HEADER TRANSFERASE/ANTIBIOTIC 12-JUN-03 1PN3 TITLE CRYSTAL STRUCTURE OF TDP-EPI-VANCOSAMINYLTRANSFERASE GTFA IN COMPLEXES TITLE 2 WITH TDP AND THE ACCEPTOR SUBSTRATE DVV. COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOSYLTRANSFERASE GTFA; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DESVANCOSAMINYL VANCOMYCIN; COMPND 7 CHAIN: C, D SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AMYCOLATOPSIS ORIENTALIS; SOURCE 3 ORGANISM_TAXID: 31958; SOURCE 4 GENE: GTFA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: AMYCOLATOPSIS ORIENTALIS; SOURCE 12 ORGANISM_TAXID: 31958 KEYWDS GT-B GLYCOSYLTRANSFERASE, ROSSMANN FOLD, GLYCOPEPTIDE, VANCOMYCIN, KEYWDS 2 ANTIBIOTIC, TRANSFERASE-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.M.MULICHAK,H.C.LOSEY,W.LU,Z.WAWRZAK,C.T.WALSH,R.M.GARAVITO REVDAT 6 29-JUL-20 1PN3 1 COMPND REMARK SEQADV SEQRES REVDAT 6 2 1 HETNAM LINK SITE REVDAT 5 01-NOV-17 1PN3 1 REMARK REVDAT 4 27-JUL-11 1PN3 1 REMARK REVDAT 3 13-JUL-11 1PN3 1 VERSN REVDAT 2 24-FEB-09 1PN3 1 VERSN REVDAT 1 12-AUG-03 1PN3 0 JRNL AUTH A.M.MULICHAK,H.C.LOSEY,W.LU,Z.WAWRZAK,C.T.WALSH,R.M.GARAVITO JRNL TITL STRUCTURE OF THE TDP-EPI-VANCOSAMINYLTRANSFERASE GTFA FROM JRNL TITL 2 THE CHLOROEREMOMYCIN BIOSYNTHETIC PATHWAY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 100 9238 2003 JRNL REFN ISSN 0027-8424 JRNL PMID 12874381 JRNL DOI 10.1073/PNAS.1233577100 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 31308 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1418 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5797 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 162 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.20 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.44 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.390 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.97 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.950 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PN3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUN-03. REMARK 100 THE DEPOSITION ID IS D_1000019440. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-FEB-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31308 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08100 REMARK 200 FOR THE DATA SET : 15.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.29500 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE V. 2.0, RESOLVE V. 2.0 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NA,K PHOSPHATE, PH 6.1, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 65.82667 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 32.91333 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 32.91333 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 65.82667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A MONOMER. