REVDAT 3 19-DEC-18 6MKH 1 JRNL REVDAT 2 07-NOV-18 6MKH 1 JRNL REVDAT 1 31-OCT-18 6MKH 0 JRNL AUTH T.M.MOON,E.D.D'ANDREA,C.W.LEE,A.SOARES,J.JAKONCIC, JRNL AUTH 2 C.DESBONNET,M.GARCIA-SOLACHE,L.B.RICE,R.PAGE,W.PETI JRNL TITL THE STRUCTURES OF PENICILLIN-BINDING PROTEIN 4 (PBP4) AND JRNL TITL 2 PBP5 FROMENTEROCOCCIPROVIDE STRUCTURAL INSIGHTS INTO JRNL TITL 3 BETA-LACTAM RESISTANCE. JRNL REF J. BIOL. CHEM. V. 293 18574 2018 JRNL REFN ESSN 1083-351X JRNL PMID 30355734 JRNL DOI 10.1074/JBC.RA118.006052 REMARK 2 REMARK 2 RESOLUTION. 2.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.13_2998: ???) 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) : 2.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 23930 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1244 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 37.8985 - 5.4441 0.98 2658 140 0.2300 0.2268 REMARK 3 2 5.4441 - 4.3231 0.99 2627 128 0.1756 0.2066 REMARK 3 3 4.3231 - 3.7772 0.97 2571 134 0.1665 0.2112 REMARK 3 4 3.7772 - 3.4321 0.99 2568 150 0.1842 0.2559 REMARK 3 5 3.4321 - 3.1862 0.98 2592 138 0.2036 0.2631 REMARK 3 6 3.1862 - 2.9985 0.98 2544 148 0.2010 0.2528 REMARK 3 7 2.9985 - 2.8484 0.99 2592 135 0.2103 0.2818 REMARK 3 8 2.8484 - 2.7244 0.99 2556 169 0.2074 0.2336 REMARK 3 9 2.7244 - 2.6196 0.75 1978 102 0.2411 0.2997 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.35 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 : 0.003 3383 REMARK 3 ANGLE : 0.569 4583 REMARK 3 CHIRALITY : 0.044 523 REMARK 3 PLANARITY : 0.004 602 REMARK 3 DIHEDRAL : 12.919 2027 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 6MKH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-SEP-18. REMARK 100 THE DEPOSITION ID IS D_1000236126. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-OCT-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 3.25 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97946 REMARK 200 MONOCHROMATOR : LIQUID NITROGEN-COOLED DOUBLE REMARK 200 CRYSTAL SI(111) REMARK 200 OPTICS : FLAT SI RH COATED M0, REMARK 200 KIRKPATRICK-BAEZ FLAT BENT SI M1 REMARK 200 & M2 REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77350 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.620 REMARK 200 RESOLUTION RANGE LOW (A) : 37.895 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.21100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PBP4 APO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.04M KH2PO4, 16% PEG 8000, 20% REMARK 280 GLYCEROL, PH 3.25, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 