HEADER TRANSFERASE 18-OCT-20 7KGN TITLE S. TYPHI YCBB - ERTAPENEM COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: L,D-TRANSPEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALMONELLA ENTERICA; SOURCE 3 ORGANISM_TAXID: 28901; SOURCE 4 GENE: LDTD; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS L, D-TRANSPEPTIDASE, ANTIBIOTIC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR N.A.CAVENEY,N.C.J.STRYNADKA REVDAT 3 18-OCT-23 7KGN 1 REMARK REVDAT 2 03-FEB-21 7KGN 1 JRNL REVDAT 1 25-NOV-20 7KGN 0 JRNL AUTH N.A.CAVENEY,A.SERAPIO-PALACIOS,S.E.WOODWARD,T.BOZORGMEHR, JRNL AUTH 2 G.CABALLERO,M.VUCKOVIC,W.DENG,B.B.FINLAY,N.C.J.STRYNADKA JRNL TITL STRUCTURAL AND CELLULAR INSIGHTS INTO THE L,D-TRANSPEPTIDASE JRNL TITL 2 YCBB AS A THERAPEUTIC TARGET IN CITROBACTER RODENTIUM, JRNL TITL 3 SALMONELLA TYPHIMURIUM, AND SALMONELLA TYPHI INFECTIONS. JRNL REF ANTIMICROB.AGENTS CHEMOTHER. V. 65 2021 JRNL REFN ESSN 1098-6596 JRNL PMID 33139287 JRNL DOI 10.1128/AAC.01592-20 REMARK 2 REMARK 2 RESOLUTION. 3.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 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) : 3.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 7733 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.291 REMARK 3 R VALUE (WORKING SET) : 0.283 REMARK 3 FREE R VALUE : 0.359 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.790 REMARK 3 FREE R VALUE TEST SET COUNT : 757 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 45.9650 - 6.1526 1.00 1510 166 0.2156 0.2913 REMARK 3 2 6.1526 - 4.8853 1.00 1419 161 0.3193 0.3718 REMARK 3 3 4.8853 - 4.2682 0.99 1398 150 0.2643 0.3948 REMARK 3 4 4.2682 - 3.8782 0.95 1319 146 0.3406 0.4255 REMARK 3 5 3.8782 - 3.6004 0.96 1330 134 0.5455 0.6441 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) : 0.920 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 53.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 56.74 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 144.0 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 7KGN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-OCT-20. REMARK 100 THE DEPOSITION ID IS D_1000252442. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7733 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 45.965 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 83.9 REMARK 200 DATA REDUNDANCY : 7.960 REMARK 200 R MERGE (I) : 0.31500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 2.8300 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6NTW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: S. TYPHI YCBB WAS CRYSTALLIZED AT 20C REMARK 280 BY SITTING DROP VAPOUR