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 400 REMARK 400 COMPOUND REMARK 400 VANCOMYCIN DESVANCOSAMINYL IS A TRICYCLIC GLYCOPEPTIDE, A MEMBER REMARK 400 OF THE VANCOMYCIN FAMILY. THE SCAFFOLD IS A HEPTAPEPTIDE WITH REMARK 400 THE CONFIGURATION D-D-L-D-D-L-L. IT IS FURTHER GLYCOSYLATED REMARK 400 BY A D-GLUCOSE REMARK 400 HERE, DESVANCOSAMINYL ANCOMYCIN IS REPRESENTED BY GROUPING REMARK 400 TOGETHER THE SEQUENCE (SEQRES) AND THE LIGAND (HET) BGC. REMARK 400 REMARK 400 THE DESVANCOSAMINYL VANCOMYCIN IS GLYCOPEPTIDE, A MEMBER OF REMARK 400 ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: DESVANCOSAMINYL VANCOMYCIN REMARK 400 CHAIN: C, D REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 COMPONENT_2: RESIDUE BGC REMARK 400 DESCRIPTION: DESVANCOSAMINYL VANCOMYCIN IS AN INTERMIDIATE IN REMARK 400 VANCOMYCIN BIOSYNTHESIS. IT IS TRICYCLIC REMARK 400 GLYCOPEPTIDE, GLYCOSYLATED BY D-GLUCOSE (RESIDUE 8) REMARK 400 ON RESIDUE 4. 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 PRO A 392 REMARK 465 THR A 393 REMARK 465 VAL A 394 REMARK 465 PRO A 395 REMARK 465 ALA A 396 REMARK 465 LEU A 397 REMARK 465 GLU A 398 REMARK 465 HIS A 399 REMARK 465 HIS A 400 REMARK 465 HIS A 401 REMARK 465 HIS A 402 REMARK 465 HIS A 403 REMARK 465 HIS A 404 REMARK 465 VAL B 316 REMARK 465 ASP B 317 REMARK 465 ASN B 318 REMARK 465 VAL B 319 REMARK 465 VAL B 320 REMARK 465 GLU B 321 REMARK 465 GLN B 322 REMARK 465 PRO B 392 REMARK 465 THR B 393 REMARK 465 VAL B 394 REMARK 465 PRO B 395 REMARK 465 ALA B 396 REMARK 465 LEU B 397 REMARK 465 GLU B 398 REMARK 465 HIS B 399 REMARK 465 HIS B 400 REMARK 465 HIS B 401 REMARK 465 HIS B 402 REMARK 465 HIS B 403 REMARK 465 HIS B 404 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 143 CD OE1 NE2 REMARK 470 ARG A 147 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 148 CG CD1 CD2 REMARK 470 SER A 159 OG REMARK 470 LEU A 162 CG CD1 CD2 REMARK 470 GLU A 166 CG CD OE1 OE2 REMARK 470 SER A 221 OG REMARK 470 SER A 232 OG REMARK 470 ARG A 233 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 241 CD CE NZ REMARK 470 ASP A 268 CG OD1 OD2 REMARK 470 ARG A 314 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 316 CG1 CG2 REMARK 470 VAL A 319 CG1 CG2 REMARK 470 VAL A 320 CG1 CG2 REMARK 470 GLU A 321 CG CD OE1 OE2 REMARK 470 GLN A 322 CG CD OE1 NE2 REMARK 470 ASP A 346 CG OD1 OD2 REMARK 470 LYS A 391 CG CD CE NZ REMARK 470 GLU B 63 CG CD OE1 OE2 REMARK 470 GLU B 91 CG CD OE1 OE2 REMARK 