HEADER ISOMERASE 01-JUL-14 4URN TITLE CRYSTAL STRUCTURE OF STAPH PARE 24KDA IN COMPLEX WITH NOVOBIOCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA TOPOISOMERASE IV, B SUBUNIT; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN, RESIDUES 1-225; COMPND 5 SYNONYM: PARE; COMPND 6 EC: 5.99.1.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PGEX-4T3 KEYWDS ISOMERASE, ANTIBIOTICS, GYRASE, NATURAL PRODUCT EXPDTA X-RAY DIFFRACTION AUTHOR J.LU,S.PATEL,N.SHARMA,S.SOISSON,R.KISHII,M.TAKEI,Y.FUKUDA,K.J.LUMB, AUTHOR 2 S.B.SINGH REVDAT 3 10-JAN-24 4URN 1 REMARK REVDAT 2 01-OCT-14 4URN 1 JRNL REVDAT 1 16-JUL-14 4URN 0 JRNL AUTH J.LU,S.PATEL,N.SHARMA,S.M.SOISSON,R.KISHII,M.TAKEI,Y.FUKUDA, JRNL AUTH 2 K.J.LUMB,S.B.SINGH JRNL TITL STRUCTURES OF KIBDELOMYCIN BOUND TO STAPHYLOCOCCUS AUREUS JRNL TITL 2 GYRB AND PARE SHOWED A NOVEL U-SHAPED BINDING MODE. JRNL REF ACS CHEM.BIOL. V. 9 2023 2014 JRNL REFN ISSN 1554-8929 JRNL PMID 24992706 JRNL DOI 10.1021/CB5001197 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.5 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 28173 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 + TEST SET) : 0.225 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1416 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 : 14 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.39 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.76 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2957 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2423 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2797 REMARK 3 BIN R VALUE (WORKING SET) : 0.2397 REMARK 3 BIN FREE R VALUE : 0.2853 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.41 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 160 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 : 4199 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 132 REMARK 3 SOLVENT ATOMS : 50 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.81 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.98060 REMARK 3 B22 (A**2) : 19.34650 REMARK 3 B33 (A**2) : -17.36590 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -5.15140 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.338 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.311 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.236 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.333 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.245 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.884 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.858 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4429 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 6002 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1552 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 111 ; 8.000 ; HARMONIC REMARK 3 GENERAL PLANES : 726 ; 8.