HEADER OXIDOREDUCTASE 10-FEB-19 6NY0 TITLE CRYSTAL STRUCTURE OF TRIMETHOPRIM-RESISTANT TYPE II DIHYDROFOLATE TITLE 2 REDUCTASE IN COMPLEX WITH A BISBENZIMIDAZOLE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROFOLATE REDUCTASE TYPE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DIHYDROFOLATE REDUCTASE TYPE II; COMPND 5 EC: 1.5.1.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: PREP4; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PQE32 KEYWDS ANTIBIOTIC RESISTANCE; SELECTIVE INHIBITOR; R67 DHFR; SH3-LIKE KEYWDS 2 BARREL, ANTIBIOTIC, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR B.J.YACHNIN,A.M.BERGHUIS REVDAT 5 11-OCT-23 6NY0 1 REMARK REVDAT 4 08-JAN-20 6NY0 1 REMARK REVDAT 3 11-SEP-19 6NY0 1 JRNL REVDAT 2 03-JUL-19 6NY0 1 JRNL REVDAT 1 29-MAY-19 6NY0 0 JRNL AUTH J.L.TOULOUSE,B.J.YACHNIN,E.H.RUEDIGER,D.DEON,M.GAGNON, JRNL AUTH 2 K.SAINT-JACQUES,M.C.C.J.C.EBERT,D.FORGE,D.BASTIEN,D.Y.COLIN, JRNL AUTH 3 J.J.VANDEN EYNDE,A.MARINIER,A.M.BERGHUIS,J.N.PELLETIER JRNL TITL STRUCTURE-BASED DESIGN OF DIMERIC BISBENZIMIDAZOLE JRNL TITL 2 INHIBITORS TO AN EMERGENT TRIMETHOPRIM-RESISTANT TYPE II JRNL TITL 3 DIHYDROFOLATE REDUCTASE GUIDES THE DESIGN OF MONOMERIC JRNL TITL 4 ANALOGUES. JRNL REF ACS OMEGA V. 4 10056 2019 JRNL REFN ESSN 2470-1343 JRNL PMID 31460098 JRNL DOI 10.1021/ACSOMEGA.9B00640 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.09 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 11543 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) : 0.142 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.158 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 624 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.43 REMARK 3 REFLECTION IN BIN (WORKING SET) : 829 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.43 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE SET COUNT : 44 REMARK 3 BIN FREE R VALUE : 0.2150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 437 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 64 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.049 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.049 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.029 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.725 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.975 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 501 ; 0.018 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 443 ; 0.003 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 685 ; 2.076 ; 1.646 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1021 ; 2.328 ; 1.594 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 59 ; 6.205 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 25 ;28.445 ;21.600 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 69 ;13.030 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 3 ;14.013 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 60 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 544 ; 0.018 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 113 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: AUTHORS STATE THAT INHIBITOR LBA IS REMARK 3 PARTIALLY MODELLED AT THE ACTIVE SITE. BINDING OF THE LIGAND HAS REMARK 3 BEEN CONFIRMED BIOCHEMICALLY, AND LIGAND DISORDER OUTSIDE OF THE REMARK 3 PORE CENTER HAS BEEN OBSERVED FOR OTHER KNOWN LIGANDS. MORE REMARK 3 DETAILS CAN BE FOUND IN THE PRIMARY CITATION. REMARK 4 REMARK 4 6NY0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1000239203. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-AUG-11 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : ACCEL/BRUKER DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR (DCM), FEATURING REMARK 200 INDIRECTLY CRYO-COOLED FIRST REMARK 200 CRYSTAL AND SAGITTALLY FOCUSING REMARK 200 SECOND CRYSTAL REMARK 200 OPTICS : VERTICAL FOCUSING MIRROR: ULTRA REMARK 200 -LOW EXPANSION (ULE) TITANIUM REMARK 200 SILIICATE FLAT MIRROR WITH PT, REMARK 200 UNCOATED, AND PD STRIPS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13545 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 20.10 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.60 REMARK 200 R MERGE FOR SHELL (I) : 0.85500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 2RH2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE PROTEIN WAS CONCENTRATED TO 20 REMARK 280 MG/ML IN 100 MM TRIS PH 8.0. IMMEDIATELY BEFORE CRYSTALLIZATION, REMARK 280 CHYMOTRYPSIN WAS ADDED TO THE SAMPLE IN A RATIO OF 1:100 REMARK 280 CHYMOTRYPSIN:PROTEIN, AND THE PROTEIN WAS DILUTED TO 15 MG/ML REMARK 280 USING MPD, RESULTING IN A FINAL