61.92100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.70050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 61.92100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 42.70050 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 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 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 A 33 REMARK 465 HIS A 34 REMARK 465 MET A 35 REMARK 465 SER A 36 REMARK 465 GLN A 37 REMARK 465 TRP A 38 REMARK 465 GLN A 39 REMARK 465 ALA A 40 REMARK 465 LYS A 41 REMARK 465 GLN A 42 REMARK 465 GLU A 43 REMARK 465 LEU A 44 REMARK 465 ALA A 45 REMARK 465 GLU A 46 REMARK 465 ALA A 47 REMARK 465 LYS A 48 REMARK 465 LYS A 49 REMARK 465 THR A 50 REMARK 465 ALA A 51 REMARK 465 THR A 52 REMARK 465 THR A 53 REMARK 465 PHE A 54 REMARK 465 LEU A 55 REMARK 465 ASN A 56 REMARK 465 VAL A 57 REMARK 465 LEU A 58 REMARK 465 SER A 59 REMARK 465 LYS A 60 REMARK 465 GLN A 61 REMARK 465 GLU A 62 REMARK 465 PHE A 63 REMARK 465 ASP A 64 REMARK 465 LYS A 65 REMARK 465 LEU A 66 REMARK 465 PRO A 67 REMARK 465 SER A 68 REMARK 465 VAL A 69 REMARK 465 VAL A 70 REMARK 465 GLN A 71 REMARK 465 GLU A 72 REMARK 465 ALA A 73 REMARK 465 SER A 74 REMARK 465 LEU A 75 REMARK 465 LYS A 76 REMARK 465 LYS A 77 REMARK 465 ASN A 78 REMARK 465 GLY A 79 REMARK 465 TYR A 80 REMARK 465 ASP A 81 REMARK 465 THR A 82 REMARK 465 LYS A 83 REMARK 465 SER A 84 REMARK 465 VAL A 85 REMARK 465 VAL A 86 REMARK 465 GLU A 87 REMARK 465 LYS A 88 REMARK 465 TYR A 89 REMARK 465 GLN A 90 REMARK 465 ALA A 91 REMARK 465 ILE A 92 REMARK 465 TYR A 93 REMARK 465 SER A 94 REMARK 465 GLY A 95 REMARK 465 ILE A 96 REMARK 465 GLN A 97 REMARK 465 ALA A 98 REMARK 465 GLU A 99 REMARK 465 GLY A 100 REMARK 465 VAL A 101 REMARK 465 LYS A 102 REMARK 465 ALA A 103 REMARK 465 SER A 104 REMARK 465 ASP A 105 REMARK 465 VAL A 106 REMARK 465 GLN A 107 REMARK 465 VAL A 108 REMARK 465 LYS A 109 REMARK 465 LYS A 110 REMARK 465 ALA A 111 REMARK 465 LYS A 112 REMARK 465 ASP A 113 REMARK 465 ASN A 114 REMARK 465 GLN A 115 REMARK 465 TYR A 116 REMARK 465 THR A 117 REMARK 465 PHE A 118 REMARK 465 THR A 119 REMARK 465 TYR A 120 REMARK 465 LYS A 121 REMARK 465 LEU A 122 REMARK 465 SER A 123 REMARK 465 MET A 124 REMARK 465 SER A 125 REMARK 465 THR A 126 REMARK 465 PRO A 127 REMARK 465 LEU A 128 REMARK 465 GLY A 129 REMARK 465 GLU A 130 REMARK 465 MET A 131 REMARK 465 LYS A 132 REMARK 465 ASP A 133 REMARK 465 LEU A 134 REMARK 465 SER A 135 REMARK 465 TYR A 136 REMARK 465 GLN A 137 REMARK 465 SER A 138 REMARK 465 SER A 139 REMARK 465 ILE A 140 REMARK 465 ALA A 141 