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4429 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 577 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4869 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.23 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.06 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.34 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4URN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1290061137. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28285 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.460 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.32000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.460 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1S14 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15M AMMONIUM ACETATE, 0.075M TRIS PH REMARK 280 8.5 AND 19% PEG 3350, PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 57.83900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.66050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 57.83900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 37.66050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 1 REMARK 465 ALA A 2 REMARK 465 MET A 3 REMARK 465 ASN A 4 REMARK 465 LYS A 5 REMARK 465 GLN A 6 REMARK 465 ASN A 7 REMARK 465 ASN A 8 REMARK 465 TYR A 9 REMARK 465 SER A 10 REMARK 465 ASP A 11 REMARK 465 ASP A 12 REMARK 465 SER A 13 REMARK 465 ILE A 14 REMARK 465 GLN A 15 REMARK 465 VAL A 16 REMARK 465 HIS A 101 REMARK 465 ALA A 102 REMARK 465 GLY A 103 REMARK 465 GLY A 104 REMARK 465 LYS A 105 REMARK 465 PHE A 106 REMARK 465 GLY A 107 REMARK 465 GLN A 108 REMARK 465 GLY A 109 REMARK 465 GLY A 110 REMARK 465 TYR A 111 REMARK 465 LYS A 112 REMARK 465 THR A 113 REMARK 465 SER A 114 REMARK 465 GLY A 115 REMARK 465 GLY A 116 REMARK 465 LEU A 117 REMARK 465 HIS A 118 REMARK 465 GLY A 119 REMARK 465 GLU A 224 REMARK 465 GLU A 225 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 MET B 3 REMARK 465 ASN B 4 REMARK 465 LYS B 5 REMARK 465 GLN B 6 REMARK 465 ASN B 7 REMARK 465 ASN B 8 REMARK 465 TYR B 9 REMARK 465 SER B 10 REMARK 465 ASP B 11 REMARK 465 ASP B 12 REMARK 465 SER B 13 REMARK 465 ILE B 14 REMARK 465 GLN B 15 REMARK 465 VAL B 16 REMARK 465 LEU B 17 REMARK 465 GLU B 18 REMARK 465 GLY B 19 REMARK 465 LEU B 20 REMARK 465 GLU B 21 REMARK 465 ALA B 22 REMARK 465 VAL B 23 REMARK 465 ARG B 24 REMARK 465 LYS B 25 REMARK 465 ARG B 26 REMARK 465 PRO B 27 REMARK 465 GLY B 28 REMARK 465 MET B 29 REMARK 465 TYR B 30 REMARK 465 ILE B 31 REMARK 465 HIS B 101 REMARK 465 ALA B 102 REMARK 465 GLY B 103 REMARK 465 GLY B 104 REMARK 465 LYS B 105 REMARK 465 PHE B 106 REMARK 465 GLY B 107 REMARK 465 GLN B 108 REMARK 465 GLY B 109 REMARK 465 GLY B 110 REMARK 465 TYR B 111 REMARK 465 LYS B 112 REMARK 465 THR B 113 REMARK 465 SER B 114 REMARK 465 GLY B 115 REMARK 465 GLY B 116 REMARK 465 