470 LYS B 114 CG CD CE NZ REMARK 470 SER B 159 OG REMARK 470 GLU B 166 CD OE1 OE2 REMARK 470 LYS B 241 CD CE NZ REMARK 470 ASP B 267 CG OD1 OD2 REMARK 470 ASP B 268 CG OD1 OD2 REMARK 470 ARG B 314 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 315 CG1 CG2 REMARK 470 LYS B 391 CG CD CE NZ 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 8 95.84 -161.36 REMARK 500 SER A 10 -178.15 -56.27 REMARK 500 GLU A 73 -50.20 -24.86 REMARK 500 LEU A 101 108.29 -26.36 REMARK 500 ASP A 127 3.74 -58.01 REMARK 500 ARG A 138 -80.28 -46.98 REMARK 500 GLU A 166 -164.45 -125.03 REMARK 500 HIS A 167 54.13 30.76 REMARK 500 THR A 174 156.82 62.36 REMARK 500 SER A 186 68.16 -115.85 REMARK 500 PRO A 190 -54.61 -18.03 REMARK 500 LEU A 193 -84.56 -83.04 REMARK 500 PRO A 204 101.30 -48.18 REMARK 500 LEU A 217 25.10 -68.45 REMARK 500 ALA A 218 -31.99 -140.93 REMARK 500 ALA A 219 26.65 -77.81 REMARK 500 LEU A 263 168.42 -49.50 REMARK 500 ARG A 286 23.80 -141.38 REMARK 500 ASP A 317 93.02 -68.69 REMARK 500 GLU A 321 124.37 174.42 REMARK 500 ALA A 323 98.81 -69.63 REMARK 500 ARG A 361 6.81 -64.22 REMARK 500 LEU A 389 -87.86 -70.02 REMARK 500 SER B 10 -172.18 -68.65 REMARK 500 PRO B 64 -73.87 -13.83 REMARK 500 GLU B 73 3.39 -59.25 REMARK 500 LEU B 101 122.44 -29.97 REMARK 500 SER B 159 9.40 -64.23 REMARK 500 ILE B 160 21.17 -144.78 REMARK 500 THR B 174 168.96 81.83 REMARK 500 ALA B 219 -8.92 -54.11 REMARK 500 SER B 231 138.03 -31.32 REMARK 500 PRO B 266 -79.75 -53.30 REMARK 500 ASP B 267 -150.67 -117.17 REMARK 500 ASP B 268 145.39 170.85 REMARK 500 GLU B 277 83.42 -69.99 REMARK 500 ASN C 3 -36.04 -134.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AA5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VANCOMYCIN REMARK 900 RELATED ID: 1C0Q RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VANCOMYCIN COMPLEXED WITH 2-ACETOXY-D- REMARK 900 PROPANOIC ACID REMARK 900 RELATED ID: 1C0R RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VANCOMYCIN WITH D-LACTIC ACID REMARK 900 RELATED ID: 1FVM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VANCOMYCIN COMPLEXED WITH DI-ACETYL-LYS-D-ALA- REMARK 900 D-ALA REMARK 900 RELATED ID: 1GAC RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF A82846B COMPLEXED WITH ITS CELL WALL REMARK 900 PENTAPEPTIDE FRAGMENT REMARK 900 RELATED ID: 1GHG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VANCOMYCIN AGLYCON REMARK 900 RELATED ID: 1PNV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TDP-EPI-VANCOSAMINYLTRANSFERASE GTFA COMPLEXED REMARK 900 WITH TDP AND VANCOMYCIN REMARK 900 RELATED ID: 1QD8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VANCOMYCIN