REMARK 465 LYS A 142 REMARK 465 LYS A 143 REMARK 465 GLY A 144 REMARK 465 ASP A 145 REMARK 465 THR A 146 REMARK 465 TYR A 147 REMARK 465 GLN A 148 REMARK 465 ILE A 149 REMARK 465 ALA A 150 REMARK 465 TRP A 151 REMARK 465 LYS A 152 REMARK 465 PRO A 153 REMARK 465 SER A 154 REMARK 465 LEU A 155 REMARK 465 ILE A 156 REMARK 465 PHE A 157 REMARK 465 PRO A 158 REMARK 465 ASP A 159 REMARK 465 MET A 160 REMARK 465 SER A 161 REMARK 465 GLY A 162 REMARK 465 ASN A 163 REMARK 465 ASP A 164 REMARK 465 LYS A 165 REMARK 465 ILE A 166 REMARK 465 SER A 167 REMARK 465 ILE A 168 REMARK 465 GLN A 169 REMARK 465 VAL A 170 REMARK 465 ASP A 171 REMARK 465 VAL A 195 REMARK 465 PRO A 199 REMARK 465 GLY A 200 REMARK 465 LYS A 201 REMARK 465 LEU A 202 REMARK 465 GLY A 203 REMARK 465 SER A 204 REMARK 465 GLY A 205 REMARK 465 ALA A 206 REMARK 465 GLU A 207 REMARK 465 LYS A 208 REMARK 465 THR A 209 REMARK 465 GLY A 220 REMARK 465 VAL A 221 REMARK 465 SER A 222 REMARK 465 VAL A 223 REMARK 465 ASP A 224 REMARK 465 GLU A 225 REMARK 465 ILE A 226 REMARK 465 ASN A 227 REMARK 465 GLN A 228 REMARK 465 LYS A 229 REMARK 465 LEU A 230 REMARK 465 SER A 231 REMARK 465 GLN A 232 REMARK 465 GLY A 233 REMARK 465 TRP A 234 REMARK 465 VAL A 235 REMARK 465 GLN A 236 REMARK 465 ALA A 237 REMARK 465 ASP A 238 REMARK 465 SER A 239 REMARK 465 SER A 247 REMARK 465 GLU A 248 REMARK 465 PRO A 249 REMARK 465 VAL A 250 REMARK 465 THR A 251 REMARK 465 GLY A 318 REMARK 465 GLY A 319 REMARK 465 SER A 320 REMARK 465 LEU A 321 REMARK 465 VAL A 322 REMARK 465 ILE A 323 REMARK 465 LEU A 324 REMARK 465 ASP A 325 REMARK 465 ASP A 326 REMARK 465 LYS A 327 REMARK 465 GLU A 328 REMARK 465 ASN A 329 REMARK 465 VAL A 330 REMARK 465 LYS A 331 REMARK 465 LYS A 332 REMARK 465 ALA A 333 REMARK 465 LEU A 334 REMARK 465 GLN A 335 REMARK 465 THR A 336 REMARK 465 LYS A 337 REMARK 465 GLU A 338 REMARK 465 ASP A 627 REMARK 465 LYS A 628 REMARK 465 GLN A 629 REMARK 465 ASP A 630 REMARK 465 THR A 631 REMARK 465 ASP A 632 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 ASN A 172 CG OD1 ND2 REMARK 470 LYS A 174 CG CD CE NZ REMARK 470 VAL A 197 CG1 CG2 REMARK 470 VAL A 198 CG1 CG2 REMARK 470 LYS A 213 CG CD CE NZ REMARK 470 ASP A 217 CG OD1 OD2 REMARK 470 LYS A 218 CE NZ REMARK 470 VAL A 241 CG1 CG2 REMARK 470 VAL A 245 CG1 CG2 REMARK 470 GLU A 252 CG CD OE1 OE2 REMARK 470 LEU A 253 CG CD1 CD2 REMARK 470 THR A 255 OG1 CG2 REMARK 470 LYS A 260 CG CD CE NZ REMARK 470 GLU A 286 CG CD OE1 OE2 REMARK 470 ASP A 287 CG OD1 OD2 REMARK 470 ILE A 288 CG1 CG2 CD1 REMARK 470 GLU A 289 CG CD OE1 OE2 