HEADER TRANSFERASE/ANTIBIOTIC 13-JUN-03 1PNV TITLE CRYSTAL STRUCTURE OF TDP-EPI-VANCOSAMINYLTRANSFERASE GTFA IN COMPLEXES TITLE 2 WITH TDP AND VANCOMYCIN 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: VANCOMYCIN; COMPND 7 CHAIN: C 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, ANTIBIOTIC, KEYWDS 2 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 5 29-JUL-20 1PNV 1 COMPND REMARK SEQADV SEQRES REVDAT 5 2 1 HETNAM LINK SITE ATOM REVDAT 4 27-JUL-11 1PNV 1 REMARK REVDAT 3 13-JUL-11 1PNV 1 VERSN REVDAT 2 24-FEB-09 1PNV 1 VERSN REVDAT 1 12-AUG-03 1PNV 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)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 31440 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) : 0.221 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1382 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 : 5651 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 86 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.80 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) : 0.36 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 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) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.370 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.040 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 1PNV 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_1000019451. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-NOV-02 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 : APS REMARK 200 BEAMLINE : 5ID-B 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 : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36772 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07200 REMARK 200 FOR THE DATA SET : 12.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.23600 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, RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.98 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 67.09333 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 33.54667 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 33.54667 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 67.09333 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 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: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 IS A TRICYCLIC GLYCOPEPTIDE. THE SCAFFOLD IS REMARK 400 A HEPTAPEPTIDE WITH THE CONFIGURATION D-D-L-D-D-L-L. IT IS REMARK 400 FURTHER GLYCOSYLATED BY A DISACCHARIDE MADE OF D-GLUCOSE REMARK 400 AND VANCOSAMINE. REMARK 400 HERE, VANCOMYCIN IS REPRESENTED BY GROUPING TOUGHER THE REMARK 400 SEQUENCE (SEQRES) AND THE TWO LIGANDS (HET) BGC AND RER. REMARK 400 REMARK 400 THE VANCOMYCIN IS GLYCOPEPTIDE, A MEMBER OF ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: VANCOMYCIN REMARK 400 CHAIN: C, D REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 COMPONENT_2: RESIDUE BGC REMARK 400 COMPONENT_3: RESIDUE RER REMARK 400 DESCRIPTION: VANCOMYCIN IS A TRICYCLIC GLYCOPEPTIDE, GLYCOSYLATED REMARK 400 BY A DISACCHARIDE (RESIDUES 8 AND 9) 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 VAL A 316 REMARK 465 ASP A 317 REMARK 465 ASN A 318 REMARK 465 VAL A 319 REMARK 465 VAL A 320 REMARK 465 GLU A 321 REMARK 