COMPLEXED WITH N-ACETYL GLYCIN REMARK 900 RELATED ID: 1RRV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TDP-VANCOSAMINYLTRANSFERASE GTFD COMPLEXED REMARK 900 WITH TDP AND DESVANCOSAMINYL VANCOMYCIN. REMARK 900 RELATED ID: 1SHO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VANCOMYCIN DBREF 1PN3 A 1 396 UNP P96558 P96558_AMYOR 1 396 DBREF 1PN3 A 397 404 PDB 1PN3 1PN3 397 404 DBREF 1PN3 B 1 396 UNP P96558 P96558_AMYOR 1 396 DBREF 1PN3 B 397 404 PDB 1PN3 1PN3 397 404 DBREF 1PN3 C 1 7 NOR NOR00681 NOR00681 1 7 DBREF 1PN3 D 1 7 NOR NOR00681 NOR00681 1 7 SEQADV 1PN3 LEU A 397 UNP P96558 EXPRESSION TAG SEQADV 1PN3 GLU A 398 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS A 399 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS A 400 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS A 401 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS A 402 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS A 403 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS A 404 UNP P96558 EXPRESSION TAG SEQADV 1PN3 LEU B 397 UNP P96558 EXPRESSION TAG SEQADV 1PN3 GLU B 398 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS B 399 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS B 400 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS B 401 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS B 402 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS B 403 UNP P96558 EXPRESSION TAG SEQADV 1PN3 HIS B 404 UNP P96558 EXPRESSION TAG SEQRES 1 A 404 MET ARG VAL LEU ILE THR GLY CYS GLY SER ARG GLY ASP SEQRES 2 A 404 THR GLU PRO LEU VAL ALA LEU ALA ALA ARG LEU ARG GLU SEQRES 3 A 404 LEU GLY ALA ASP ALA ARG MET CYS LEU PRO PRO ASP TYR SEQRES 4 A 404 VAL GLU ARG CYS ALA GLU VAL GLY VAL PRO MET VAL PRO SEQRES 5 A 404 VAL GLY ARG ALA VAL ARG ALA GLY ALA ARG GLU PRO GLY SEQRES 6 A 404 GLU LEU PRO PRO GLY ALA ALA GLU VAL VAL THR GLU VAL SEQRES 7 A 404 VAL ALA GLU TRP PHE ASP LYS VAL PRO ALA ALA ILE GLU SEQRES 8 A 404 GLY CYS ASP ALA VAL VAL THR THR GLY LEU LEU PRO ALA SEQRES 9 A 404 ALA VAL ALA VAL ARG SER MET ALA GLU LYS LEU GLY ILE SEQRES 10 A 404 PRO TYR ARG TYR THR VAL LEU SER PRO ASP HIS LEU PRO SEQRES 11 A 404 SER GLU GLN SER GLN ALA GLU ARG ASP MET TYR ASN GLN SEQRES 12 A 404 GLY ALA ASP ARG LEU PHE GLY ASP ALA VAL ASN SER HIS SEQRES 13 A 404 ARG ALA SER ILE GLY LEU PRO PRO VAL GLU HIS LEU TYR SEQRES 14 A 404 ASP TYR GLY TYR THR ASP GLN PRO TRP LEU ALA ALA ASP SEQRES 15 A 404 PRO VAL LEU SER PRO LEU ARG PRO THR ASP LEU GLY THR SEQRES 16 A 404 VAL GLN THR GLY ALA TRP ILE LEU PRO ASP GLU ARG PRO SEQRES 17 A 404 LEU SER ALA GLU LEU GLU ALA PHE LEU ALA ALA GLY SER SEQRES 18 A 