REMARK 470 LYS A 290 CD CE NZ REMARK 470 ASN A 291 CG OD1 ND2 REMARK 470 PRO A 292 CG CD REMARK 470 GLU A 293 CG CD OE1 OE2 REMARK 470 LEU A 294 CG CD1 CD2 REMARK 470 SER A 295 OG REMARK 470 SER A 296 OG REMARK 470 THR A 297 OG1 CG2 REMARK 470 GLN A 316 CG CD OE1 NE2 REMARK 470 ASP A 317 CG OD1 OD2 REMARK 470 LYS A 339 CG CD CE NZ REMARK 470 LYS A 340 CG CD CE NZ REMARK 470 GLN A 398 CG CD OE1 NE2 REMARK 470 LYS A 399 CG CD CE NZ REMARK 470 LYS A 408 CG CD CE NZ REMARK 470 LYS A 626 CG CD CE NZ REMARK 470 LYS A 634 CG CD 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 OG SER A 424 O7 IM2 A 701 1.93 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 OE2 GLU A 510 OE2 GLU A 510 2655 2.03 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 ILE A 243 -67.21 -127.27 REMARK 500 LYS A 290 -17.95 -157.70 REMARK 500 ASN A 291 -144.61 -148.33 REMARK 500 GLU A 293 84.10 56.02 REMARK 500 LYS A 363 -5.56 70.64 REMARK 500 LEU A 410 81.88 55.26 REMARK 500 ASP A 456 -163.96 -166.48 REMARK 500 ASN A 474 -167.95 -105.76 REMARK 500 SER A 482 71.35 53.29 REMARK 500 PRO A 515 23.44 -77.72 REMARK 500 SER A 531 120.24 -175.13 REMARK 500 GLN A 542 -138.67 -104.78 REMARK 500 LYS A 619 114.66 -161.31 REMARK 500 THR A 678 -73.16 -75.64 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 A 881 DISTANCE = 8.07 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IM2 A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 703 DBREF 6MKH A 36 680 UNP Q9K3C9 Q9K3C9_ENTFL 36 680 SEQADV 6MKH GLY A 33 UNP Q9K3C9 EXPRESSION TAG SEQADV 6MKH HIS A 34 UNP Q9K3C9 EXPRESSION TAG SEQADV 6MKH MET A 35 UNP Q9K3C9 EXPRESSION TAG SEQRES 1 A 648 GLY HIS MET SER GLN TRP GLN ALA LYS GLN GLU LEU ALA SEQRES 2 A 648 GLU ALA LYS LYS THR ALA THR THR PHE LEU ASN VAL LEU SEQRES 3 A 648 SER LYS GLN GLU PHE ASP LYS LEU PRO SER VAL VAL GLN SEQRES 4 A 648 GLU ALA SER LEU LYS LYS ASN GLY TYR ASP THR LYS SER SEQRES 5 A 648 VAL VAL GLU LYS TYR GLN ALA ILE TYR SER GLY ILE GLN SEQRES 6 A 648 ALA GLU GLY VAL LYS ALA SER ASP VAL GLN VAL LYS LYS SEQRES 7 A 648 ALA LYS ASP ASN GLN TYR THR PHE THR TYR LYS LEU SER SEQRES 8 A 648 MET SER THR PRO LEU GLY GLU MET LYS ASP LEU SER TYR SEQRES 9 A 648 GLN SER SER ILE ALA LYS LYS GLY ASP THR TYR GLN ILE SEQRES 10 A 648 ALA TRP LYS PRO SER LEU ILE PHE PRO ASP MET SER GLY SEQRES 11 A 648 ASN ASP LYS ILE SER ILE GLN VAL ASP ASN ALA LYS ARG SEQRES 12 A 648 GLY GLU ILE VAL ASP ARG ASN GLY SER GLY LEU ALA ILE SEQRES 13 A 648 ASN LYS VAL PHE ASP GLU VAL GLY VAL VAL PRO GLY LYS SEQRES 14 A 648 LEU GLY SER GLY ALA GLU LYS THR ALA