HEADER HYDROLASE/ANTIBIOTIC 11-APR-18 6G9S TITLE STRUCTURAL BASIS FOR THE INHIBITION OF E. COLI PBP2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDOGLYCAN D,D-TRANSPEPTIDASE MRDA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PENICILLIN-BINDING PROTEIN 2,PBP-2; COMPND 5 EC: 3.4.16.4; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: SERINE 330 COVALENTLY MODIFIED WITH LIGAND SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: MRDA, PBPA, B0635, JW0630; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS PENICILLIN BINDING PROTEIN, HYDROLASE-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.RUFF,N.LEVY REVDAT 4 16-OCT-24 6G9S 1 REMARK REVDAT 3 17-JAN-24 6G9S 1 REMARK REVDAT 2 05-FEB-20 6G9S 1 SOURCE REVDAT 1 22-MAY-19 6G9S 0 JRNL AUTH N.LEVY,J.M.BRUNEAU,E.LE ROUZIC,D.BONNARD,F.LE STRAT, JRNL AUTH 2 A.CARAVANO,F.CHEVREUIL,J.BARBION,S.CHASSET,B.LEDOUSSAL, JRNL AUTH 3 F.MOREAU,M.RUFF JRNL TITL STRUCTURAL BASIS FOR E. COLI PENICILLIN BINDING PROTEIN JRNL TITL 2 (PBP) 2 INHIBITION, A PLATFORM FOR DRUG DESIGN. JRNL REF J.MED.CHEM. V. 62 4742 2019 JRNL REFN ISSN 0022-2623 JRNL PMID 30995398 JRNL DOI 10.1021/ACS.JMEDCHEM.9B00338 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 55067 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.380 REMARK 3 FREE R VALUE TEST SET COUNT : 1860 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 44.4159 - 4.7031 1.00 4627 163 0.1522 0.1616 REMARK 3 2 4.7031 - 3.7336 0.99 4438 155 0.1409 0.2146 REMARK 3 3 3.7336 - 3.2618 0.99 4401 156 0.1826 0.2226 REMARK 3 4 3.2618 - 2.9637 0.98 4321 152 0.2084 0.2564 REMARK 3 5 2.9637 - 2.7513 0.97 4264 148 0.2134 0.2794 REMARK 3 6 2.7513 - 2.5891 0.95 4178 150 0.2381 0.3229 REMARK 3 7 2.5891 - 2.4594 0.94 4100 148 0.2586 0.3034 REMARK 3 8 2.4594 - 2.3524 0.91 3984 145 0.2857 0.3254 REMARK 3 9 2.3524 - 2.2618 0.91 3990 139 0.3169 0.3873 REMARK 3 10 2.2618 - 2.1838 0.91 4011 136 0.3393 0.3728 REMARK 3 11 2.1838 - 2.1155 0.86 3752 129 0.3843 0.4167 REMARK 3 12 2.1155 - 2.0550 0.84 3662 121 0.4165 0.4421 REMARK 3 13 2.0550 - 2.0009 0.79 3479 118 0.4628 0.4793 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.410 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.030 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 : 0.008 4383 REMARK 3 ANGLE : 0.944 5961 REMARK 3 CHIRALITY : 0.052 644 REMARK 3 PLANARITY : 0.006 774 REMARK 3 DIHEDRAL : 4.134 2618 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 29.2097 55.0645 38.9349 REMARK 3 T TENSOR REMARK 3 T11: 0.1922 T22: 0.1900 REMARK 3 T33: 0.1258 T12: -0.0501 REMARK 3 T13: -0.0185 T23: 0.0112 REMARK 3 L TENSOR REMARK 3 L11: 1.0753 L22: 1.1735 REMARK 3 L33: -0.0022 L12: 0.8641 REMARK 3 L13: 0.1593 L23: 0.0056 REMARK 3 S TENSOR REMARK 3 S11: -0.0057 S12: 0.0202 S13: 0.0222 REMARK 3 S21: -0.0116 S22: 0.0105 S23: -0.0029 REMARK 3 S31: 0.0404 S32: -0.0255 S33: 0.0002 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 6G9S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-APR-18. REMARK 100 THE DEPOSITION ID IS D_1200009630. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-NOV-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59191 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 45.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 200 DATA REDUNDANCY : 11.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.3200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.6 REMARK 200 DATA REDUNDANCY IN SHELL : 10.40 REMARK 200 R MERGE FOR SHELL (I) : 3.25400 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: MORDA REMARK 200 STARTING MODEL: ENSEMBLE OF MODELS WAS USED: 5E31, 5DVY, 1VQQ, REMARK 200 3OCL, 4OOL, 4WEK, 4WEJ, 4MNR, 1XKW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRISBASE / BICINE PH 8,5 ; 0.1 M REMARK 280 CARBOXYLIC ACIDS MIX (0.02 M SODIUM FORMATE ; 0.02 M AMMONIUM REMARK 280 ACETATE ; 0.02 M SODIUM CITRATE TRIBASIC DIHYDRATE ; 0.02 M REMARK 280 SODIUM POTASSIUM TARTRATE TETRAHYDRATE ; 0.02 M SODIUM OXAMATE) ; REMARK 280 24 % GLYCEROL ; 12 % PEG 4000, PH 8.5, VAPOR DIFFUSION, HANGING REMARK 280 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 37.78050 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 37.78050 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 63.15150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 91.40300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 63.15150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 91.40300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 37.78050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 63.15150 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 91.40300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 37.78050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 63.15150 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 91.40300 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: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 HOH A 963 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 THR A 52 REMARK 465 ARG A 53 REMARK 465 SER A 54 REMARK 465 ASN A 55 REMARK 465 GLU A 56 REMARK 465 VAL A 550 REMARK 465 PHE A 551 REMARK 465 GLY A 552 REMARK 465 LEU A 553 REMARK 465 LYS A 554 REMARK 465 ALA A 555 REMARK 465 ASN A 556 REMARK 465 GLU A 557 REMARK 465 THR A 558 REMARK 465 TYR A 559 REMARK 465 