HEADER SUGAR BINDING PROTEIN/ANTIBIOTIC 09-JAN-12 3VFJ TITLE THE STRUCTURE OF MONODECHLORO-TEICOPLANIN IN COMPLEX WITH ITS LIGAND, TITLE 2 USING MBP AS A LIGAND CARRIER COMPND MOL_ID: 1; COMPND 2 MOLECULE: MALTOSE-BINDING PERIPLASMIC PROTEIN, C-TERMINAL FUSED BY COMPND 3 CYS-LYS-D-ALA-D-ALA; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: MBP, MMBP, MALTODEXTRIN-BINDING PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: MONODECHLORO- TEICOPLANIN A2-2; COMPND 9 CHAIN: G SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: MALE, B4034, JW3994; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: ACTINOPLANES TEICHOMYCETICUS; SOURCE 10 ORGANISM_TAXID: 1867 KEYWDS TEICOPLANIN, ACETYLATION OF CYTEINE WITH IODOACETATE MODIFICATION, KEYWDS 2 SUGAR BINDING PROTEIN-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.J.ECONOMOU,S.D.WEEKS,K.C.GRASTY,P.J.LOLL REVDAT 8 29-JUL-20 3VFJ 1 COMPND REMARK SEQADV SEQRES REVDAT 8 2 1 HETNAM LINK SITE REVDAT 7 10-DEC-14 3VFJ 1 REMARK REVDAT 6 19-JUN-13 3VFJ 1 JRNL REVDAT 5 03-APR-13 3VFJ 1 REMARK SITE REVDAT 4 27-MAR-13 3VFJ 1 LINK REMARK SITE JRNL REVDAT 3 13-MAR-13 3VFJ 1 HETATM REVDAT 2 06-MAR-13 3VFJ 1 HETATM REVDAT 1 09-JAN-13 3VFJ 0 JRNL AUTH N.J.ECONOMOU,I.J.ZENTNER,E.LAZO,J.JAKONCIC,V.STOJANOFF, JRNL AUTH 2 S.D.WEEKS,K.C.GRASTY,S.COCKLIN,P.J.LOLL JRNL TITL STRUCTURE OF THE COMPLEX BETWEEN TEICOPLANIN AND A BACTERIAL JRNL TITL 2 CELL-WALL PEPTIDE: USE OF A CARRIER-PROTEIN APPROACH. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 69 520 2013 JRNL REFN ISSN 0907-4449 JRNL PMID 23519660 JRNL DOI 10.1107/S0907444912050469 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.2_432 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.89 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 47469 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 2385 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 39.9078 - 4.4148 1.00 4518 226 0.1831 0.2008 REMARK 3 2 4.4148 - 3.5048 1.00 4512 256 0.1622 0.2055 REMARK 3 3 3.5048 - 3.0620 1.00 4501 237 0.1743 0.2085 REMARK 3 4 3.0620 - 2.7821 1.00 4528 221 0.1915 0.2560 REMARK 3 5 2.7821 - 2.5827 1.00 4493 266 0.1984 0.2802 REMARK 3 6 2.5827 - 2.4305 1.00 4538 221 0.2021 0.2287 REMARK 3 7 2.4305 - 2.3088 1.00 4527 210 0.1968 0.2625 REMARK 3 8 2.3088 - 2.2083 1.00 4476 246 0.2132 0.2542 REMARK 3 9 2.2083 - 2.1233 1.00 4471 248 0.2247 0.2746 REMARK 3 10 2.1233 - 2.0500 1.00 4520 254 0.2567 0.3095 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.39 REMARK 3 B_SOL : 41.66 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.130 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) : 0.67580 REMARK 3 B22 (A**2) : -4.73900 REMARK 3 B33 (A**2) : 4.06320 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.006 3136 REMARK 3 ANGLE : 1.045 4271 REMARK 3 CHIRALITY : 0.067 461 REMARK 3 PLANARITY : 0.008 551 REMARK 3 DIHEDRAL : 11.954 1153 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 3VFJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1000069981. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : SI(111)SIDE BOUNCE MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47482 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 39.