ASN ILE LYS ALA SEQRES 15 A 648 PHE SER ASP LYS PHE GLY VAL SER VAL ASP GLU ILE ASN SEQRES 16 A 648 GLN LYS LEU SER GLN GLY TRP VAL GLN ALA ASP SER PHE SEQRES 17 A 648 VAL PRO ILE THR VAL ALA SER GLU PRO VAL THR GLU LEU SEQRES 18 A 648 PRO THR GLY ALA ALA THR LYS ASP THR GLU SER ARG TYR SEQRES 19 A 648 TYR PRO LEU GLY GLU ALA ALA ALA GLN LEU ILE GLY TYR SEQRES 20 A 648 THR GLY THR ILE THR ALA GLU ASP ILE GLU LYS ASN PRO SEQRES 21 A 648 GLU LEU SER SER THR GLY VAL ILE GLY LYS THR GLY LEU SEQRES 22 A 648 GLU ARG ALA PHE ASP LYS GLU LEU ARG GLY GLN ASP GLY SEQRES 23 A 648 GLY SER LEU VAL ILE LEU ASP ASP LYS GLU ASN VAL LYS SEQRES 24 A 648 LYS ALA LEU GLN THR LYS GLU LYS LYS ASP GLY GLN THR SEQRES 25 A 648 ILE LYS LEU THR ILE ASP SER GLY VAL GLN GLN GLN ALA SEQRES 26 A 648 PHE ALA ILE PHE ASP LYS ARG PRO GLY SER ALA VAL ILE SEQRES 27 A 648 THR ASP PRO GLN LYS GLY ASP LEU LEU ALA THR VAL SER SEQRES 28 A 648 SER PRO SER TYR ASP PRO ASN LYS MET ALA ASN GLY ILE SEQRES 29 A 648 SER GLN LYS GLU TYR ASP ALA TYR ASN ASN ASN LYS ASP SEQRES 30 A 648 LEU PRO PHE THR ALA ARG PHE ALA THR GLY TYR ALA PRO SEQRES 31 A 648 GLY SER THR PHE LYS THR ILE THR GLY ALA ILE GLY LEU SEQRES 32 A 648 ASP ALA GLY THR LEU LYS PRO ASP GLU GLU LEU GLU ILE SEQRES 33 A 648 ASN GLY LEU LYS TRP GLN LYS ASP LYS SER TRP GLY GLY SEQRES 34 A 648 TYR PHE ALA THR ARG VAL LYS GLU ALA SER PRO VAL ASN SEQRES 35 A 648 LEU ARG THR ALA LEU VAL ASN SER ASP ASN ILE TYR PHE SEQRES 36 A 648 ALA GLN GLN THR LEU ARG MET GLY GLU ASP LYS PHE ARG SEQRES 37 A 648 ALA GLY LEU ASN LYS PHE ILE PHE GLY GLU GLU LEU ASP SEQRES 38 A 648 LEU PRO ILE ALA MET THR PRO ALA GLN ILE SER ASN GLU SEQRES 39 A 648 ASP LYS PHE ASN SER GLU ILE LEU LEU ALA ASP THR GLY SEQRES 40 A 648 TYR GLY GLN GLY GLN LEU LEU ILE SER PRO ILE GLN GLN SEQRES 41 A 648 ALA THR MET TYR SER VAL PHE GLN ASN ASN GLY THR LEU SEQRES 42 A 648 VAL TYR PRO LYS LEU VAL LEU ASP LYS GLU THR LYS LYS SEQRES 43 A 648 LYS ASP ASN VAL ILE SER ALA ASN ALA ALA ASN THR ILE SEQRES 44 A 648 ALA THR ASP LEU LEU GLY SER VAL GLU ASP PRO SER GLY SEQRES 45 A 648 TYR VAL TYR ASN MET TYR ASN PRO ASN PHE SER LEU ALA SEQRES 46 A 648 ALA LYS THR GLY THR ALA GLU ILE LYS ASP LYS GLN ASP SEQRES 47 A 648 THR ASP GLY LYS GLU ASN SER PHE LEU LEU THR LEU ASP SEQRES 48 A 648 ARG SER ASN ASN LYS PHE LEU THR MET ILE MET VAL GLU SEQRES 49 A 648 ASN SER GLY GLU ASN GLY SER ALA THR ASP ILE SER LYS SEQRES 50 A 648 PRO LEU ILE ASP TYR LEU GLU ALA THR ILE LYS HET IM2 A 701 20 HET PO4 A 702 5 HET PO4 A 703 5 HETNAM IM2 (5R)-5-[(1S,2R)-1-FORMYL-2-HYDROXYPROPYL]-3-[(2-{[(E)- HETNAM 