ASN A 560 REMARK 465 ALA A 561 REMARK 465 HIS A 562 REMARK 465 LYS A 563 REMARK 465 ILE A 564 REMARK 465 ALA A 565 REMARK 465 GLU A 566 REMARK 465 ARG A 567 REMARK 465 LEU A 568 REMARK 465 GLY A 614 REMARK 465 ASP A 615 REMARK 465 ASN A 616 REMARK 465 ASN A 617 REMARK 465 THR A 618 REMARK 465 ASP A 619 REMARK 465 LEU A 620 REMARK 465 PRO A 621 REMARK 465 ALA A 622 REMARK 465 GLU A 623 REMARK 465 ASN A 624 REMARK 465 PRO A 625 REMARK 465 ALA A 626 REMARK 465 VAL A 627 REMARK 465 ALA A 628 REMARK 465 ALA A 629 REMARK 465 ALA A 630 REMARK 465 GLU A 631 REMARK 465 ASP A 632 REMARK 465 HIS A 633 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 OE1 GLU A 157 O HOH A 801 2.01 REMARK 500 O HOH A 1002 O HOH A 1084 2.13 REMARK 500 O HOH A 1038 O HOH A 1053 2.16 REMARK 500 O GLN A 238 O HOH A 802 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 330 C SER A 330 O 0.189 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 ARG A 125 22.06 -67.33 REMARK 500 ARG A 232 -7.19 73.17 REMARK 500 ALA A 267 -113.10 37.65 REMARK 500 SER A 291 -160.36 -110.06 REMARK 500 ASP A 299 34.90 -93.14 REMARK 500 THR A 315 61.43 33.49 REMARK 500 ALA A 329 -140.13 45.31 REMARK 500 GLN A 455 -143.93 -124.37 REMARK 500 ALA A 488 -169.80 -118.12 REMARK 500 GLU A 489 122.14 54.33 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 A1163 DISTANCE = 6.64 ANGSTROMS REMARK 525 HOH A1164 DISTANCE = 7.61 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ET5 A 701 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6G9P RELATED DB: PDB REMARK 900 6G9P CONTAINS THE SAME PROTEIN WITHOUT LIGAND REMARK 900 RELATED ID: 6G9F RELATED DB: PDB REMARK 900 6G9F CONTAINS THE SAME PROTEIN COMPLEXED WITH AVIBACTAM DBREF 6G9S A 52 633 UNP P0AD65 MRDA_ECOLI 52 633 SEQRES 1 A 582 THR ARG SER ASN GLU ASN ARG ILE LYS LEU VAL PRO ILE SEQRES 2 A 582 ALA PRO SER ARG GLY ILE ILE TYR ASP ARG ASN GLY ILE SEQRES 3 A 582 PRO LEU ALA LEU ASN ARG THR ILE TYR GLN ILE GLU MET SEQRES 4 A 582 MET PRO GLU LYS VAL ASP ASN VAL GLN GLN THR LEU ASP SEQRES 5 A 582 ALA LEU ARG SER VAL VAL ASP LEU THR ASP ASP ASP ILE SEQRES 6 A 582 ALA ALA PHE ARG LYS GLU ARG ALA ARG SER HIS ARG PHE SEQRES 7 A 582 THR SER ILE PRO VAL LYS THR ASN LEU THR GLU VAL GLN SEQRES 8 A 582 VAL ALA ARG PHE ALA VAL ASN GLN TYR ARG PHE PRO GLY SEQRES 9 A 582 VAL GLU VAL LYS GLY TYR LYS ARG ARG TYR TYR PRO TYR SEQRES 10 A 582 GLY SER ALA LEU THR HIS VAL ILE GLY TYR VAL SER LYS SEQRES 11 A 582 ILE ASN ASP LYS ASP VAL GLU ARG LEU ASN ASN ASP GLY SEQRES 12 A 582 LYS LEU ALA ASN TYR ALA ALA THR HIS ASP ILE GLY LYS SEQRES 13 A 582 LEU GLY ILE GLU ARG TYR TYR GLU ASP VAL LEU HIS GLY SEQRES 14 A 582 GLN