404 THR PRO VAL TYR VAL GLY PHE GLY SER SER SER ARG PRO SEQRES 19 A 404 ALA THR ALA ASP ALA ALA LYS MET ALA ILE LYS ALA VAL SEQRES 20 A 404 ARG ALA SER GLY ARG ARG ILE VAL LEU SER ARG GLY TRP SEQRES 21 A 404 ALA ASP LEU VAL LEU PRO ASP ASP GLY ALA ASP CYS PHE SEQRES 22 A 404 VAL VAL GLY GLU VAL ASN LEU GLN GLU LEU PHE GLY ARG SEQRES 23 A 404 VAL ALA ALA ALA ILE HIS HIS ASP SER ALA GLY THR THR SEQRES 24 A 404 LEU LEU ALA MET ARG ALA GLY ILE PRO GLN ILE VAL VAL SEQRES 25 A 404 ARG ARG VAL VAL ASP ASN VAL VAL GLU GLN ALA TYR HIS SEQRES 26 A 404 ALA ASP ARG VAL ALA GLU LEU GLY VAL GLY VAL ALA VAL SEQRES 27 A 404 ASP GLY PRO VAL PRO THR ILE ASP SER LEU SER ALA ALA SEQRES 28 A 404 LEU ASP THR ALA LEU ALA PRO GLU ILE ARG ALA ARG ALA SEQRES 29 A 404 THR THR VAL ALA ASP THR ILE ARG ALA ASP GLY THR THR SEQRES 30 A 404 VAL ALA ALA GLN LEU LEU PHE ASP ALA VAL SER LEU GLU SEQRES 31 A 404 LYS PRO THR VAL PRO ALA LEU GLU HIS HIS HIS HIS HIS SEQRES 32 A 404 HIS SEQRES 1 B 404 MET ARG VAL LEU ILE THR GLY CYS GLY SER ARG GLY ASP SEQRES 2 B 404 THR GLU PRO LEU VAL ALA LEU ALA ALA ARG LEU ARG GLU SEQRES 3 B 404 LEU GLY ALA ASP ALA ARG MET CYS LEU PRO PRO ASP TYR SEQRES 4 B 404 VAL GLU ARG CYS ALA GLU VAL GLY VAL PRO MET VAL PRO SEQRES 5 B 404 VAL GLY ARG ALA VAL ARG ALA GLY ALA ARG GLU PRO GLY SEQRES 6 B 404 GLU LEU PRO PRO GLY ALA ALA GLU VAL VAL THR GLU VAL SEQRES 7 B 404 VAL ALA GLU TRP PHE ASP LYS VAL PRO ALA ALA ILE GLU SEQRES 8 B 404 GLY CYS ASP ALA VAL VAL THR THR GLY LEU LEU PRO ALA SEQRES 9 B 404 ALA VAL ALA VAL ARG SER MET ALA GLU LYS LEU GLY ILE SEQRES 10 B 404 PRO TYR ARG TYR THR VAL LEU SER PRO ASP HIS LEU PRO SEQRES 11 B 404 SER GLU GLN SER GLN ALA GLU ARG ASP MET TYR ASN GLN SEQRES 12 B 404 GLY ALA ASP ARG LEU PHE GLY ASP ALA VAL ASN SER HIS SEQRES 13 B 404 ARG ALA SER ILE GLY LEU PRO PRO VAL GLU HIS LEU TYR SEQRES 14 B 404 ASP TYR GLY TYR THR ASP GLN PRO TRP LEU ALA ALA ASP SEQRES 15 B 404 PRO VAL LEU SER PRO LEU ARG PRO THR ASP LEU GLY THR SEQRES 16 B 404 VAL GLN THR GLY ALA TRP ILE LEU PRO ASP GLU ARG PRO SEQRES 17 B 404 LEU SER ALA GLU LEU GLU ALA PHE LEU ALA ALA GLY SER SEQRES 18 B 404 THR PRO VAL TYR VAL GLY PHE GLY SER SER SER ARG PRO SEQRES 19 B 404 ALA THR ALA ASP ALA ALA LYS MET ALA ILE LYS ALA VAL SEQRES 20 B 404 ARG ALA SER GLY ARG ARG ILE VAL LEU SER ARG GLY TRP SEQRES 21 B 404 ALA ASP LEU VAL LEU PRO ASP ASP GLY ALA ASP CYS PHE SEQRES 22 B 404 VAL VAL GLY GLU VAL ASN LEU GLN GLU LEU PHE GLY ARG SEQRES 23 B 404 VAL ALA ALA ALA ILE HIS HIS ASP SER ALA GLY THR THR SEQRES 24 B 404 LEU LEU ALA MET ARG ALA GLY ILE PRO GLN ILE VAL VAL SEQRES 25 B 404 ARG ARG VAL VAL ASP ASN VAL VAL GLU GLN