2 IM2 IMINOMETHYL]AMINO}ETHYL)SULFANYL]-4,5-DIHYDRO-1H- HETNAM 3 IM2 PYRROLE-2-CARBOX YLIC ACID HETNAM PO4 PHOSPHATE ION HETSYN IM2 IMIPENEM, OPEN FORM; N-FORMIMIDOYL-THIENAMYCINE, OPEN HETSYN 2 IM2 FORM FORMUL 2 IM2 C12 H19 N3 O4 S FORMUL 3 PO4 2(O4 P 3-) FORMUL 5 HOH *81(H2 O) HELIX 1 AA1 ASN A 211 ASP A 217 1 7 HELIX 2 AA2 LEU A 269 ALA A 272 5 4 HELIX 3 AA3 ALA A 273 GLY A 278 1 6 HELIX 4 AA4 THR A 284 GLU A 289 1 6 HELIX 5 AA5 THR A 303 PHE A 309 1 7 HELIX 6 AA6 PHE A 309 GLY A 315 1 7 HELIX 7 AA7 ASP A 350 ILE A 360 1 11 HELIX 8 AA8 ASP A 388 GLY A 395 1 8 HELIX 9 AA9 SER A 397 ASN A 406 1 10 HELIX 10 AB1 ALA A 414 THR A 418 5 5 HELIX 11 AB2 GLY A 423 THR A 425 5 3 HELIX 12 AB3 PHE A 426 GLY A 438 1 13 HELIX 13 AB4 ASP A 456 GLY A 460 5 5 HELIX 14 AB5 ASN A 474 SER A 482 1 9 HELIX 15 AB6 ASP A 483 LYS A 505 1 23 HELIX 16 AB7 SER A 531 TYR A 540 1 10 HELIX 17 AB8 SER A 548 SER A 557 1 10 HELIX 18 AB9 VAL A 558 ASN A 561 5 4 HELIX 19 AC1 SER A 584 LEU A 595 1 12 HELIX 20 AC2 LEU A 596 ASP A 601 1 6 HELIX 21 AC3 VAL A 606 TYR A 610 5 5 HELIX 22 AC4 ASN A 657 GLY A 662 1 6 HELIX 23 AC5 SER A 663 SER A 668 1 6 HELIX 24 AC6 SER A 668 THR A 678 1 11 SHEET 1 AA1 4 ALA A 257 TYR A 266 0 SHEET 2 AA1 4 GLY A 185 GLU A 194 -1 N ILE A 188 O TYR A 266 SHEET 3 AA1 4 ILE A 178 VAL A 179 -1 N ILE A 178 O LEU A 186 SHEET 4 AA1 4 ILE A 345 LYS A 346 1 O ILE A 345 N VAL A 179 SHEET 1 AA2 2 THR A 280 THR A 282 0 SHEET 2 AA2 2 VAL A 299 GLY A 301 -1 O ILE A 300 N GLY A 281 SHEET 1 AA3 5 LEU A 378 SER A 384 0 SHEET 2 AA3 5 GLY A 366 THR A 371 -1 N GLY A 366 O SER A 384 SHEET 3 AA3 5 LEU A 650 VAL A 655 -1 O MET A 654 N SER A 367 SHEET 4 AA3 5 LYS A 634 ASP A 643 -1 N SER A 637 O VAL A 655 SHEET 5 AA3 5 LEU A 616 ILE A 625 -1 N ALA A 617 O LEU A 642 SHEET 1 AA4 2 LYS A 452 TRP A 453 0 SHEET 2 AA4 2 ALA A 464 THR A 465 -1 O ALA A 464 N TRP A 453 SHEET 1 AA5 2 LEU A 565 VAL A 566 0 SHEET 2 AA5 2 LYS A 578 LYS A 579 -1 O LYS A 579 N LEU A 565 LINK OG SER A 424 C7 IM2 A 701 1555 1555 1.37 CISPEP 1 SER A 384 PRO A 385 0 -1.22 CISPEP 2 SER A 471 PRO A 472 0 -1.50 SITE 1 AC1 9 SER A 424 LYS A 427 SER A 482 ASN A 484 SITE 2 AC1 9 GLN A 542 GLY A 621 THR A 622 HOH A 801 SITE 3 AC1 9 HOH A 806 SITE 1 AC2 2 PRO A 515 GLU A 575 SITE 1 AC3 4 ASN A 562 ASN A 589 ARG A 644 ASN A 647 CRYST1 123.842 85.401 84.572 90.00 110.30 90.00 C 1 2 1 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 0.008075 0.000000 0.002986 0.00000 SCALE2 0.000000 0.011709 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012607 0.00000