THR GLY TYR GLU GLU VAL GLU VAL ASN ASN ARG GLY SEQRES 15 A 582 ARG VAL ILE ARG GLN LEU LYS GLU VAL PRO PRO GLN ALA SEQRES 16 A 582 GLY HIS ASP ILE TYR LEU THR LEU ASP LEU LYS LEU GLN SEQRES 17 A 582 GLN TYR ILE GLU THR LEU LEU ALA GLY SER ARG ALA ALA SEQRES 18 A 582 VAL VAL VAL THR ASP PRO ARG THR GLY GLY VAL LEU ALA SEQRES 19 A 582 LEU VAL SER THR PRO SER TYR ASP PRO ASN LEU PHE VAL SEQRES 20 A 582 ASP GLY ILE SER SER LYS ASP TYR SER ALA LEU LEU ASN SEQRES 21 A 582 ASP PRO ASN THR PRO LEU VAL ASN ARG ALA THR GLN GLY SEQRES 22 A 582 VAL TYR PRO PRO ALA SER THR VAL LYS PRO TYR VAL ALA SEQRES 23 A 582 VAL SER ALA LEU SER ALA GLY VAL ILE THR ARG ASN THR SEQRES 24 A 582 THR LEU PHE ASP PRO GLY TRP TRP GLN LEU PRO GLY SER SEQRES 25 A 582 GLU LYS ARG TYR ARG ASP TRP LYS LYS TRP GLY HIS GLY SEQRES 26 A 582 ARG LEU ASN VAL THR ARG SER LEU GLU GLU SER ALA ASP SEQRES 27 A 582 THR PHE PHE TYR GLN VAL ALA TYR ASP MET GLY ILE ASP SEQRES 28 A 582 ARG LEU SER GLU TRP MET GLY LYS PHE GLY TYR GLY HIS SEQRES 29 A 582 TYR THR GLY ILE ASP LEU ALA GLU GLU ARG SER GLY ASN SEQRES 30 A 582 MET PRO THR ARG GLU TRP LYS GLN LYS ARG PHE LYS LYS SEQRES 31 A 582 PRO TRP TYR GLN GLY ASP THR ILE PRO VAL GLY ILE GLY SEQRES 32 A 582 GLN GLY TYR TRP THR ALA THR PRO ILE GLN MET SER LYS SEQRES 33 A 582 ALA LEU MET ILE LEU ILE ASN ASP GLY ILE VAL LYS VAL SEQRES 34 A 582 PRO HIS LEU LEU MET SER THR ALA GLU ASP GLY LYS GLN SEQRES 35 A 582 VAL PRO TRP VAL GLN PRO HIS GLU PRO PRO VAL GLY ASP SEQRES 36 A 582 ILE HIS SER GLY TYR TRP GLU LEU ALA LYS ASP GLY MET SEQRES 37 A 582 TYR GLY VAL ALA ASN ARG PRO ASN GLY THR ALA HIS LYS SEQRES 38 A 582 TYR PHE ALA SER ALA PRO TYR LYS ILE ALA ALA LYS SER SEQRES 39 A 582 GLY THR ALA GLN VAL PHE GLY LEU LYS ALA ASN GLU THR SEQRES 40 A 582 TYR ASN ALA HIS LYS ILE ALA GLU ARG LEU ARG ASP HIS SEQRES 41 A 582 LYS LEU MET THR ALA PHE ALA PRO TYR ASN ASN PRO GLN SEQRES 42 A 582 VAL ALA VAL ALA MET ILE LEU GLU ASN GLY GLY ALA GLY SEQRES 43 A 582 PRO ALA VAL GLY THR LEU MET ARG GLN ILE LEU ASP HIS SEQRES 44 A 582 ILE MET LEU GLY ASP ASN ASN THR ASP LEU PRO ALA GLU SEQRES 45 A 582 ASN PRO ALA VAL ALA ALA ALA GLU ASP HIS HET ET5 A 701 21 HETNAM ET5 (3~{R},6~{S})-6-(AMINOMETHYL)-4-(1,3-OXAZOL-5-YL)-3- HETNAM 2 ET5 (SULFOOXYAMINO)-3,6-DIHYDRO-2~{H}-PYRIDINE-1- HETNAM 3 ET5 CARBOXYLIC ACID FORMUL 2 ET5 C10 H14 N4 O7 S FORMUL 3 HOH *364(H2 O) HELIX 1 AA1 PRO A 92 VAL A 95 5 4 HELIX 2 AA2 ASN A 97 ASP A 110 1 14 HELIX 3 AA3 THR A 112 ARG A 125 1 14 HELIX 4 AA4 THR A 139 GLN A 150 1 12 HELIX 5 AA5 TYR A 151 PHE A 153 5 3 HELIX 6 AA6 TYR A 168 ALA A 171 5 4 HELIX 7 AA7 LEU A 172 GLY A 177 1 6 HELIX 8 AA8 ASN A 183 ASP