HEADER HYDROLASE 16-MAR-12 4E6W TITLE CLBP IN COMPLEX WITH 3-AMINOPHENYL BORONIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: CLBP PEPTIDASE; COMPND 3 CHAIN: A, B, C; COMPND 4 EC: 3.5.2.6; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 217992; SOURCE 4 STRAIN: O6; SOURCE 5 GENE: C2452; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET9 KEYWDS ALPHA/BETA, DISULFIDE BRIDGE, PEPTIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.COUGNOUX,J.DELMAS,R.BONNET REVDAT 3 30-OCT-24 4E6W 1 REMARK REVDAT 2 13-SEP-23 4E6W 1 REMARK LINK REVDAT 1 27-MAR-13 4E6W 0 JRNL AUTH A.COUGNOUX,J.DELMAS,G.DALMASSO,C.ROMAGNOLI,G.CUEVAS-RAMOS, JRNL AUTH 2 E.OSWALD,F.PARTI,R.BONNET JRNL TITL THE NRP PEPTIDASE CLBP AS A TARGET FOR THE INHIBITION OF JRNL TITL 2 GENOTOXICITY, CELL PROLIFERATION AND TUMOROGENESIS MEDIATED JRNL TITL 3 BY PKS-HARBORING BACTERIA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 52.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 54118 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2890 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) : 2.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3968 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE SET COUNT : 231 REMARK 3 BIN FREE R VALUE : 0.3180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7626 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 400 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.25 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): 0.266 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.207 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.902 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7839 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10668 ; 1.510 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 984 ; 5.380 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 338 ;36.192 ;24.112 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1275 ;19.123 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 49 ;19.826 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1211 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5906 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 4927 ; 1.627 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7911 ; 2.716 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2912 ; 3.403 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2757 ; 5.235 ; 4.500 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4E6W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-MAR-12. REMARK 100 THE DEPOSITION ID IS D_1000071244. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-AUG-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54118 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 52.