LEU B 117 REMARK 465 HIS B 118 REMARK 465 GLU B 224 REMARK 465 GLU B 225 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 MET C 3 REMARK 465 ASN C 4 REMARK 465 LYS C 5 REMARK 465 GLN C 6 REMARK 465 ASN C 7 REMARK 465 ASN C 8 REMARK 465 TYR C 9 REMARK 465 SER C 10 REMARK 465 ASP C 11 REMARK 465 ASP C 12 REMARK 465 SER C 13 REMARK 465 ILE C 14 REMARK 465 GLN C 15 REMARK 465 VAL C 16 REMARK 465 LEU C 17 REMARK 465 GLU C 18 REMARK 465 HIS C 101 REMARK 465 ALA C 102 REMARK 465 GLY C 103 REMARK 465 GLY C 104 REMARK 465 LYS C 105 REMARK 465 PHE C 106 REMARK 465 GLY C 107 REMARK 465 GLN C 108 REMARK 465 GLY C 109 REMARK 465 GLY C 110 REMARK 465 TYR C 111 REMARK 465 LYS C 112 REMARK 465 THR C 113 REMARK 465 SER C 114 REMARK 465 GLY C 115 REMARK 465 GLY C 116 REMARK 465 LEU C 117 REMARK 465 HIS C 118 REMARK 465 GLY C 119 REMARK 465 VAL C 120 REMARK 465 GLU C 225 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 18 CG CD OE1 OE2 REMARK 470 ARG A 26 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 36 CG CD CE NZ REMARK 470 ARG A 37 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 149 CG OD1 ND2 REMARK 470 LYS A 202 CG CD CE NZ REMARK 470 GLU A 216 CG CD OE1 OE2 REMARK 470 LYS B 36 CG CD CE NZ REMARK 470 LYS B 164 CG CD CE NZ REMARK 470 LYS B 180 CG CD CE NZ REMARK 470 LYS B 202 CG CD CE NZ REMARK 470 ARG C 24 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 26 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 87 CG CD CE NZ REMARK 470 LYS C 164 CG CD CE NZ REMARK 470 LYS C 165 CG CD CE NZ REMARK 470 LYS C 169 CG CD CE NZ REMARK 470 GLU C 192 CG CD OE1 OE2 REMARK 470 LYS C 215 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 THR A 34 55.22 -102.84 REMARK 500 ASN A 60 14.77 -149.93 REMARK 500 TRP A 131 140.49 -172.14 REMARK 500 PHE A 179 76.78 -101.78 REMARK 500 LYS A 202 145.59 74.81 REMARK 500 SER B 33 -165.03 -100.27 REMARK 500 ASP B 35 -169.54 -112.43 REMARK 500 LYS B 202 123.52 74.06 REMARK 500 THR C 34 32.07 -99.79 REMARK 500 ASN C 60 12.09 -154.00 REMARK 500 SER C 155 -164.28 -111.52 REMARK 500 PHE C 179 70.39 -118.17 REMARK 500 SER C 182 140.92 178.88 REMARK 500 LYS C 202 134.86 76.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NOV A 2000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NOV B 2000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NOV C 2000 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4URL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF STAPH PARE43KDA IN COMPLEX WITH KBD REMARK 900 RELATED ID: 4URM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF STAPH GYRASEB 24KDA IN COMPLEX WITH REMARK 900 KIBDELOMYCIN REMARK 900 RELATED ID: 4URO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF STAPH GYRASEB 24KDA IN COMPLEX WITH NOVOBIOCIN DBREF 4URN A 1 225 UNP X5EN43 X5EN43_STAAU 1 225 DBREF 4URN B 1 225 UNP X5EN43 X5EN43_STAAU 1 225 DBREF 