MPD CONCENTRATION OF 25%. REMARK 280 RESERVOIRS WERE PREPARED USING 750 UL OF 100 MM SODIUM PHOSPHATE REMARK 280 PH 7.6 AND 60% MPD IN A GREINER 24-WELL HANGING-DROP REMARK 280 CRYSTALLIZATION PLATE. ON A SILICONIZED GLASS COVER SLIP REMARK 280 (HAMPTON RESEARCH), 1.5 UL OF PROTEIN WERE COMBINED WITH 2.5 UL REMARK 280 OF RESERVOIR SOLUTION AND SUSPENDED OVER THE WELL. THE PLATE WAS REMARK 280 INCUBATED AT 277 K AND CRYSTALS WERE OBTAINED IN A FEW DAYS., REMARK 280 VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 33.74600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 33.74600 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 25.89550 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 33.74600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 12.94775 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 33.74600 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 38.84325 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 33.74600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 38.84325 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 33.74600 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 12.94775 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 33.74600 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 33.74600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 25.89550 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 33.74600 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 33.74600 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 25.89550 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 33.74600 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 38.84325 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 33.74600 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 12.94775 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 33.74600 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 12.94775 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 33.74600 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 38.84325 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 33.74600 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 33.74600 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 25.89550 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 KCAL/MOL 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 BIOMT1 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 PHE A 18 REMARK 465 PRO A 19 REMARK 465 SER A 20 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 ASN A 78 C O CB CG OD1 ND2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE1 GLN A 67 O19 LBA A 101 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 LBA A 101 REMARK 610 MRD A 102 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LBA A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MRD A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MRD A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 105 DBREF 6NY0 A 18 78 UNP P00383 DYR21_ECOLX 18 78 SEQADV 6NY0 ASP A 21 UNP P00383 ASN 21 CONFLICT SEQRES 1 A 61 PHE PRO SER ASP ALA THR PHE GLY MET GLY ASP ARG VAL SEQRES 2 A 61 ARG LYS LYS SER GLY ALA ALA TRP GLN GLY GLN ILE VAL SEQRES 3 A 61 GLY TRP TYR CYS THR ASN LEU THR PRO GLU GLY TYR ALA SEQRES 4 A 61 VAL GLU SER GLU ALA HIS PRO GLY SER VAL GLN ILE TYR SEQRES 5 A 61 PRO VAL ALA ALA LEU GLU ARG ILE ASN HET LBA A 101 8 HET MRD A 102 5 HET MRD A 103 8 HET PO4 A 104 5 HET PO4 A 105 5 HETNAM LBA 2-(4-{3-[4-(6-CARBOXY-1H-BENZIMIDAZOL-2-YL)PHENOXY]-2- HETNAM 2 LBA HYDROXYPROPOXY}PHENYL)-1H-BENZIMIDAZOLE-5-CARBOXYLIC HETNAM 3 LBA ACID HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM PO4 PHOSPHATE ION FORMUL 2 LBA C31 H24 N4 O7 FORMUL 3 MRD 2(C6 H14 O2) FORMUL 5 PO4 2(O4 P 3-) FORMUL 7 HOH *64(H2 O) SHEET 1 AA1 5 VAL A 66 PRO A 70 0 SHEET 2 AA1 5 GLY A 54 SER A 59 -1 N VAL A 57 O GLN A 67 SHEET 3 AA1 5 GLN A 39 TYR A 46 -1 N GLN A 41 O GLU A 58 SHEET 4 AA1 5 ARG A 29 LYS A 32 -1 N VAL A 30 O GLY A 40 SHEET 5 AA1 5 LEU A 74 ARG A 76 -1 O GLU A 75 N ARG A 31 SITE 1 AC1 3 VAL A 66 GLN A 67 ILE A 68 SITE 1 AC2 3 PHE A 24 GLY A 25 TRP A 45 SITE 1 AC3 5 ALA A 22 GLY A 25 ARG A 76 ILE A 77 SITE 2 AC3 5 HOH A 233 SITE 1 AC4 9 ARG A 31 LYS A 32 LYS A 33 CYS A 47 SITE 2 AC4 9 THR A 48 ASN A 49 GLU A 75 HOH A 207 SITE 3 AC4 9 HOH A 220 SITE 1 AC5 3 GLY A 35 LEU A 50 HOH A 201 CRYST1 67.492 67.492 51.791 90.00 90.00 90.00 I 41 2 2 16 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 0.014817 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014817 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019308 0.00000