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 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 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3O3V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POTASSIUM PHOSPHATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 52.24500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 74.68000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 52.24500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 74.68000 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 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: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 104.49000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 HOH C 621 LIES ON A SPECIAL POSITION. 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 ASN A 160 REMARK 465 PRO A 161 REMARK 465 MET A 162 REMARK 465 PRO A 163 REMARK 465 GLY A 164 REMARK 465 SER A 165 REMARK 465 MET B 162 REMARK 465 PRO B 163 REMARK 465 GLY B 164 REMARK 465 MET C 162 REMARK 465 PRO C 163 REMARK 465 GLY C 164 REMARK 465 PHE C 243 REMARK 465 GLY C 244 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 LEU A 248 CG CD1 CD2 REMARK 470 PHE A 249 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 41 CG CD OE1 OE2 REMARK 470 ARG B 42 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 248 CG CD1 CD2 REMARK 470 PHE B 249 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU C 41 CG CD OE1 OE2 REMARK 470 ARG C 42 CG CD NE CZ NH1 NH2 REMARK 470 LEU C 248 CG CD1 CD2 REMARK 470 PHE C 249 CG CD1 CD2 CE1 CE2 CZ 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 GLN A 132 -130.02 56.35 REMARK 500 ASN A 234 4.11 83.61 REMARK 500 ASP A 300 40.88 -81.51 REMARK 500 ALA A 312 -157.69 -99.90 REMARK 500 GLN B 132 -133.17 55.36 REMARK 500 ASN B 234 0.34 83.14 REMARK 500 PHE B 249 -33.84 -37.60 REMARK 500 ALA B 261 -6.28 -145.89 REMARK 500 ASP B 300 42.44 -85.62 REMARK 500 HIS B 327 145.54 -172.49 REMARK 500 GLN C 132 -126.20 74.27 REMARK 500 ASN C 234 4.33 80.64 REMARK 500 HIS C 250 -32.99 -38.44 REMARK 500 TYR C 262 43.33 -107.09 REMARK 500 ASP C 300 44.56 -84.68 REMARK 500 ALA C 312 -164.55 -101.56 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 APB A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE APB B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE APB C 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3O3V RELATED DB: PDB REMARK 900 CLBP APO-ENZYME DBREF 4E6W A 41 375 UNP Q8FGC8 Q8FGC8_ECOL6 41 375 DBREF 4E6W B 41 375 UNP Q8FGC8 Q8FGC8_ECOL6 41 375 DBREF 4E6W C 41 375 UNP Q8FGC8 Q8FGC8_ECOL6 41 375 SEQRES 1 A 335 GLU ARG LEU SER THR LEU ILE HIS GLN ARG MET GLN GLU SEQRES 2 A 335 ALA