465 GLN A 322 REMARK 465 ALA A 323 REMARK 465 LYS A 391 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 GLU A 41 CG CD OE1 OE2 REMARK 470 GLN A 143 CG CD OE1 NE2 REMARK 470 ARG A 147 CG CD NE CZ NH1 NH2 REMARK 470 SER A 159 OG 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 ASP A 268 CG OD1 OD2 REMARK 470 ARG A 314 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 346 CG OD1 OD2 REMARK 470 ARG B 2 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 45 CG CD OE1 OE2 REMARK 470 GLU B 63 CG CD OE1 OE2 REMARK 470 LYS B 85 CD CE NZ 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 CG CD OE1 OE2 REMARK 470 LYS B 241 CG CD CE NZ REMARK 470 ASP B 267 CG OD1 OD2 REMARK 470 ARG B 314 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 315 CG1 CG2 REMARK 470 TYR B 324 CG CD1 CD2 CE1 CE2 CZ OH 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 SER A 10 -176.82 -61.57 REMARK 500 PRO A 37 -28.17 -34.69 REMARK 500 VAL A 75 -52.87 -17.03 REMARK 500 LEU A 101 105.82 -40.89 REMARK 500 ASP A 127 9.04 -68.54 REMARK 500 GLN A 135 35.79 -68.18 REMARK 500 THR A 174 162.01 68.56 REMARK 500 ASP A 175 4.42 -69.41 REMARK 500 GLN A 176 67.50 -165.26 REMARK 500 PRO A 190 4.55 -53.49 REMARK 500 ASP A 192 39.02 -146.83 REMARK 500 THR A 195 151.06 -32.99 REMARK 500 PRO A 204 108.73 -47.64 REMARK 500 ALA A 219 54.33 -69.01 REMARK 500 SER A 230 0.93 -69.26 REMARK 500 SER A 232 16.70 -140.27 REMARK 500 ARG A 313 172.31 -59.14 REMARK 500 LEU A 389 -70.90 -45.35 REMARK 500 ASP B 38 16.89 -60.60 REMARK 500 GLU B 45 5.76 -67.19 REMARK 500 ALA B 61 12.68 -64.01 REMARK 500 PRO B 64 -78.73 -13.07 REMARK 500 GLU B 73 8.78 -63.56 REMARK 500 VAL B 74 20.17 -145.34 REMARK 500 GLU B 91 -80.71 -53.00 REMARK 500 LEU B 101 114.60 -22.13 REMARK 500 SER B 159 14.17 -57.06 REMARK 500 ILE B 160 -0.30 -152.23 REMARK 500 HIS B 167 59.02 72.58 REMARK 500 THR B 174 155.05 79.25 REMARK 500 ALA B 219 15.83 -61.20 REMARK 500 ALA B 270 8.67 -53.86 REMARK 500 TYR B 324 -77.72 -50.43 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: 1PN3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TDP-EPI-VANCOSAMINYLTRANSFERASE GTFA COMPLEXD REMARK 900 WITH TDP AND DESVANCOSAMINYL 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 1PNV A 1 396 UNP P96558 P96558_AMYOR 1 396 DBREF 1PNV A 397 404 PDB 1PNV 1PNV 397 404 DBREF 1PNV B 1 396 UNP P96558 P96558_AMYOR 1 396 DBREF 1PNV B 397 404 PDB 1PNV 1PNV 397 404 DBREF 1PNV C 1 7 NOR NOR00681 NOR00681 1 7 SEQADV 1PNV LEU A 397 UNP P96558 EXPRESSION TAG SEQADV 1PNV GLU A 398 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS A 399 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS A 400 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS A 401 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS A 402 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS A 403 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS A 404 UNP P96558 EXPRESSION TAG SEQADV 1PNV LEU B 397 UNP P96558 EXPRESSION TAG SEQADV 1PNV GLU B 398 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS B 399 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS B 400 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS B 401 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS B 402 UNP P96558 EXPRESSION