4URN C 1 225 UNP X5EN43 X5EN43_STAAU 1 225 SEQRES 1 A 225 MET ALA MET ASN LYS GLN ASN ASN TYR SER ASP ASP SER SEQRES 2 A 225 ILE GLN VAL LEU GLU GLY LEU GLU ALA VAL ARG LYS ARG SEQRES 3 A 225 PRO GLY MET TYR ILE GLY SER THR ASP LYS ARG GLY LEU SEQRES 4 A 225 HIS HIS LEU VAL TYR GLU ILE VAL ASP ASN SER VAL ASP SEQRES 5 A 225 GLU VAL LEU ASN GLY TYR GLY ASN GLU ILE ASP VAL THR SEQRES 6 A 225 ILE ASN LYS ASP GLY SER ILE SER ILE GLU ASP ASN GLY SEQRES 7 A 225 ARG GLY MET PRO THR GLY ILE HIS LYS SER GLY LYS PRO SEQRES 8 A 225 THR VAL GLU VAL ILE PHE THR VAL LEU HIS ALA GLY GLY SEQRES 9 A 225 LYS PHE GLY GLN GLY GLY TYR LYS THR SER GLY GLY LEU SEQRES 10 A 225 HIS GLY VAL GLY ALA SER VAL VAL ASN ALA LEU SER GLU SEQRES 11 A 225 TRP LEU GLU VAL GLU ILE HIS ARG ASP GLY ASN ILE TYR SEQRES 12 A 225 HIS GLN SER PHE LYS ASN GLY GLY SER PRO SER SER GLY SEQRES 13 A 225 LEU VAL LYS LYS GLY LYS THR LYS LYS THR GLY THR LYS SEQRES 14 A 225 VAL THR PHE LYS PRO ASP ASP THR ILE PHE LYS ALA SER SEQRES 15 A 225 THR SER PHE ASN PHE ASP VAL LEU SER GLU ARG LEU GLN SEQRES 16 A 225 GLU SER ALA PHE LEU LEU LYS ASN LEU LYS ILE THR LEU SEQRES 17 A 225 ASN ASP LEU ARG SER GLY LYS GLU ARG GLN GLU HIS TYR SEQRES 18 A 225 HIS TYR GLU GLU SEQRES 1 B 225 MET ALA MET ASN LYS GLN ASN ASN TYR SER ASP ASP SER SEQRES 2 B 225 ILE GLN VAL LEU GLU GLY LEU GLU ALA VAL ARG LYS ARG SEQRES 3 B 225 PRO GLY MET TYR ILE GLY SER THR ASP LYS ARG GLY LEU SEQRES 4 B 225 HIS HIS LEU VAL TYR GLU ILE VAL ASP ASN SER VAL ASP SEQRES 5 B 225 GLU VAL LEU ASN GLY TYR GLY ASN GLU ILE ASP VAL THR SEQRES 6 B 225 ILE ASN LYS ASP GLY SER ILE SER ILE GLU ASP ASN GLY SEQRES 7 B 225 ARG GLY MET PRO THR GLY ILE HIS LYS SER GLY LYS PRO SEQRES 8 B 225 THR VAL GLU VAL ILE PHE THR VAL LEU HIS ALA GLY GLY SEQRES 9 B 225 LYS PHE GLY GLN GLY GLY TYR LYS THR SER GLY GLY LEU SEQRES 10 B 225 HIS GLY VAL GLY ALA SER VAL VAL ASN ALA LEU SER GLU SEQRES 11 B 225 TRP LEU GLU VAL GLU ILE HIS ARG ASP GLY ASN ILE TYR SEQRES 12 B 225 HIS GLN SER PHE LYS ASN GLY GLY SER PRO SER SER GLY SEQRES 13 B 225 LEU VAL LYS LYS GLY LYS THR LYS LYS THR GLY THR LYS SEQRES 14 B 225 VAL THR PHE LYS PRO ASP ASP THR ILE PHE LYS ALA SER SEQRES 15 B 225 THR SER PHE ASN PHE ASP VAL LEU SER GLU ARG LEU GLN SEQRES 16 B 225 GLU SER ALA PHE LEU LEU LYS ASN LEU LYS ILE THR LEU SEQRES 17 B 225 ASN ASP LEU ARG SER GLY LYS GLU ARG GLN GLU HIS TYR SEQRES 18 B 225 HIS TYR GLU GLU SEQRES 1 C 225 MET ALA MET ASN LYS GLN ASN ASN TYR SER ASP ASP SER SEQRES 2 C 225 ILE GLN VAL LEU GLU GLY LEU GLU ALA VAL ARG LYS ARG SEQRES 3 C 225 PRO GLY MET TYR ILE GLY SER THR ASP LYS ARG GLY LEU SEQRES 4 C 225 HIS HIS LEU VAL TYR GLU ILE VAL ASP ASN SER VAL ASP SEQRES 5 C 225 GLU VAL LEU ASN GLY TYR GLY ASN GLU ILE ASP VAL THR SEQRES 6 C 225 ILE ASN LYS ASP GLY SER ILE SER ILE GLU ASP ASN GLY SEQRES 7 C 225 ARG GLY MET PRO THR GLY ILE HIS LYS SER GLY