LYS VAL PRO ALA LEU SER VAL SER VAL THR ILE LYS SEQRES 3 A 335 GLY VAL ARG GLN ARG PHE VAL TYR GLY VAL ALA ASP VAL SEQRES 4 A 335 ALA SER GLN LYS ALA ASN THR LEU ASP THR VAL TYR GLU SEQRES 5 A 335 LEU GLY SER MET SER LYS ALA PHE THR GLY LEU VAL VAL SEQRES 6 A 335 GLN ILE LEU ILE GLN GLU GLY ARG LEU ARG GLN GLY ASP SEQRES 7 A 335 ASP ILE ILE THR TYR LEU PRO GLU MET ARG LEU ASN TYR SEQRES 8 A 335 GLN GLY LYS PRO ALA SER LEU THR VAL ALA ASP PHE LEU SEQRES 9 A 335 TYR HIS THR SER GLY LEU PRO PHE SER THR LEU ALA ARG SEQRES 10 A 335 LEU GLU ASN PRO MET PRO GLY SER ALA VAL ALA GLN GLN SEQRES 11 A 335 LEU ARG ASN GLU ASN LEU LEU PHE ALA PRO GLY ALA LYS SEQRES 12 A 335 PHE SER TYR ALA SER ALA ASN TYR ASP VAL LEU GLY ALA SEQRES 13 A 335 VAL ILE GLU ASN VAL THR GLY LYS THR PHE THR GLU VAL SEQRES 14 A 335 ILE ALA GLU ARG LEU THR GLN PRO LEU GLY MET SER ALA SEQRES 15 A 335 THR VAL ALA VAL LYS GLY ASP GLU ILE ILE VAL ASN LYS SEQRES 16 A 335 ALA SER GLY TYR LYS LEU GLY PHE GLY LYS PRO VAL LEU SEQRES 17 A 335 PHE HIS ALA PRO LEU ALA ARG ASN HIS VAL PRO ALA ALA SEQRES 18 A 335 TYR ILE HIS SER THR LEU PRO ASP MET GLU ILE TRP ILE SEQRES 19 A 335 ASP ALA TRP LEU HIS ARG LYS ALA LEU PRO ALA THR LEU SEQRES 20 A 335 ARG GLU ALA MET SER ASN SER TRP ARG GLY ASN SER ASP SEQRES 21 A 335 VAL PRO LEU ALA ALA ASP ASN ARG ILE LEU TYR ALA SER SEQRES 22 A 335 GLY TRP PHE ILE ASP GLN ASN GLN GLY PRO TYR ILE SER SEQRES 23 A 335 HIS GLY GLY GLN ASN PRO ASN PHE SER SER CYS ILE ALA SEQRES 24 A 335 LEU ARG PRO ASP GLN GLN ILE GLY ILE VAL ALA LEU ALA SEQRES 25 A 335 ASN MET ASN SER ASN LEU ILE LEU GLN LEU CYS ALA ASP SEQRES 26 A 335 ILE ASP ASN TYR LEU ARG ILE GLY LYS TYR SEQRES 1 B 335 GLU ARG LEU SER THR LEU ILE HIS GLN ARG MET GLN GLU SEQRES 2 B 335 ALA LYS VAL PRO ALA LEU SER VAL SER VAL THR ILE LYS SEQRES 3 B 335 GLY VAL ARG GLN ARG PHE VAL TYR GLY VAL ALA ASP VAL SEQRES 4 B 335 ALA SER GLN LYS ALA ASN THR LEU ASP THR VAL TYR GLU SEQRES 5 B 335 LEU GLY SER MET SER LYS ALA PHE THR GLY LEU VAL VAL SEQRES 6 B 335 GLN ILE LEU ILE GLN GLU GLY ARG LEU ARG GLN GLY ASP SEQRES 7 B 335 ASP ILE ILE THR TYR LEU PRO GLU MET ARG LEU ASN TYR SEQRES 8 B 335 GLN GLY LYS PRO ALA SER LEU THR VAL ALA ASP PHE LEU SEQRES 9 B 335 TYR HIS THR SER GLY LEU PRO PHE SER THR LEU ALA ARG SEQRES 10 B 335 LEU GLU ASN PRO MET PRO GLY SER ALA VAL ALA GLN GLN SEQRES 11 B 335 LEU ARG ASN GLU ASN LEU LEU PHE ALA PRO GLY ALA LYS SEQRES 12 B 335 PHE SER TYR ALA SER ALA ASN TYR ASP VAL LEU GLY ALA SEQRES 13 B 335 VAL ILE GLU ASN VAL THR GLY LYS THR PHE THR GLU VAL SEQRES 14 B 335 ILE ALA GLU ARG LEU THR GLN PRO LEU GLY MET SER ALA SEQRES 15 B 335 THR VAL ALA VAL LYS GLY ASP GLU ILE ILE VAL ASN LYS SEQRES 16 B 335 ALA SER GLY