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL 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 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M ZINC ACETATE, 0.1 M SODIUM REMARK 280 CACODYLATE 6.5, 16% PEG8000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K, PH 6.5 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 78.37000 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 78.37000 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 20.16000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 61.80500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 20.16000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 61.80500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 78.37000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 20.16000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 61.80500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 78.37000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 20.16000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 61.80500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -154.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, G 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 ZN ZN A 403 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 AUTHORS STATED THE FOLLOWING: THE STARTING MATERIAL HAD TEICOPLANIN REMARK 400 A2-2 THAT CONTAINED TWO CHLORINE ATOMS. THE ACTUAL CRYSTALS REMARK 400 CONTAINED BOTH CHLORINE ATOMS BEFORE THEY WERE EXPOSED TO X-RAYS. REMARK 400 ONE CHLORINE WAS REMOVED FROM TEICOPLANIN BY X-IRRADIATION DAMAGE REMARK 400 EARLY IN THE DIFFRACTION EXPERIMENT TEICOPLANIN IS A FAMILY OF REMARK 400 TETRACYCLIC GLYCOPEPTIDE ANTIBIOTICS. THE SCAFFOLD IS A REMARK 400 HEPTAPEPTIDE FURTHER GLYCOSYLATED BY THREE MONO SACCHARIDES: REMARK 400 MANNOSE, N-ACETYLGLUCOSAMINE AND BETA-D-GLUCOSAMINE AND ONLY DIFFER REMARK 400 BY THE SIDE CHAIN ATTACHED TO THE LATTER. TEICOPLANIN A2-2 HAS 8- REMARK 400 METHYLNONANOIC ACID ATTACHED TO GLUCOSAMINE. HERE, TEICOPLANIN A2-2 REMARK 400 WAS UNDER RADIATION DAMAGE, WHICH CAUSES THE LOSS OF ONE CHLORINE REMARK 400 ATOM. REMARK 400 REMARK 400 THE MONODECHLORO- TEICOPLANIN A2-2 IS GLYCOPEPTIDE, A MEMBER OF REMARK 400 ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: MONODECHLORO- TEICOPLANIN A2-2 REMARK 400 CHAIN: G REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 COMPONENT_2: RESIDUE GCS REMARK 400 COMPONENT_3: RESIDUE MAN REMARK 400 COMPONENT_4: RESIDUE NAG REMARK 400 COMPONENT_5: RESIDUE T55 REMARK 400 DESCRIPTION: NULL 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 MET A 0 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 ASP A 55 -169.09 -115.26 REMARK 500 ILE A 108 -54.66 -121.11 REMARK 500 LEU A 122 76.77 -154.21 REMARK 500 ASP A 209 -167.98 -119.08 REMARK 500 3FG G 3 -31.16 -137.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 407 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 39 ND1 REMARK 620 2 HIS A 39 O 84.5 REMARK 620 3 HOH A 594 O 100.4 82.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 65 OD2 REMARK 620 2 ASP A 65 OD1 52.9 REMARK 620 3 HOH A 547 O 87.3 137.