LYS PRO SEQRES 8 C 225 THR VAL GLU VAL ILE PHE THR VAL LEU HIS ALA GLY GLY SEQRES 9 C 225 LYS PHE GLY GLN GLY GLY TYR LYS THR SER GLY GLY LEU SEQRES 10 C 225 HIS GLY VAL GLY ALA SER VAL VAL ASN ALA LEU SER GLU SEQRES 11 C 225 TRP LEU GLU VAL GLU ILE HIS ARG ASP GLY ASN ILE TYR SEQRES 12 C 225 HIS GLN SER PHE LYS ASN GLY GLY SER PRO SER SER GLY SEQRES 13 C 225 LEU VAL LYS LYS GLY LYS THR LYS LYS THR GLY THR LYS SEQRES 14 C 225 VAL THR PHE LYS PRO ASP ASP THR ILE PHE LYS ALA SER SEQRES 15 C 225 THR SER PHE ASN PHE ASP VAL LEU SER GLU ARG LEU GLN SEQRES 16 C 225 GLU SER ALA PHE LEU LEU LYS ASN LEU LYS ILE THR LEU SEQRES 17 C 225 ASN ASP LEU ARG SER GLY LYS GLU ARG GLN GLU HIS TYR SEQRES 18 C 225 HIS TYR GLU GLU HET NOV A2000 44 HET NOV B2000 44 HET NOV C2000 44 HETNAM NOV NOVOBIOCIN HETSYN NOV 4-HYDROXY-3-[4-HYDROXY-3-(3-METHYLBUT-2-ENYL) HETSYN 2 NOV BENZAMIDO]-8-METHYLCOUMARIN-7-YL 3-O-CARBAMOYL-5,5-DI- HETSYN 3 NOV C-METHYL-ALPHA-L-LYXOFURANOSIDE FORMUL 4 NOV 3(C31 H36 N2 O11) FORMUL 7 HOH *50(H2 O) HELIX 1 1 GLU A 18 ARG A 26 1 9 HELIX 2 2 ARG A 26 ILE A 31 1 6 HELIX 3 3 ASP A 35 GLY A 57 1 23 HELIX 4 4 PRO A 91 VAL A 99 1 9 HELIX 5 5 GLY A 121 LEU A 128 1 8 HELIX 6 6 ASN A 186 LYS A 202 1 17 HELIX 7 7 ASP B 35 ASN B 56 1 22 HELIX 8 8 PRO B 91 VAL B 99 1 9 HELIX 9 9 VAL B 120 LEU B 128 1 9 HELIX 10 10 ASN B 186 LYS B 202 1 17 HELIX 11 11 LEU C 20 ARG C 26 1 7 HELIX 12 12 PRO C 27 GLY C 32 1 6 HELIX 13 13 ASP C 35 ASN C 56 1 22 HELIX 14 14 PRO C 91 VAL C 99 1 9 HELIX 15 15 GLY C 121 LEU C 128 1 8 HELIX 16 16 ASN C 186 LYS C 202 1 17 SHEET 1 AA 2 SER A 152 PRO A 153 0 SHEET 2 AA 2 ASN A 141 LYS A 148 1 O LYS A 148 N SER A 152 SHEET 1 AB 2 VAL A 158 LYS A 162 0 SHEET 2 AB 2 ASN A 141 LYS A 148 -1 O ILE A 142 N LYS A 160 SHEET 1 AC 8 ARG A 217 TYR A 221 0 SHEET 2 AC 8 LYS A 205 ASP A 210 -1 O ILE A 206 N TYR A 221 SHEET 3 AC 8 GLU A 61 ILE A 66 1 O ILE A 62 N THR A 207 SHEET 4 AC 8 ILE A 72 ASP A 76 -1 O SER A 73 N THR A 65 SHEET 5 AC 8 GLY A 167 PRO A 174 -1 O THR A 168 N ASP A 76 SHEET 6 AC 8 SER A 129 ARG A 138 -1 N GLU A 130 O LYS A 173 SHEET 7 AC 8 ASN A 141 LYS A 148 -1 O ASN A 141 N ARG A 138 SHEET 8 AC 8 SER A 152 PRO A 153 1 O SER A 152 N LYS A 148 SHEET 1 AD 8 ARG A 217 TYR A 221 0 SHEET 2 AD 8 LYS A 205 ASP A 210 -1 O ILE A 206 N TYR A 221 SHEET 3 AD 8 GLU A 61 ILE A 66 1 O ILE A 62 N THR A 207 SHEET 4 AD 8 ILE A 72 ASP A 76 -1 O SER A 73 N THR A 65 SHEET 5 AD 8 GLY A 167 PRO A 174 -1 O THR A 168 N ASP A 76 SHEET 6 AD 8 SER A 129 ARG A 138 -1 N GLU A 130 O LYS A 173 SHEET 7 AD 8 ASN A 141 LYS A 148 -1 O ASN A 141 N ARG A 138 SHEET 8 AD 8 VAL A 158 LYS A 162 -1 O VAL A 158 N HIS A 144 SHEET 1 BA 2 SER B 152 PRO B 153 0 SHEET 2 BA 2 ASN B 141 LYS B 148 1 O LYS B 148 N SER B 152 SHEET 1 BB 2 VAL B 158 LYS B 162 0 SHEET 2 BB 2 ASN B 141 LYS B 148 -1 O ILE B 142 N LYS B 160 SHEET 1 BC 8 ARG B 217 TYR B 