TYR LYS LEU GLY PHE GLY LYS PRO VAL LEU SEQRES 17 B 335 PHE HIS ALA PRO LEU ALA ARG ASN HIS VAL PRO ALA ALA SEQRES 18 B 335 TYR ILE HIS SER THR LEU PRO ASP MET GLU ILE TRP ILE SEQRES 19 B 335 ASP ALA TRP LEU HIS ARG LYS ALA LEU PRO ALA THR LEU SEQRES 20 B 335 ARG GLU ALA MET SER ASN SER TRP ARG GLY ASN SER ASP SEQRES 21 B 335 VAL PRO LEU ALA ALA ASP ASN ARG ILE LEU TYR ALA SER SEQRES 22 B 335 GLY TRP PHE ILE ASP GLN ASN GLN GLY PRO TYR ILE SER SEQRES 23 B 335 HIS GLY GLY GLN ASN PRO ASN PHE SER SER CYS ILE ALA SEQRES 24 B 335 LEU ARG PRO ASP GLN GLN ILE GLY ILE VAL ALA LEU ALA SEQRES 25 B 335 ASN MET ASN SER ASN LEU ILE LEU GLN LEU CYS ALA ASP SEQRES 26 B 335 ILE ASP ASN TYR LEU ARG ILE GLY LYS TYR SEQRES 1 C 335 GLU ARG LEU SER THR LEU ILE HIS GLN ARG MET GLN GLU SEQRES 2 C 335 ALA LYS VAL PRO ALA LEU SER VAL SER VAL THR ILE LYS SEQRES 3 C 335 GLY VAL ARG GLN ARG PHE VAL TYR GLY VAL ALA ASP VAL SEQRES 4 C 335 ALA SER GLN LYS ALA ASN THR LEU ASP THR VAL TYR GLU SEQRES 5 C 335 LEU GLY SER MET SER LYS ALA PHE THR GLY LEU VAL VAL SEQRES 6 C 335 GLN ILE LEU ILE GLN GLU GLY ARG LEU ARG GLN GLY ASP SEQRES 7 C 335 ASP ILE ILE THR TYR LEU PRO GLU MET ARG LEU ASN TYR SEQRES 8 C 335 GLN GLY LYS PRO ALA SER LEU THR VAL ALA ASP PHE LEU SEQRES 9 C 335 TYR HIS THR SER GLY LEU PRO PHE SER THR LEU ALA ARG SEQRES 10 C 335 LEU GLU ASN PRO MET PRO GLY SER ALA VAL ALA GLN GLN SEQRES 11 C 335 LEU ARG ASN GLU ASN LEU LEU PHE ALA PRO GLY ALA LYS SEQRES 12 C 335 PHE SER TYR ALA SER ALA ASN TYR ASP VAL LEU GLY ALA SEQRES 13 C 335 VAL ILE GLU ASN VAL THR GLY LYS THR PHE THR GLU VAL SEQRES 14 C 335 ILE ALA GLU ARG LEU THR GLN PRO LEU GLY MET SER ALA SEQRES 15 C 335 THR VAL ALA VAL LYS GLY ASP GLU ILE ILE VAL ASN LYS SEQRES 16 C 335 ALA SER GLY TYR LYS LEU GLY PHE GLY LYS PRO VAL LEU SEQRES 17 C 335 PHE HIS ALA PRO LEU ALA ARG ASN HIS VAL PRO ALA ALA SEQRES 18 C 335 TYR ILE HIS SER THR LEU PRO ASP MET GLU ILE TRP ILE SEQRES 19 C 335 ASP ALA TRP LEU HIS ARG LYS ALA LEU PRO ALA THR LEU SEQRES 20 C 335 ARG GLU ALA MET SER ASN SER TRP ARG GLY ASN SER ASP SEQRES 21 C 335 VAL PRO LEU ALA ALA ASP ASN ARG ILE LEU TYR ALA SER SEQRES 22 C 335 GLY TRP PHE ILE ASP GLN ASN GLN GLY PRO TYR ILE SER SEQRES 23 C 335 HIS GLY GLY GLN ASN PRO ASN PHE SER SER CYS ILE ALA SEQRES 24 C 335 LEU ARG PRO ASP GLN GLN ILE GLY ILE VAL ALA LEU ALA SEQRES 25 C 335 ASN MET ASN SER ASN LEU ILE LEU GLN LEU CYS ALA ASP SEQRES 26 C 335 ILE ASP ASN TYR LEU ARG ILE GLY LYS TYR MODRES 4E6W SER C 95 SER 1.43 MODRES 4E6W SER A 95 SER 1.45 MODRES 4E6W SER B 95 SER 1.45 HET APB A 400 10 HET PO4 A 401 5 HET PO4 A 402 5 HET APB B 400 10 HET PO4 B 401 5 HET PO4 B 402 5 HET APB C 400 10 HET PO4 C 401 5 HET PO4 C 402 5 HETNAM