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 111 OE2 REMARK 620 2 ACT A 410 OXT 119.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 405 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 172 OE1 REMARK 620 2 ASP A 177 OD2 124.4 REMARK 620 3 HOH A 614 O 107.3 92.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 406 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 203 NE2 REMARK 620 2 HOH A 533 O 92.7 REMARK 620 3 HOH A 615 O 125.9 98.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 288 OE2 REMARK 620 2 GLU A 288 OE1 53.2 REMARK 620 3 GLU A 291 OE1 99.8 81.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 404 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 359 OE1 REMARK 620 2 ASP A 363 OD1 103.4 REMARK 620 3 ASP A 363 OD2 128.8 49.7 REMARK 620 4 HOH A 621 O 143.2 104.4 59.7 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JW4 RELATED DB: PDB REMARK 900 NATIVE MBP STRUCTURE USED FOR MOLECULAR REPLACEMENT REMARK 900 RELATED ID: 3RUN RELATED DB: PDB REMARK 900 SAME CRYSTALLOGRAPHIC STRATEGY: VANCOMYCIN BOUND TO A T4 LYSOZYME- REMARK 900 SUBSTRATE FUSION REMARK 900 RELATED ID: 3RUL RELATED DB: PDB REMARK 900 SAME CRYSTALLOGRAPHIC STRATEGY: DALBAVANCIN BOUND TO THE SAME REMARK 900 UBIQUITIN FUSION REMARK 900 RELATED ID: 3RUM RELATED DB: PDB REMARK 900 SAME CRYSTALLOGRAPHIC STRATEGY: RISTOCETIN BOUND TO A MBP-SUBSTRATE REMARK 900 FUSION REMARK 900 RELATED ID: 3VFK RELATED DB: PDB REMARK 900 THE STRUCTURE OF MONODECHLORO-TEICOPLANIN IN COMPLEX WITH ITS REMARK 900 LIGAND, USING UBIQUITIN AS A LIGAND CARRIER REMARK 999 REMARK 999 SEQUENCE REMARK 999 C-TERMINAL FUSED BY LINKER AND MODIFIED CYS-LYS-D-ALA-D-ALA DBREF 3VFJ A 1 366 UNP P0AEX9 MALE_ECOLI 27 392 DBREF 3VFJ G 1 7 PDB 3VFJ 3VFJ 1 7 SEQADV 3VFJ MET A 0 UNP P0AEX9 EXPRESSION TAG SEQADV 3VFJ ASN A 367 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ ALA A 368 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ ALA A 369 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ ALA A 370 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ ALA A 371 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ ALA A 372 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ GLY A 373 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ CCS A 374 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ LYS A 375 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ DAL A 376 UNP P0AEX9 SEE REMARK 999 SEQADV 3VFJ DAL A 377 UNP P0AEX9 SEE REMARK 999 SEQRES 1 A 378 MET LYS ILE GLU GLU GLY LYS LEU VAL ILE TRP ILE ASN SEQRES 2 A 378 GLY ASP LYS GLY TYR ASN GLY LEU ALA GLU VAL GLY LYS SEQRES 3 A 378 LYS PHE GLU LYS ASP THR GLY ILE LYS VAL THR VAL GLU SEQRES 4 A 378 HIS PRO ASP LYS LEU GLU GLU LYS PHE PRO GLN VAL ALA SEQRES 5 A 378 ALA THR GLY ASP GLY PRO ASP ILE ILE PHE TRP ALA HIS SEQRES 6 A 378 ASP ARG PHE GLY GLY TYR ALA GLN SER GLY LEU LEU ALA SEQRES 7 A 378 GLU ILE THR PRO ASP LYS ALA PHE GLN ASP LYS LEU TYR SEQRES 8 A 378 PRO PHE THR TRP ASP ALA VAL ARG TYR ASN GLY LYS LEU SEQRES 9 A 378 ILE ALA TYR PRO ILE ALA VAL GLU ALA LEU SER LEU ILE SEQRES 10 A 378 TYR ASN LYS ASP LEU LEU PRO ASN PRO PRO LYS THR TRP SEQRES 