ALA TYR HIS SEQRES 26 B 404 ALA ASP ARG VAL ALA GLU LEU GLY VAL GLY VAL ALA VAL SEQRES 27 B 404 ASP GLY PRO VAL PRO THR ILE ASP SER LEU SER ALA ALA SEQRES 28 B 404 LEU ASP THR ALA LEU ALA PRO GLU ILE ARG ALA ARG ALA SEQRES 29 B 404 THR THR VAL ALA ASP THR ILE ARG ALA ASP GLY THR THR SEQRES 30 B 404 VAL ALA ALA GLN LEU LEU PHE ASP ALA VAL SER LEU GLU SEQRES 31 B 404 LYS PRO THR VAL PRO ALA LEU GLU HIS HIS HIS HIS HIS SEQRES 32 B 404 HIS SEQRES 1 C 7 MLU OMZ ASN GHP GHP OMY 3FG SEQRES 1 D 7 MLU OMZ ASN GHP GHP OMY 3FG HET MLU C 1 9 HET OMZ C 2 14 HET GHP C 4 11 HET GHP C 5 11 HET OMY C 6 14 HET 3FG C 7 13 HET MLU D 1 9 HET OMZ D 2 14 HET GHP D 4 11 HET GHP D 5 11 HET OMY D 6 14 HET 3FG D 7 13 HET TYD A 406 25 HET BGC C 8 11 HET BGC D 8 11 HETNAM MLU N-METHYL-D-LEUCINE HETNAM OMZ (BETAR)-3-CHLORO-BETA-HYDROXY-D-TYROSINE HETNAM GHP (2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID HETNAM OMY (BETAR)-3-CHLORO-BETA-HYDROXY-L-TYROSINE HETNAM 3FG (2S)-AMINO(3,5-DIHYDROXYPHENYL)ETHANOIC ACID HETNAM TYD THYMIDINE-5'-DIPHOSPHATE HETNAM BGC BETA-D-GLUCOPYRANOSE FORMUL 3 MLU 2(C7 H15 N O2) FORMUL 3 OMZ 2(C9 H10 CL N O4) FORMUL 3 GHP 4(C8 H9 N O3) FORMUL 3 OMY 2(C9 H10 CL N O4) FORMUL 3 3FG 2(C8 H9 N O4) FORMUL 5 TYD C10 H16 N2 O11 P2 FORMUL 6 BGC 2(C6 H12 O6) FORMUL 8 HOH *162(H2 O) HELIX 1 1 SER A 10 LEU A 27 1 18 HELIX 2 2 PRO A 36 ASP A 38 5 3 HELIX 3 3 TYR A 39 GLY A 47 1 9 HELIX 4 4 ARG A 58 ARG A 62 5 5 HELIX 5 5 ALA A 71 GLU A 73 5 3 HELIX 6 6 VAL A 74 GLU A 91 1 18 HELIX 7 7 LEU A 101 GLY A 116 1 16 HELIX 8 8 SER A 125 LEU A 129 5 5 HELIX 9 9 LEU A 129 GLN A 133 5 5 HELIX 10 10 SER A 134 PHE A 149 1 16 HELIX 11 11 PHE A 149 SER A 159 1 11 HELIX 12 12 HIS A 167 THR A 174 1 8 HELIX 13 13 SER A 210 LEU A 217 1 8 HELIX 14 14 PRO A 234 SER A 250 1 17 HELIX 15 15 ASN A 279 GLY A 285 1 7 HELIX 16 16 SER A 295 GLY A 306 1 12 HELIX 17 17 ALA A 323 LEU A 332 1 10 HELIX 18 18 THR A 344 LEU A 356 1 13 HELIX 19 19 GLU A 359 ALA A 368 1 10 HELIX 20 20 ASP A 369 ILE A 371 5 3 HELIX 21 21 ASP A 374 LYS A 391 1 18 HELIX 22 22 SER B 10 LEU B 27 1 18 HELIX 23 23 PRO B 36 ASP B 38 5 3 HELIX 24 24 TYR B 39 GLY B 47 1 9 HELIX 25 25 ARG B 58 ARG B 62 5 5 HELIX 26 26 ALA B 71 GLU B 73 5 3 HELIX 27 27 VAL B 74 VAL B 86 1 13 HELIX 28 28 VAL B 86 GLU B 91 1 6 HELIX 29 29 LEU B 101 LEU B 115 1 15 HELIX 30 30 SER B 125 LEU B 129 5 5 HELIX 31 31 LEU B 129 GLN B 133 5 5 HELIX 32 32 SER B 134 SER B 159 1 26 HELIX 33 33 HIS B 167 THR B 174 1 8 HELIX 34 34 ARG B 189 LEU B 193 5 5 HELIX 35 35 SER B 210 ALA B 219 1 10 HELIX 36 36 ARG B 233 SER B 250 1 18 HELIX 37 37 ASN B 279 PHE B 284 1 6 HELIX 38 38 GLY B 285 VAL B 287 