221 0 SHEET 2 BC 8 LYS B 205 ASP B 210 -1 O ILE B 206 N TYR B 221 SHEET 3 BC 8 GLU B 61 ILE B 66 1 O ILE B 62 N THR B 207 SHEET 4 BC 8 ILE B 72 ASP B 76 -1 O SER B 73 N THR B 65 SHEET 5 BC 8 GLY B 167 PRO B 174 -1 O THR B 168 N ASP B 76 SHEET 6 BC 8 SER B 129 ARG B 138 -1 N GLU B 130 O LYS B 173 SHEET 7 BC 8 ASN B 141 LYS B 148 -1 O ASN B 141 N ARG B 138 SHEET 8 BC 8 SER B 152 PRO B 153 1 O SER B 152 N LYS B 148 SHEET 1 BD 8 ARG B 217 TYR B 221 0 SHEET 2 BD 8 LYS B 205 ASP B 210 -1 O ILE B 206 N TYR B 221 SHEET 3 BD 8 GLU B 61 ILE B 66 1 O ILE B 62 N THR B 207 SHEET 4 BD 8 ILE B 72 ASP B 76 -1 O SER B 73 N THR B 65 SHEET 5 BD 8 GLY B 167 PRO B 174 -1 O THR B 168 N ASP B 76 SHEET 6 BD 8 SER B 129 ARG B 138 -1 N GLU B 130 O LYS B 173 SHEET 7 BD 8 ASN B 141 LYS B 148 -1 O ASN B 141 N ARG B 138 SHEET 8 BD 8 VAL B 158 LYS B 162 -1 O VAL B 158 N HIS B 144 SHEET 1 CA 2 SER C 152 PRO C 153 0 SHEET 2 CA 2 ASN C 141 LYS C 148 1 O LYS C 148 N SER C 152 SHEET 1 CB 2 VAL C 158 LYS C 162 0 SHEET 2 CB 2 ASN C 141 LYS C 148 -1 O ILE C 142 N LYS C 160 SHEET 1 CC 8 ARG C 217 TYR C 221 0 SHEET 2 CC 8 LYS C 205 ASP C 210 -1 O ILE C 206 N TYR C 221 SHEET 3 CC 8 GLU C 61 ILE C 66 1 O ILE C 62 N THR C 207 SHEET 4 CC 8 ILE C 72 ASP C 76 -1 O SER C 73 N THR C 65 SHEET 5 CC 8 GLY C 167 PRO C 174 -1 O THR C 168 N ASP C 76 SHEET 6 CC 8 SER C 129 ARG C 138 -1 N GLU C 130 O LYS C 173 SHEET 7 CC 8 ASN C 141 LYS C 148 -1 O ASN C 141 N ARG C 138 SHEET 8 CC 8 SER C 152 PRO C 153 1 O SER C 152 N LYS C 148 SHEET 1 CD 8 ARG C 217 TYR C 221 0 SHEET 2 CD 8 LYS C 205 ASP C 210 -1 O ILE C 206 N TYR C 221 SHEET 3 CD 8 GLU C 61 ILE C 66 1 O ILE C 62 N THR C 207 SHEET 4 CD 8 ILE C 72 ASP C 76 -1 O SER C 73 N THR C 65 SHEET 5 CD 8 GLY C 167 PRO C 174 -1 O THR C 168 N ASP C 76 SHEET 6 CD 8 SER C 129 ARG C 138 -1 N GLU C 130 O LYS C 173 SHEET 7 CD 8 ASN C 141 LYS C 148 -1 O ASN C 141 N ARG C 138 SHEET 8 CD 8 VAL C 158 LYS C 162 -1 O VAL C 158 N HIS C 144 SITE 1 AC1 17 ASN A 49 ASP A 52 GLU A 53 ASP A 76 SITE 2 AC1 17 ARG A 79 GLY A 80 MET A 81 PRO A 82 SITE 3 AC1 17 ILE A 96 ARG A 138 THR A 168 HOH A2001 SITE 4 AC1 17 HOH A2008 ASP B 35 LYS B 36 ARG B 37 SITE 5 AC1 17 NOV C2000 SITE 1 AC2 17 ASN B 49 ASP B 52 GLU B 53 ASP B 76 SITE 2 AC2 17 ARG B 79 GLY B 80 MET B 81 PRO B 82 SITE 3 AC2 17 ILE B 96 ARG B 138 HOH B2001 HOH B2009 SITE 4 AC2 17 ASP C 35 LYS C 36 LYS C 180 ASN C 186 SITE 5 AC2 17 GLU C 192 SITE 1 AC3 17 ASP A 35 LYS A 36 VAL A 189 NOV A2000 SITE 2 AC3 17 ASN C 49 SER C 50 GLU C 53 ASP C 76 SITE 3 AC3 17 ARG C 79 GLY C 80 MET C 81 PRO C 82 SITE 4 AC3 17 ILE C 96 ARG C 138 THR C 168 HOH C2003 SITE 5 AC3 17 HOH C2008 CRYST1 115.678 75.321 76.144 90.00 92.85 90.00 C 1 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 0.008645 0.000000 0.000430 0.00000 SCALE2 0.000000 0.013277 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013149 0.00000