DIFFUSION USING 1 UL PROTEIN SOLUTION (9 REMARK 280 MG/ML PURIFIED PROTEIN IN BUFFER A) AND 1 UL OF MOTHER LIQUOR REMARK 280 (0.1 M TRIS PH 8.5, 0.18 M MGCL2, 17% PEG 8K, 2% ETHANOL) WITH REMARK 280 THE ADDITION OF 1MM ERTAPENEM (MILLIPORE SIGMA)., VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298.5K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 64.79000 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 129.58000 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 129.58000 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 64.79000 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 ASP A 31 REMARK 465 GLU A 32 REMARK 465 PRO A 33 REMARK 465 GLU A 34 REMARK 465 MET A 35 REMARK 465 ILE A 36 REMARK 465 PRO A 37 REMARK 465 GLY A 38 REMARK 465 ASP A 39 REMARK 465 SER A 40 REMARK 465 ALA A 41 REMARK 465 VAL A 42 REMARK 465 ALA A 43 REMARK 465 ALA A 44 REMARK 465 THR A 45 REMARK 465 ASP A 46 REMARK 465 LEU A 47 REMARK 465 ALA A 48 REMARK 465 GLY A 49 REMARK 465 PRO A 50 REMARK 465 GLN A 51 REMARK 465 LYS A 52 REMARK 465 GLN A 53 REMARK 465 SER A 54 REMARK 465 ALA A 55 REMARK 465 ALA A 56 REMARK 465 THR A 57 REMARK 465 ALA A 58 REMARK 465 ILE A 59 REMARK 465 MET A 60 REMARK 465 ALA A 61 REMARK 465 GLY A 62 REMARK 465 ILE A 63 REMARK 465 GLN A 64 REMARK 465 PRO A 65 REMARK 465 LEU A 66 REMARK 465 PRO A 67 REMARK 465 GLU A 68 REMARK 465 GLY A 69 REMARK 465 VAL A 70 REMARK 465 SER A 71 REMARK 465 GLN A 82 REMARK 465 LEU A 83 REMARK 465 MET A 107 REMARK 465 TRP A 108 REMARK 465 ASN A 179 REMARK 465 LYS A 180 REMARK 465 GLU A 201 REMARK 465 GLY A 202 REMARK 465 GLN A 203 REMARK 465 LEU A 204 REMARK 465 HIS A 215 REMARK 465 ASP A 267 REMARK 465 GLY A 268 REMARK 465 GLY A 269 REMARK 465 PRO A 270 REMARK 465 LYS A 271 REMARK 465 ILE A 272 REMARK 465 ALA A 273 REMARK 465 LEU A 274 REMARK 465 PRO A 275 REMARK 465 GLY A 276 REMARK 465 ASP A 277 REMARK 465 ASN A 278 REMARK 465 THR A 279 REMARK 465 ALA A 280 REMARK 465 ASP A 281 REMARK 465 SER A 282 REMARK 465 ALA A 283 REMARK 465 VAL A 284 REMARK 465 VAL A 285 REMARK 465 SER A 286 REMARK 465 PRO A 287 REMARK 465 SER A 288 REMARK 465 ALA A 289 REMARK 465 VAL A 290 REMARK 465 VAL A 291 REMARK 465 ASP A 292 REMARK 465 GLU A 293 REMARK 465 THR A 294 REMARK 465 SER A 295 REMARK 465 VAL A 296 REMARK 465 ALA A 297 REMARK 465 HIS A 298 REMARK 465 ASP A 299 REMARK 465 GLU A 300 REMARK 465 PRO A 301 REMARK 465 THR A 302 REMARK 465 ALA A 303 REMARK 465 ARG A 304 REMARK 465 ARG A 305 REMARK 465 SER A 306 REMARK 465 LYS A 307 REMARK 465 PRO A 308 REMARK 465 ALA A 309 REMARK 465 PRO A 310 REMARK 465 ALA A 311 REMARK 465 GLY A 331 REMARK 