11 A 378 GLU GLU ILE PRO ALA LEU ASP LYS GLU LEU LYS ALA LYS SEQRES 12 A 378 GLY LYS SER ALA LEU MET PHE ASN LEU GLN GLU PRO TYR SEQRES 13 A 378 PHE THR TRP PRO LEU ILE ALA ALA ASP GLY GLY TYR ALA SEQRES 14 A 378 PHE LYS TYR GLU ASN GLY LYS TYR ASP ILE LYS ASP VAL SEQRES 15 A 378 GLY VAL ASP ASN ALA GLY ALA LYS ALA GLY LEU THR PHE SEQRES 16 A 378 LEU VAL ASP LEU ILE LYS ASN LYS HIS MET ASN ALA ASP SEQRES 17 A 378 THR ASP TYR SER ILE ALA GLU ALA ALA PHE ASN LYS GLY SEQRES 18 A 378 GLU THR ALA MET THR ILE ASN GLY PRO TRP ALA TRP SER SEQRES 19 A 378 ASN ILE ASP THR SER LYS VAL ASN TYR GLY VAL THR VAL SEQRES 20 A 378 LEU PRO THR PHE LYS GLY GLN PRO SER LYS PRO PHE VAL SEQRES 21 A 378 GLY VAL LEU SER ALA GLY ILE ASN ALA ALA SER PRO ASN SEQRES 22 A 378 LYS GLU LEU ALA LYS GLU PHE LEU GLU ASN TYR LEU LEU SEQRES 23 A 378 THR ASP GLU GLY LEU GLU ALA VAL ASN LYS ASP LYS PRO SEQRES 24 A 378 LEU GLY ALA VAL ALA LEU LYS SER TYR GLU GLU GLU LEU SEQRES 25 A 378 ALA LYS ASP PRO ARG ILE ALA ALA THR MET GLU ASN ALA SEQRES 26 A 378 GLN LYS GLY GLU ILE MET PRO ASN ILE PRO GLN MET SER SEQRES 27 A 378 ALA PHE TRP TYR ALA VAL ARG THR ALA VAL ILE ASN ALA SEQRES 28 A 378 ALA SER GLY ARG GLN THR VAL ASP GLU ALA LEU LYS ASP SEQRES 29 A 378 ALA GLN THR ASN ALA ALA ALA ALA ALA GLY CCS LYS DAL SEQRES 30 A 378 DAL SEQRES 1 G 7 GHP 3MY 3FG GHP GHP OMX 3FG HET CCS A 374 10 HET DAL A 376 5 HET DAL A 377 6 HET GHP G 1 11 HET 3MY G 2 13 HET 3FG G 3 12 HET GHP G 4 11 HET GHP G 5 11 HET OMX G 6 13 HET 3FG G 7 13 HET ZN A 401 1 HET ZN A 402 1 HET ZN A 403 1 HET ZN A 404 1 HET ZN A 405 1 HET ZN A 406 1 HET ZN A 407 1 HET ZN A 408 1 HET ACT A 409 4 HET ACT A 410 4 HET CAC A 411 5 HET GCS G 8 11 HET T55 G 9 11 HET NAG G 10 14 HET MAN G 11 11 HET CAC G 104 5 HETNAM CCS CARBOXYMETHYLATED CYSTEINE HETNAM DAL D-ALANINE HETNAM GHP (2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID HETNAM 3MY 3-CHLORO-D-TYROSINE HETNAM 3FG (2S)-AMINO(3,5-DIHYDROXYPHENYL)ETHANOIC ACID HETNAM OMX (BETAR)-BETA-HYDROXY-L-TYROSINE HETNAM ZN ZINC ION HETNAM ACT ACETATE ION HETNAM CAC CACODYLATE ION HETNAM GCS 2-AMINO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM T55 8-METHYLNONANOIC ACID HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETSYN CAC DIMETHYLARSINATE HETSYN GCS 2-AMINO-2-DEOXY-D-GLUCOSE FORMUL 1 CCS C5 H9 N O4 S FORMUL 1 DAL 2(C3 H7 N O2) FORMUL 2 GHP 3(C8 H9 N O3) FORMUL 2 3MY C9 H10 CL N O3 FORMUL 2 3FG 2(C8 H9 N O4) FORMUL 2 OMX C9 H11 N O4 FORMUL 3 ZN 8(ZN 2+) FORMUL 11 ACT 2(C2 H3 O2 1-) FORMUL 13 CAC 2(C2 H6 AS O2 1-) FORMUL 14 GCS C6 H13 N O5 FORMUL 15 T55 C10 H20 O2 FORMUL 16 NAG C8 H15 N O6 FORMUL 17 MAN C6 H12 O6 FORMUL 19 HOH *155(H2 O) HELIX 1 1 GLY A 16 GLY A 32 1 17 HELIX 2 2 LYS A 42 ALA A 52 1 11 HELIX 3 3 ARG A 66 SER A 73 1 8 HELIX 4 4 ASP A 82 ASP A 87 1 6 HELIX 5 5 TYR A 90 ALA A 96 1 7 HELIX 6 6 GLU A 131 ALA A 141 1 11 HELIX 7 7 GLU A 153 ASP A 164 1 12 HELIX 8 8 ASN A 185 ASN A 201 1 17 HELIX 9 9 ASP A 209 LYS A 219 1 11 HELIX 10 10 GLY A 228 TRP A 230 5 3 HELIX 11 11 ALA A 231 LYS A 239 1 9 HELIX 12 12 ASN A 272 TYR A 283 1 12 HELIX 13 13 THR A 286 LYS A 297 1 12 HELIX 14 14 LEU A 304 ALA A 312 1 9 HELIX 15 15 