APB M-AMINOPHENYLBORONIC ACID HETNAM PO4 PHOSPHATE ION FORMUL 4 APB 3(C6 H8 B N O2) FORMUL 5 PO4 6(O4 P 3-) FORMUL 13 HOH *400(H2 O) HELIX 1 1 ARG A 42 LYS A 55 1 14 HELIX 2 2 GLY A 94 MET A 96 5 3 HELIX 3 3 SER A 97 GLU A 111 1 15 HELIX 4 4 ASP A 119 TYR A 123 5 5 HELIX 5 5 THR A 139 TYR A 145 1 7 HELIX 6 6 SER A 153 GLU A 159 1 7 HELIX 7 7 VAL A 167 LEU A 171 1 5 HELIX 8 8 ALA A 189 GLY A 203 1 15 HELIX 9 9 THR A 205 LEU A 214 1 10 HELIX 10 10 LEU A 214 GLY A 219 1 6 HELIX 11 11 ALA A 254 ASN A 256 5 3 HELIX 12 12 HIS A 257 TYR A 262 1 6 HELIX 13 13 THR A 266 HIS A 279 1 14 HELIX 14 14 PRO A 284 TRP A 295 1 12 HELIX 15 15 PRO A 342 GLN A 345 5 4 HELIX 16 16 SER A 356 GLY A 373 1 18 HELIX 17 17 ARG B 42 LYS B 55 1 14 HELIX 18 18 GLY B 94 MET B 96 5 3 HELIX 19 19 SER B 97 GLU B 111 1 15 HELIX 20 20 ASP B 119 TYR B 123 5 5 HELIX 21 21 THR B 139 TYR B 145 1 7 HELIX 22 22 SER B 153 GLU B 159 1 7 HELIX 23 23 ALA B 166 LEU B 171 1 6 HELIX 24 24 SER B 188 GLY B 203 1 16 HELIX 25 25 THR B 205 LEU B 214 1 10 HELIX 26 26 LEU B 214 GLY B 219 1 6 HELIX 27 27 ALA B 254 ASN B 256 5 3 HELIX 28 28 HIS B 257 TYR B 262 1 6 HELIX 29 29 THR B 266 HIS B 279 1 14 HELIX 30 30 PRO B 284 TRP B 295 1 12 HELIX 31 31 PRO B 342 GLN B 345 5 4 HELIX 32 32 SER B 356 GLY B 373 1 18 HELIX 33 33 ARG C 42 LYS C 55 1 14 HELIX 34 34 GLY C 94 MET C 96 5 3 HELIX 35 35 SER C 97 GLU C 111 1 15 HELIX 36 36 ASP C 119 TYR C 123 5 5 HELIX 37 37 THR C 139 TYR C 145 1 7 HELIX 38 38 SER C 153 GLU C 159 1 7 HELIX 39 39 ALA C 166 LEU C 171 1 6 HELIX 40 40 SER C 188 GLY C 203 1 16 HELIX 41 41 THR C 205 LEU C 214 1 10 HELIX 42 42 LEU C 214 GLY C 219 1 6 HELIX 43 43 ALA C 254 ASN C 256 5 3 HELIX 44 44 HIS C 257 TYR C 262 1 6 HELIX 45 45 THR C 266 HIS C 279 1 14 HELIX 46 46 PRO C 284 TRP C 295 1 12 HELIX 47 47 PRO C 342 GLN C 345 5 4 HELIX 48 48 SER C 356 GLY C 373 1 18 SHEET 1 A 8 LYS A 83 ALA A 84 0 SHEET 2 A 8 VAL A 68 ASP A 78 -1 N ASP A 78 O LYS A 83 SHEET 3 A 8 ALA A 58 ILE A 65 -1 N LEU A 59 O TYR A 74 SHEET 4 A 8 ILE A 346 ALA A 352 -1 O GLY A 347 N THR A 64 SHEET 5 A 8 PHE A 334 ARG A 341 -1 N ALA A 339 O ILE A 348 SHEET 6 A 8 TYR A 324 ASN A 331 -1 N ILE A 325 O LEU A 340 SHEET 7 A 8 PHE A 316 ASP A 318 -1 N PHE A 316 O SER A 326 SHEET 8 A 8 LEU A 310 TYR A 311 -1 N LEU A 310 O ILE A 317 SHEET 1 B 3 TYR A 91 GLU A 92 0 SHEET 2 B 3 ILE A 263 SER A 265 -1 O SER A 265 N TYR A 91 SHEET 3 B 3 VAL A 224 ALA A 225 -1 N VAL A 224 O HIS A 264 SHEET 1 C 2 ASN A 130 TYR A 131 0 SHEET 2 C 2 LYS A 134 PRO A 135 -1 O LYS A 134 N TYR A 131 SHEET 1 D 8 LYS B 83 ALA B 84 0 SHEET 2 D 8 VAL B 68 ASP B 78 -1 N ALA B 77 O LYS B 83 SHEET 3 D 8 ALA B 58 ILE B 65 -1 N VAL B 61 O PHE B 72 SHEET 4 D 8 ILE B 346 ALA B 