465 THR A 451 REMARK 465 VAL A 452 REMARK 465 MET A 453 REMARK 465 ARG A 454 REMARK 465 GLY A 455 REMARK 465 TRP A 456 REMARK 465 ALA A 461 REMARK 465 ILE A 462 REMARK 465 ASP A 463 REMARK 465 ARG A 480 REMARK 465 PRO A 485 REMARK 465 GLY A 486 REMARK 465 ALA A 487 REMARK 465 HIS A 488 REMARK 465 ASN A 489 REMARK 465 SER A 490 REMARK 465 ASP A 502 REMARK 465 ALA A 503 REMARK 465 ILE A 504 REMARK 465 GLN A 610 REMARK 465 LEU A 611 REMARK 465 ILE A 612 REMARK 465 ARG A 613 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 SER A 81 O REMARK 480 PRO A 106 O REMARK 480 ALA A 144 O REMARK 480 SER A 178 O REMARK 480 GLU A 200 O REMARK 480 GLN A 214 O REMARK 480 LEU A 266 O REMARK 480 ARG A 325 O REMARK 480 TYR A 450 O REMARK 480 PHE A 479 O REMARK 480 GLN A 483 O REMARK 480 SER A 500 O REMARK 480 ALA A 598 O REMARK 480 GLU A 609 O 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 LEU A 140 NH2 ARG A 150 2.10 REMARK 500 O LEU A 211 NH2 ARG A 365 2.14 REMARK 500 OH TYR A 91 O ALA A 185 2.14 REMARK 500 O VAL A 356 OD1 ASN A 360 2.15 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 N ASN A 457 OBF 1RG A 901 4645 2.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 TRP A 249 CA - CB - CG ANGL. DEV. = 14.8 DEGREES 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 GLN A 80 81.30 -69.92 REMARK 500 SER A 85 61.69 37.73 REMARK 500 ASP A 103 46.70 71.03 REMARK 500 PRO A 131 -0.58 -52.51 REMARK 500 PRO A 143 53.00 -67.08 REMARK 500 LYS A 171 15.78 -140.80 REMARK 500 GLN A 173 7.95 -64.97 REMARK 500 TYR A 177 41.92 -144.39 REMARK 500 LEU A 199 9.09 -69.42 REMARK 500 SER A 210 3.95 -63.80 REMARK 500 THR A 239 3.52 -68.34 REMARK 500 THR A 241 -11.70 72.70 REMARK 500 ASP A 316 -151.38 -78.18 REMARK 500 GLN A 327 -5.34 -56.42 REMARK 500 TRP A 329 165.71 -48.49 REMARK 500 ALA A 334 57.79 -97.03 REMARK 500 ASP A 335 33.08 -93.01 REMARK 500 PRO A 368 92.24 -69.53 REMARK 500 ALA A 369 127.76 -38.71 REMARK 500 THR A 373 80.82 69.32 REMARK 500 TYR A 386 96.28 -165.56 REMARK 500 GLN A 388 115.39 -161.05 REMARK 500 VAL A 400 -169.83 -120.89 REMARK 500 ARG A 405 41.96 -142.60 REMARK 500 MET A 410 -172.42 -172.47 REMARK 500 SER A 412 -158.84 -147.41 REMARK 500 ASN A 420 68.82 -114.29 REMARK 500 LEU A 477 135.93 -176.94 REMARK 500 SER A 524 -33.19 74.20 REMARK 500 LYS A 531 51.99 -91.20 REMARK 500 TYR A 573 -169.44 -129.01 REMARK 500 ALA A 581 49.63 -78.08 REMARK 500 ARG A 599 52.21 -143.