TAG SEQADV 1PNV HIS B 403 UNP P96558 EXPRESSION TAG SEQADV 1PNV 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 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 BGC D 1 11 HET RER D 2 10 HET TYD A 405 25 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 BGC BETA-D-GLUCOPYRANOSE HETNAM RER VANCOSAMINE HETNAM TYD THYMIDINE-5'-DIPHOSPHATE HETSYN RER VANCOSAMINE FORMUL 3 MLU C7 H15 N O2 FORMUL 3 OMZ C9 H10 CL N O4 FORMUL 3 GHP 2(C8 H9 N O3) FORMUL 3 OMY C9 H10 CL N O4 FORMUL 3 3FG C8 H9 N O4 FORMUL 4 BGC C6 H12 O6 FORMUL 4 RER C7 H15 N O3 FORMUL 5 TYD C10 H16 N2 O11 P2 FORMUL 6 HOH *86(H2 O) HELIX 1 1 SER A 10 GLY A 28 1 19 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 VAL A 74 GLU A 91 1 18 HELIX 6 6 LEU A 101 GLY A 116 1 16 HELIX 7 7 SER A 125 LEU A 129 5 5 HELIX 8 8 LEU A 129 GLN A 133 5 5 HELIX 9 9 ALA A 136 PHE A 149 1 14 HELIX 10 10 PHE A 149 ILE A 160 1 12 HELIX 11 11 HIS A 167 THR A 174 1 8 HELIX 12 12 SER A 210 ALA A 219 1 10 HELIX 13 13 PRO A 234 SER A 250 1 17 HELIX 14 14 ASN A 279 PHE A 284 1 6 HELIX 15 15 GLY A 285 VAL A 287 5 3 HELIX 16 16 SER A 295 ARG A 304 1 10 HELIX 17 17 TYR A 324 LEU A 332 1 9 HELIX 18 18 THR A 344 LEU A 356 1 13 HELIX 19 19 ALA A 357 ALA A 368 1 12 HELIX 20 20 ASP A 374 GLU A 390 1 17 HELIX 21 21 SER B 10 LEU B 27 1 18 HELIX 22 22 PRO B 36 ASP B 38 5 3 HELIX 23 23 TYR B 39 GLU B 45 1 7 HELIX 24 24 ALA B 71 GLU B 73 5 3 HELIX 25 25 VAL B 74 ILE B 90 1 17 HELIX 26 26 LEU B 101 LEU B 115 1 15 HELIX 27 27 SER B 125 LEU B 129 5 5 HELIX 28 28 LEU B 129 GLN B 133 5 5 HELIX 29 29 SER B 134 SER B 159 1 26 HELIX 30 30 HIS B 167 THR B 174 1 8 HELIX 31 31 SER B 210 ALA B 219 1 10 HELIX 32 32 ARG B 233 SER B 250 1 18 HELIX 33 33 ASN B 279 GLY B 285 1 7 HELIX 34 34 SER B 295 GLY B 306 1 12 HELIX 35 35 ALA B 323 LEU B 332 1 10 HELIX 36 36 THR B 344 LEU B 356 1 13 HELIX 37 37 ALA B 357 ASP B 369 1 13 HELIX 38 38 ASP B 374 LYS B 391 1 18 SHEET 1 AA 7 MET A 50 PRO A 52 0 SHEET 2 AA 7 ASP A 30 LEU A 35 1 O MET A 33 N VAL A 51 SHEET 3 AA 7 ARG A 2 CYS A 8 1 O VAL A 3 N ARG A 32 SHEET 4 AA 7 ALA A 95 GLY A 100 1 O ALA A 95 N LEU A 4 SHEET 5 AA 7 TYR A 119 VAL A 123 1 O ARG A 120 N THR A 98 SHEET 6 AA 7 TRP A 178 LEU A 179 1 O TRP A 178 N VAL A 123 SHEET 7 AA 7 VAL A 196 GLN A 197 1 O VAL A 196 N LEU A 179 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 289 HIS A 292 1 O ALA A 289 N TYR A 225 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 VAL B 312 1 O ILE B 310 N HIS B 292 SHEET 6 BB 6 GLY B 335 VAL B 336 1 O VAL B 336 N VAL B 311 LINK C MLU C 1 N OMZ C 2 1555 1555 1.35 LINK C OMZ C 2 N ASN C 3 1555 1555 1.36 LINK OH OMZ C 2 C5 GHP C 4 1555 1555 1.41 LINK C ASN C 3 N GHP C 4 1555 1555 1.31 LINK C GHP C 4 N GHP C 5 1555 1555 1.34 LINK C3 GHP C 4 OCZ OMY C 6 1555 1555 1.42 LINK O4 GHP C 4 C1 BGC D 1 1555 1555 1.43 LINK C GHP C 5 N OMY C 6 1555 1555 1.34 LINK C3 GHP C 5 CG1 3FG C 7 1555 1555 1.52 LINK C OMY C 6 N 3FG C 7 1555 1555 1.35 LINK O2 BGC D 1 C1 RER D 2 1555 1555 1.44 CISPEP 1 GLY A 340 PRO A 341 0 0.09 CISPEP 2 GHP C 5 OMY C 6 0 2.23 CRYST1 153.170 153.170 100.640 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 0.006529 0.003769 0.000000 0.00000 SCALE2 0.000000 0.007539 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009936 0.00000