352 -1 O GLY B 347 N THR B 64 SHEET 5 D 8 PHE B 334 ARG B 341 -1 N CYS B 337 O ALA B 350 SHEET 6 D 8 TYR B 324 ASN B 331 -1 N ILE B 325 O LEU B 340 SHEET 7 D 8 PHE B 316 ASP B 318 -1 N PHE B 316 O SER B 326 SHEET 8 D 8 LEU B 310 TYR B 311 -1 N LEU B 310 O ILE B 317 SHEET 1 E 3 TYR B 91 GLU B 92 0 SHEET 2 E 3 ILE B 263 SER B 265 -1 O SER B 265 N TYR B 91 SHEET 3 E 3 VAL B 224 ALA B 225 -1 N VAL B 224 O HIS B 264 SHEET 1 F 3 LYS B 134 PRO B 135 0 SHEET 2 F 3 LEU B 129 TYR B 131 -1 N TYR B 131 O LYS B 134 SHEET 3 F 3 GLU B 174 ASN B 175 1 O GLU B 174 N ASN B 130 SHEET 1 G 8 LYS C 83 ALA C 84 0 SHEET 2 G 8 VAL C 68 ASP C 78 -1 N ASP C 78 O LYS C 83 SHEET 3 G 8 ALA C 58 ILE C 65 -1 N LEU C 59 O TYR C 74 SHEET 4 G 8 ILE C 346 ALA C 352 -1 O GLY C 347 N THR C 64 SHEET 5 G 8 PHE C 334 ARG C 341 -1 N ALA C 339 O ILE C 348 SHEET 6 G 8 TYR C 324 ASN C 331 -1 N ASN C 331 O PHE C 334 SHEET 7 G 8 PHE C 316 ASP C 318 -1 N PHE C 316 O SER C 326 SHEET 8 G 8 LEU C 310 TYR C 311 -1 N LEU C 310 O ILE C 317 SHEET 1 H 3 TYR C 91 GLU C 92 0 SHEET 2 H 3 ILE C 263 SER C 265 -1 O SER C 265 N TYR C 91 SHEET 3 H 3 VAL C 224 ALA C 225 -1 N VAL C 224 O HIS C 264 SHEET 1 I 3 LYS C 134 PRO C 135 0 SHEET 2 I 3 LEU C 129 TYR C 131 -1 N TYR C 131 O LYS C 134 SHEET 3 I 3 GLU C 174 ASN C 175 1 O GLU C 174 N ASN C 130 SSBOND 1 CYS A 337 CYS A 363 1555 1555 2.09 SSBOND 2 CYS B 337 CYS B 363 1555 1555 2.10 SSBOND 3 CYS C 337 CYS C 363 1555 1555 2.09 LINK OG SER A 95 B APB A 400 1555 1555 1.45 LINK OG SER B 95 B APB B 400 1555 1555 1.45 LINK OG SER C 95 B APB C 400 1555 1555 1.44 CISPEP 1 GLY A 242 PHE A 243 0 -6.57 CISPEP 2 GLY A 322 PRO A 323 0 1.04 CISPEP 3 GLY B 242 PHE B 243 0 -8.89 CISPEP 4 GLY B 322 PRO B 323 0 3.72 CISPEP 5 GLY C 322 PRO C 323 0 -0.06 SITE 1 AC1 6 SER A 95 TYR A 186 HIS A 327 GLY A 328 SITE 2 AC1 6 GLN A 330 HOH A 628 SITE 1 AC2 5 PHE A 184 ASN A 307 ILE A 309 PHE A 316 SITE 2 AC2 5 HOH A 605 SITE 1 AC3 5 PHE A 316 HOH A 562 HOH A 605 ALA B 305 SITE 2 AC3 5 ASP B 306 SITE 1 AC4 9 SER B 95 TYR B 186 PHE B 316 HIS B 327 SITE 2 AC4 9 GLY B 328 GLY B 329 GLN B 330 HOH B 587 SITE 3 AC4 9 HOH B 625 SITE 1 AC5 5 PHE B 184 ASN B 307 ILE B 309 PHE B 316 SITE 2 AC5 5 HOH B 589 SITE 1 AC6 6 ALA A 305 ASP A 306 PHE B 316 HOH B 589 SITE 2 AC6 6 HOH B 615 HOH B 626 SITE 1 AC7 7 SER C 95 TYR C 186 HIS C 327 GLY C 328 SITE 2 AC7 7 GLN C 330 HOH C 634 HOH C 641 SITE 1 AC8 4 PHE C 184 ASN C 307 ILE C 309 PHE C 316 SITE 1 AC9 4 ALA C 305 ASP C 306 PHE C 316 HOH C 635 CRYST1 104.490 149.360 88.240 90.00 124.21 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 0.009570 0.000000 0.006506 0.00000 SCALE2 0.000000 0.006695 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013704 0.00000