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 TRP A 249 SER A 250 -148.47 REMARK 500 ARG A 313 ALA A 314 -149.23 REMARK 500 GLY A 339 PRO A 340 -147.21 REMARK 500 GLY A 492 ARG A 493 -145.87 REMARK 500 REMARK 500 REMARK: NULL DBREF1 7KGN A 31 613 UNP A0A0W3KZB5_SALER DBREF2 7KGN A A0A0W3KZB5 31 613 SEQRES 1 A 583 ASP GLU PRO GLU MET ILE PRO GLY ASP SER ALA VAL ALA SEQRES 2 A 583 ALA THR ASP LEU ALA GLY PRO GLN LYS GLN SER ALA ALA SEQRES 3 A 583 THR ALA ILE MET ALA GLY ILE GLN PRO LEU PRO GLU GLY SEQRES 4 A 583 VAL SER ALA GLU LYS VAL ARG ALA ASP LEU GLN SER GLN SEQRES 5 A 583 LEU PRO SER GLY TYR THR PRO VAL TYR MET SER GLN LEU SEQRES 6 A 583 THR LEU LEU TYR ALA ALA ARG ASP MET LYS PRO MET TRP SEQRES 7 A 583 ASP ASN ARG ASP ALA VAL LYS ALA PHE GLN GLN GLN LEU SEQRES 8 A 583 ALA GLU VAL ALA ILE ALA GLY PHE GLN PRO GLN PHE THR SEQRES 9 A 583 ALA TRP VAL ALA LEU LEU THR ASP PRO ALA VAL ASN GLY SEQRES 10 A 583 MET ALA ARG ASP VAL VAL LEU SER ASP ALA MET MET GLY SEQRES 11 A 583 TYR LEU HIS PHE ILE ALA ASN ILE PRO VAL LYS GLY GLN SEQRES 12 A 583 ARG TRP LEU TYR SER ASN LYS PRO TYR ALA LEU ALA THR SEQRES 13 A 583 PRO PRO VAL SER VAL ILE ASN GLN TRP GLN ILE ALA LEU SEQRES 14 A 583 GLU GLU GLY GLN LEU PRO MET PHE VAL ALA SER LEU ALA SEQRES 15 A 583 PRO GLN HIS PRO GLN TYR ALA PRO MET HIS ASP ALA LEU SEQRES 16 A 583 LEU LYS LEU VAL ALA ASP SER ARG PRO TRP PRO GLN LEU SEQRES 17 A 583 THR ASN THR ALA THR LEU ARG PRO GLY GLN TRP SER ASN SEQRES 18 A 583 ASP VAL PRO ALA LEU ARG GLU ILE LEU GLN ARG THR GLY SEQRES 19 A 583 MET LEU ASP GLY GLY PRO LYS ILE ALA LEU PRO GLY ASP SEQRES 20 A 583 ASN THR ALA ASP SER ALA VAL VAL SER PRO SER ALA VAL SEQRES 21 A 583 VAL ASP GLU THR SER VAL ALA HIS ASP GLU PRO THR ALA SEQRES 22 A 583 ARG ARG SER LYS PRO ALA PRO ALA ALA ARG ALA TYR ASP SEQRES 23 A 583 ARG GLU LEU VAL GLU ALA VAL LYS ARG PHE GLN ALA TRP SEQRES 24 A 583 GLN GLY LEU GLY ALA ASP GLY VAL ILE GLY PRO ALA THR SEQRES 25 A 583 ARG ASN TRP LEU ASN MET THR PRO ALA GLN ARG ALA GLY SEQRES 26 A 583 VAL LEU ALA LEU ASN ILE GLN ARG LEU ARG LEU LEU PRO SEQRES 27 A 583 ALA GLU LEU SER THR GLY ILE MET VAL ASN ILE PRO ALA SEQRES 28 A 583 TYR SER LEU VAL TYR TYR GLN ASN GLY ASN GLN VAL LEU SEQRES 29 A 583 ALA SER ARG VAL ILE VAL GLY ARG PRO ASP ARG LYS THR SEQRES 30 A 583 PRO MET MET SER SER ALA LEU ASN ASN VAL VAL VAL ASN SEQRES 31 A 583 PRO PRO TRP ASN VAL PRO PRO THR LEU ALA ARG LYS ASP SEQRES 32 A 583 ILE LEU PRO LYS VAL TRP ASN ASP PRO GLY TYR LEU GLU SEQRES 33 A 583 ARG HIS GLY TYR THR VAL MET ARG GLY TRP ASN SER LYS SEQRES 34 A 583 GLU ALA ILE ASP PRO TRP GLN VAL ASP TRP ALA THR ILE SEQRES 35 A 583 THR PRO SER ASN LEU PRO PHE ARG PHE GLN GLN ALA PRO SEQRES 36 A 583 GLY ALA HIS ASN SER LEU GLY ARG TYR LYS PHE ASN MET SEQRES 37 A 583 PRO SER SER ASP ALA ILE TYR LEU HIS ASP THR PRO ASN SEQRES 38 A 583 HIS THR