A 193 1 11 HELIX 9 AA9 LYS A 195 ALA A 200 5 6 HELIX 10 AB1 LEU A 208 TYR A 214 1 7 HELIX 11 AB2 TYR A 214 HIS A 219 1 6 HELIX 12 AB3 ASN A 231 GLY A 233 5 3 HELIX 13 AB4 ASP A 255 ALA A 267 1 13 HELIX 14 AB5 PRO A 294 ASP A 299 1 6 HELIX 15 AB6 SER A 302 ASN A 311 1 10 HELIX 16 AB7 ASN A 319 GLY A 324 1 6 HELIX 17 AB8 PRO A 328 THR A 331 5 4 HELIX 18 AB9 VAL A 332 ALA A 343 1 12 HELIX 19 AC1 ASN A 379 GLU A 386 1 8 HELIX 20 AC2 ASP A 389 PHE A 411 1 23 HELIX 21 AC3 THR A 431 LYS A 440 1 10 HELIX 22 AC4 TYR A 444 GLY A 452 1 9 HELIX 23 AC5 THR A 461 ASN A 474 1 14 HELIX 24 AC6 GLY A 510 ARG A 525 1 16 HELIX 25 AC7 ALA A 530 ALA A 535 1 6 HELIX 26 AC8 ASN A 593 GLY A 595 5 3 HELIX 27 AC9 ALA A 599 LEU A 613 1 15 SHEET 1 AA1 3 ILE A 59 ILE A 64 0 SHEET 2 AA1 3 GLY A 223 VAL A 229 -1 O VAL A 227 N LYS A 60 SHEET 3 AA1 3 VAL A 235 VAL A 242 -1 O VAL A 242 N TYR A 224 SHEET 1 AA2 3 ILE A 132 LEU A 138 0 SHEET 2 AA2 3 PRO A 78 MET A 90 -1 N ILE A 88 O VAL A 134 SHEET 3 AA2 3 VAL A 156 TYR A 165 -1 O LYS A 159 N GLN A 87 SHEET 1 AA3 6 ILE A 132 LEU A 138 0 SHEET 2 AA3 6 PRO A 78 MET A 90 -1 N ILE A 88 O VAL A 134 SHEET 3 AA3 6 ILE A 71 TYR A 72 -1 N ILE A 71 O LEU A 79 SHEET 4 AA3 6 ILE A 250 LEU A 252 1 O LEU A 252 N TYR A 72 SHEET 5 AA3 6 LEU A 484 THR A 487 -1 O MET A 485 N TYR A 251 SHEET 6 AA3 6 VAL A 494 PRO A 495 -1 O VAL A 494 N THR A 487 SHEET 1 AA4 2 VAL A 179 LYS A 181 0 SHEET 2 AA4 2 ASP A 204 GLY A 206 -1 O ILE A 205 N SER A 180 SHEET 1 AA5 2 GLY A 220 GLN A 221 0 SHEET 2 AA5 2 GLN A 245 ALA A 246 -1 O GLN A 245 N GLN A 221 SHEET 1 AA6 5 VAL A 283 THR A 289 0 SHEET 2 AA6 5 ALA A 271 THR A 276 -1 N VAL A 275 O ALA A 285 SHEET 3 AA6 5 VAL A 585 LEU A 591 -1 O ALA A 586 N THR A 276 SHEET 4 AA6 5 HIS A 571 ALA A 578 -1 N ALA A 576 O VAL A 587 SHEET 5 AA6 5 ALA A 542 ALA A 548 -1 N LYS A 544 O THR A 575 SHEET 1 AA7 2 LEU A 352 ASP A 354 0 SHEET 2 AA7 2 GLY A 376 LEU A 378 -1 O LEU A 378 N LEU A 352 SHEET 1 AA8 2 TRP A 357 GLN A 359 0 SHEET 2 AA8 2 ARG A 366 ARG A 368 -1 O TYR A 367 N TRP A 358 LINK OG SER A 330 C13 ET5 A 701 1555 1555 1.45 CISPEP 1 THR A 289 PRO A 290 0 -2.39 CISPEP 2 GLU A 489 ASP A 490 0 14.91 CISPEP 3 ASP A 490 GLY A 491 0 1.57 CISPEP 4 GLY A 491 LYS A 492 0 20.22 CISPEP 5 ALA A 578 PRO A 579 0 -9.19 SITE 1 AC1 12 ALA A 329 SER A 330 LYS A 333 TRP A 370 SITE 2 AC1 12 SER A 387 ASP A 389 ILE A 453 SER A 545 SITE 3 AC1 12 GLY A 546 THR A 547 HOH A 818 HOH A 831 CRYST1 126.303 182.806 75.561 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 0.007917 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005470 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013234 0.00000