5 3 HELIX 39 39 SER B 295 ARG B 304 1 10 HELIX 40 40 ALA B 323 LEU B 332 1 10 HELIX 41 41 THR B 344 LEU B 356 1 13 HELIX 42 42 ALA B 357 ASP B 369 1 13 HELIX 43 43 ASP B 374 GLU B 390 1 17 SHEET 1 AA 6 MET A 50 PRO A 52 0 SHEET 2 AA 6 ASP A 30 LEU A 35 1 O MET A 33 N VAL A 51 SHEET 3 AA 6 ARG A 2 CYS A 8 1 O VAL A 3 N ARG A 32 SHEET 4 AA 6 ALA A 95 GLY A 100 1 O ALA A 95 N LEU A 4 SHEET 5 AA 6 TYR A 119 VAL A 123 1 O ARG A 120 N THR A 98 SHEET 6 AA 6 TRP A 178 LEU A 179 1 O TRP A 178 N VAL A 123 SHEET 1 AB 6 VAL A 274 VAL A 275 0 SHEET 2 AB 6 ILE A 254 SER A 257 1 O LEU A 256 N VAL A 275 SHEET 3 AB 6 VAL A 224 GLY A 227 1 O VAL A 224 N VAL A 255 SHEET 4 AB 6 ALA A 290 HIS A 293 1 O ILE A 291 N GLY A 227 SHEET 5 AB 6 GLN A 309 VAL A 312 1 O ILE A 310 N HIS A 292 SHEET 6 AB 6 GLY A 335 VAL A 338 1 O VAL A 336 N VAL A 311 SHEET 1 BA 6 MET B 50 PRO B 52 0 SHEET 2 BA 6 ASP B 30 LEU B 35 1 O MET B 33 N VAL B 51 SHEET 3 BA 6 ARG B 2 CYS B 8 1 O VAL B 3 N ARG B 32 SHEET 4 BA 6 ALA B 95 GLY B 100 1 O ALA B 95 N LEU B 4 SHEET 5 BA 6 TYR B 119 VAL B 123 1 O ARG B 120 N THR B 98 SHEET 6 BA 6 TRP B 178 LEU B 179 1 O TRP B 178 N VAL B 123 SHEET 1 BB 6 CYS B 272 VAL B 275 0 SHEET 2 BB 6 ILE B 254 SER B 257 1 O ILE B 254 N PHE B 273 SHEET 3 BB 6 VAL B 224 GLY B 227 1 O VAL B 224 N VAL B 255 SHEET 4 BB 6 ALA B 290 HIS B 293 1 O ILE B 291 N GLY B 227 SHEET 5 BB 6 GLN B 309 ARG B 313 1 O ILE B 310 N HIS B 292 SHEET 6 BB 6 GLY B 335 ASP B 339 1 O VAL B 336 N VAL B 311 LINK C MLU C 1 N OMZ C 2 1555 1555 1.36 LINK C OMZ C 2 N ASN C 3 1555 1555 1.37 LINK OH OMZ C 2 C5 GHP C 4 1555 1555 1.40 LINK C ASN C 3 N GHP C 4 1555 1555 1.34 LINK C GHP C 4 N GHP C 5 1555 1555 1.36 LINK C3 GHP C 4 OCZ OMY C 6 1555 1555 1.44 LINK O4 GHP C 4 C1 BGC C 8 1555 1555 1.43 LINK C GHP C 5 N OMY C 6 1555 1555 1.36 LINK C3 GHP C 5 CG1 3FG C 7 1555 1555 1.51 LINK C OMY C 6 N 3FG C 7 1555 1555 1.34 LINK C MLU D 1 N OMZ D 2 1555 1555 1.34 LINK C OMZ D 2 N ASN D 3 1555 1555 1.36 LINK OH OMZ D 2 C5 GHP D 4 1555 1555 1.41 LINK C ASN D 3 N GHP D 4 1555 1555 1.32 LINK C GHP D 4 N GHP D 5 1555 1555 1.34 LINK C3 GHP D 4 OCZ OMY D 6 1555 1555 1.41 LINK O4 GHP D 4 C1 BGC D 8 1555 1555 1.43 LINK C GHP D 5 N OMY D 6 1555 1555 1.33 LINK C3 GHP D 5 CG1 3FG D 7 1555 1555 1.53 LINK C OMY D 6 N 3FG D 7 1555 1555 1.34 CISPEP 1 GLY A 340 PRO A 341 0 0.02 CISPEP 2 GHP C 5 OMY C 6 0 0.64 CISPEP 3 GHP D 5 OMY D 6 0 3.62 CRYST1 152.500 152.500 98.740 90.00 90.00 120.00 P 32 2 1 12 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 0.006557 0.003786 0.000000 0.00000 SCALE2 0.000000 0.007572 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010128 0.00000