ASP A 314 GLY A 327 1 14 HELIX 16 16 GLN A 335 SER A 352 1 18 HELIX 17 17 THR A 356 GLY A 373 1 18 SHEET 1 A 6 LYS A 34 GLU A 38 0 SHEET 2 A 6 LYS A 6 TRP A 10 1 N ILE A 9 O GLU A 38 SHEET 3 A 6 ILE A 59 ALA A 63 1 O ILE A 59 N TRP A 10 SHEET 4 A 6 PHE A 258 ILE A 266 -1 O GLY A 265 N ILE A 60 SHEET 5 A 6 TYR A 106 GLU A 111 -1 N ILE A 108 O LEU A 262 SHEET 6 A 6 ALA A 301 VAL A 302 -1 O ALA A 301 N VAL A 110 SHEET 1 B 5 LYS A 34 GLU A 38 0 SHEET 2 B 5 LYS A 6 TRP A 10 1 N ILE A 9 O GLU A 38 SHEET 3 B 5 ILE A 59 ALA A 63 1 O ILE A 59 N TRP A 10 SHEET 4 B 5 PHE A 258 ILE A 266 -1 O GLY A 265 N ILE A 60 SHEET 5 B 5 GLU A 328 ILE A 329 1 O GLU A 328 N VAL A 259 SHEET 1 C 2 ARG A 98 TYR A 99 0 SHEET 2 C 2 LYS A 102 LEU A 103 -1 O LYS A 102 N TYR A 99 SHEET 1 D 4 SER A 145 LEU A 147 0 SHEET 2 D 4 THR A 222 ASN A 227 1 O ALA A 223 N SER A 145 SHEET 3 D 4 SER A 114 ASN A 118 -1 N ASN A 118 O ALA A 223 SHEET 4 D 4 TYR A 242 THR A 245 -1 O THR A 245 N LEU A 115 SHEET 1 E 2 TYR A 167 GLU A 172 0 SHEET 2 E 2 LYS A 175 GLY A 182 -1 O LYS A 175 N GLU A 172 SHEET 1 F 2 THR A 249 PHE A 250 0 SHEET 2 F 2 GLN A 253 PRO A 254 -1 O GLN A 253 N PHE A 250 LINK C GLY A 373 N CCS A 374 1555 1555 1.33 LINK C CCS A 374 N LYS A 375 1555 1555 1.33 LINK C LYS A 375 N DAL A 376 1555 1555 1.33 LINK C DAL A 376 N DAL A 377 1555 1555 1.33 LINK C GHP G 1 N 3MY G 2 1555 1555 1.33 LINK C5 GHP G 1 OD1 3FG G 3 1555 1555 1.37 LINK C 3MY G 2 N 3FG G 3 1555 1555 1.33 LINK OBD 3MY G 2 C3 GHP G 4 1555 1555 1.38 LINK C 3FG G 3 N GHP G 4 1555 1555 1.33 LINK C GHP G 4 N GHP G 5 1555 1555 1.33 LINK C5 GHP G 4 OH OMX G 6 1555 1555 1.39 LINK O4 GHP G 4 C1 GCS G 8 1555 1555 1.38 LINK C GHP G 5 N OMX G 6 1555 1555 1.33 LINK C3 GHP G 5 CG1 3FG G 7 1555 1555 1.40 LINK C OMX G 6 N 3FG G 7 1555 1555 1.33 LINK OC OMX G 6 C1 NAG G 10 1555 1555 1.38 LINK OD1 3FG G 7 C1 MAN G 11 1555 1555 1.42 LINK N2 GCS G 8 C T55 G 9 1555 1555 1.40 LINK ND1 HIS A 39 ZN ZN A 407 1555 1555 2.21 LINK O HIS A 39 ZN ZN A 407 1555 1555 2.29 LINK OD2 ASP A 65 ZN ZN A 402 1555 1555 2.32 LINK OD1 ASP A 65 ZN ZN A 402 1555 1555 2.58 LINK OD2 ASP A 82 ZN ZN A 408 1555 1555 2.38 LINK OE2 GLU A 111 ZN ZN A 401 1555 1555 2.14 LINK OE1 GLU A 172 ZN ZN A 405 1555 1555 2.06 LINK OD2 ASP A 177 ZN ZN A 405 1555 1555 2.14 LINK NE2 HIS A 203 ZN ZN A 406 1555 1555 2.13 LINK OE2 GLU A 288 ZN ZN A 403 1555 1555 2.23 LINK OE1 GLU A 288 ZN ZN A 403 1555 1555 2.64 LINK OE1 GLU A 291 ZN ZN A 403 1555 1555 2.15 LINK OE1 GLU A 359 ZN ZN A 404 1555 1555 2.31 LINK OD1 ASP A 363 ZN ZN A 404 1555 1555 2.59 LINK OD2 ASP A 363 ZN ZN A 404 1555 1555 2.65 LINK ZN ZN A 401 OXT ACT A 410 1555 1555 2.09 LINK ZN ZN A 402 O HOH A 547 1555 1555 2.13 LINK ZN ZN A 404 O HOH A 621 1555 1555 2.39 LINK ZN ZN A 405 O HOH A 614 1555 1555 2.11 LINK ZN ZN A 406 O HOH A 533 1555 1555 2.31 LINK ZN ZN A 406 O HOH A 615 1555 1555 2.47 LINK ZN ZN A 407 O HOH A 594 1555 1555 2.19 CISPEP 1 GHP G 5 OMX G 6 0 3.88 CRYST1 40.320 123.610 156.740 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 0.024802 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008090 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006380 0.00000