LEU PHE GLN ARG ASP ALA ARG ALA LEU SER SER SEQRES 39 A 583 GLY CYS VAL ARG VAL ASN LYS ALA SER GLU LEU ALA ASN SEQRES 40 A 583 MET LEU LEU GLN ASP ALA GLY TRP ASN ASP ALA ARG ILE SEQRES 41 A 583 SER GLY ALA LEU LYS GLN GLY ASP THR ARG TYR VAL ASN SEQRES 42 A 583 ILE ARG GLN ASN ILE PRO VAL ASN LEU TYR TYR LEU THR SEQRES 43 A 583 ALA PHE VAL GLY ALA ASP GLY ARG MET GLN TYR ARG THR SEQRES 44 A 583 ASP ILE TYR ASN TYR ASP LEU THR ALA ARG SER SER ALA SEQRES 45 A 583 GLN ILE VAL PRO LYS VAL GLU GLN LEU ILE ARG HET 1RG A 901 33 HETNAM 1RG (4R,5S)-3-({(3S,5S)-5-[(3-CARBOXYPHENYL) HETNAM 2 1RG CARBAMOYL]PYRROLIDIN-3-YL}SULFANYL)-5-[(1S,2R)-1- HETNAM 3 1RG FORMYL-2-HYDROXYPROPYL]-4-METHYL-4,5-DIHYDRO-1H- HETNAM 4 1RG PYRROLE-2-CARBOXYLIC ACID HETSYN 1RG ERTAPENEM, BOUND FORM PRE-ISOMERIZED FORMUL 2 1RG C22 H27 N3 O7 S HELIX 1 AA1 TYR A 91 ARG A 102 1 12 HELIX 2 AA2 ARG A 111 ILE A 126 1 16 HELIX 3 AA3 GLN A 130 ASP A 142 1 13 HELIX 4 AA4 GLY A 147 VAL A 152 1 6 HELIX 5 AA5 VAL A 152 ASN A 167 1 16 HELIX 6 AA6 ASN A 167 GLY A 172 1 6 HELIX 7 AA7 ARG A 174 SER A 178 5 5 HELIX 8 AA8 PRO A 188 LEU A 199 1 12 HELIX 9 AA9 PRO A 205 ALA A 212 5 8 HELIX 10 AB1 GLN A 217 ALA A 230 1 14 HELIX 11 AB2 ASP A 252 THR A 263 1 12 HELIX 12 AB3 GLY A 339 THR A 342 5 4 HELIX 13 AB4 ARG A 343 MET A 348 1 6 HELIX 14 AB5 THR A 349 LEU A 359 1 11 HELIX 15 AB6 ARG A 363 LEU A 367 5 5 HELIX 16 AB7 PRO A 426 ARG A 431 1 6 HELIX 17 AB8 LEU A 435 ASP A 441 1 7 HELIX 18 AB9 ASP A 441 ARG A 447 1 7 HELIX 19 AC1 LYS A 531 LEU A 539 1 9 HELIX 20 AC2 ALA A 548 GLN A 556 1 9 HELIX 21 AC3 ILE A 604 VAL A 608 5 5 SHEET 1 AA1 6 ASN A 391 GLN A 392 0 SHEET 2 AA1 6 SER A 383 GLN A 388 -1 N GLN A 388 O ASN A 391 SHEET 3 AA1 6 SER A 396 ILE A 399 -1 O SER A 396 N LEU A 384 SHEET 4 AA1 6 VAL A 527 VAL A 529 -1 O ARG A 528 N ILE A 399 SHEET 5 AA1 6 LEU A 506 HIS A 507 1 N HIS A 507 O VAL A 527 SHEET 6 AA1 6 LYS A 495 PHE A 496 -1 N PHE A 496 O LEU A 506 SHEET 1 AA2 4 ASN A 391 GLN A 392 0 SHEET 2 AA2 4 SER A 383 GLN A 388 -1 N GLN A 388 O ASN A 391 SHEET 3 AA2 4 ILE A 375 ASN A 378 -1 N ASN A 378 O SER A 383 SHEET 4 AA2 4 LEU A 572 TYR A 573 1 O TYR A 573 N VAL A 377 SHEET 1 AA3 2 SER A 412 ALA A 413 0 SHEET 2 AA3 2 PRO A 569 VAL A 570 -1 O VAL A 570 N SER A 412 SHEET 1 AA4 2 ASN A 416 VAL A 418 0 SHEET 2 AA4 2 TYR A 561 ASN A 563 -1 O VAL A 562 N VAL A 417 LINK SG CYS A 526 CAA 1RG A 901 1555 1555 1.81 CRYST1 75.309 75.309 194.370 90.00 90.00 120.00 P 31 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 0.013279 0.007666 0.000000 0.00000 SCALE2 0.000000 0.015333 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005145 0.00000