HEADER HYDROLASE 08-MAY-07 2PU5 TITLE CRYSTAL STRUCTURE OF A C-C BOND HYDROLASE, BPHD, FROM BURKHOLDERIA TITLE 2 XENOVORANS LB400 COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-HYDROXY-6-OXO-6-PHENYLHEXA-2,4-DIENOATE HYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.7.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA XENOVORANS; SOURCE 3 ORGANISM_TAXID: 266265; SOURCE 4 STRAIN: LB400; SOURCE 5 GENE: BPHD; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS C-C BOND HYDROLASE, HYDROLASE, STRUCTURAL GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR S.BHOWMIK,J.T.BOLIN REVDAT 6 21-FEB-24 2PU5 1 REMARK REVDAT 5 18-OCT-17 2PU5 1 REMARK REVDAT 4 13-JUL-11 2PU5 1 VERSN REVDAT 3 24-FEB-09 2PU5 1 VERSN REVDAT 2 17-JUL-07 2PU5 1 JRNL REVDAT 1 22-MAY-07 2PU5 0 JRNL AUTH G.P.HORSMAN,S.BHOWMIK,S.Y.SEAH,P.KUMAR,J.T.BOLIN,L.D.ELTIS JRNL TITL THE TAUTOMERIC HALF-REACTION OF BPHD, A C-C BOND HYDROLASE: JRNL TITL 2 KINETIC AND STRUCTURAL EVIDENCE SUPPORTING A KEY ROLE FOR JRNL TITL 3 HISTIDINE 265 OF THE CATALYTIC TRIAD. JRNL REF J.BIOL.CHEM. V. 282 19894 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17442675 JRNL DOI 10.1074/JBC.M702237200 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 30815 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) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1553 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2103 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.54 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE SET COUNT : 99 REMARK 3 BIN FREE R VALUE : 0.3050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4492 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 95 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.41000 REMARK 3 B22 (A**2) : 0.41000 REMARK 3 B33 (A**2) : -0.62000 REMARK 3 B12 (A**2) : 0.21000 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): 0.271 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.252 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.176 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.070 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4651 ; 0.022 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6297 ; 2.022 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 576 ; 7.660 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 222 ;39.589 ;23.874 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 784 ;18.825 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;18.600 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 662 ; 0.132 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3595 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2321 ; 0.261 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3031 ; 0.331 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 379 ; 0.255 ; 0.500 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): 52 ; 0.213 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.422 ; 0.500 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): 2909 ;19.580 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4512 ;19.867 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2021 ;24.350 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1780 ;22.857 ; 3.000 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 : BABINET MODEL WITH 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2PU5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042778. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-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 : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30870 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 12.4000 REMARK 200 FOR THE DATA SET : 12.2000 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) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 33.2000 REMARK 200 FOR SHELL : 3.400 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 (%): 55.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0 M SODIUM, MALONATE, PH 6.0 OR 6.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 22.08933 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 44.17867 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 22.08933 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 44.17867 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TETRAMER GENERATED FROM THE REMARK 300 DIMER IN THE ASYMMETRIC UNIT RELATED BY THE CRYSTALLOGRAPHIC TWO REMARK 300 FOLD AXIS. 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 9120 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 -67.59150 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 117.07191 REMARK 350 BIOMT3 2 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 MET B 1 REMARK 465 THR B 2 REMARK 465 ALA B 3 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 C ILE A 153 CA LYS A 154 1.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 TYR A 53 CE2 TYR A 53 CD2 0.091 REMARK 500 LYS A 154 N LYS A 154 CA -0.546 REMARK 500 LYS A 154 CA LYS A 154 C 0.267 REMARK 500 GLU B 185 CB GLU B 185 CG 0.152 REMARK 500 GLU B 185 CG GLU B 185 CD 0.112 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 54 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 86 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 LYS A 154 C - N - CA ANGL. DEV. = -37.4 DEGREES REMARK 500 LYS A 154 N - CA - CB ANGL. DEV. = -53.0 DEGREES REMARK 500 LYS A 154 N - CA - C ANGL. DEV. = 20.0 DEGREES REMARK 500 ARG A 256 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 256 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 LEU B 39 CB - CG - CD2 ANGL. DEV. = -10.7 DEGREES REMARK 500 ASP B 78 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 ASN A 16 48.21 -146.41 REMARK 500 ASN A 75 -120.22 56.06 REMARK 500 ASP A 102 30.16 72.84 REMARK 500 SER A 112 -119.31 59.41 REMARK 500 PHE A 145 -38.04 -138.17 REMARK 500 ALA A 211 75.45 -155.07 REMARK 500 SER B 7 -119.08 -23.62 REMARK 500 SER B 8 -24.22 70.01 REMARK 500 VAL B 13 126.65 -171.51 REMARK 500 LYS B 18 -123.54 48.23 REMARK 500 ASP B 22 90.27 -21.99 REMARK 500 TYR B 27 146.11 -171.04 REMARK 500 PRO B 44 108.42 -42.47 REMARK 500 ASP B 61 6.43 -45.88 REMARK 500 ASN B 75 -117.29 20.89 REMARK 500 LEU B 88 -97.22 -40.10 REMARK 500 VAL B 89 -59.14 -15.66 REMARK 500 MET B 98 -76.04 -62.57 REMARK 500 ASP B 99 -52.12 -29.63 REMARK 500 ASP B 102 80.52 52.43 REMARK 500 SER B 112 -95.80 54.37 REMARK 500 TYR B 125 60.01 -119.89 REMARK 500 LEU B 140 32.13 -53.19 REMARK 500 PHE B 145 -36.33 -142.99 REMARK 500 SER B 180 21.02 -78.60 REMARK 500 GLN B 197 43.73 -140.74 REMARK 500 PRO B 212 126.98 -39.86 REMARK 500 PHE B 239 -45.13 -132.29 REMARK 500 LEU B 242 -63.04 -24.13 REMARK 500 ASP B 243 -16.21 -48.62 REMARK 500 HIS B 271 56.69 -117.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LYS A 154 LEU A 155 145.56 REMARK 500 SER B 7 SER B 8 145.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS A 154 -16.62 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 MLI A 287 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MLI B 287 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1U2E RELATED DB: PDB REMARK 900 RELATED ID: 1J1I RELATED DB: PDB REMARK 900 RELATED ID: 1C4X RELATED DB: PDB REMARK 900 RELATED ID: 2D0D RELATED DB: PDB REMARK 900 RELATED ID: 2PU6 RELATED DB: PDB REMARK 900 RELATED ID: 2PU7 RELATED DB: PDB REMARK 900 RELATED ID: 2PUH RELATED DB: PDB REMARK 900 RELATED ID: 2PUJ RELATED DB: PDB DBREF 2PU5 A 1 286 UNP P47229 BPHD_BURXL 1 286 DBREF 2PU5 B 1 286 UNP P47229 BPHD_BURXL 1 286 SEQRES 1 A 286 MET THR ALA LEU THR GLU SER SER THR SER LYS PHE VAL SEQRES 2 A 286 LYS ILE ASN GLU LYS GLY PHE SER ASP PHE ASN ILE HIS SEQRES 3 A 286 TYR ASN GLU ALA GLY ASN GLY GLU THR VAL ILE MET LEU SEQRES 4 A 286 HIS GLY GLY GLY PRO GLY ALA GLY GLY TRP SER ASN TYR SEQRES 5 A 286 TYR ARG ASN VAL GLY PRO PHE VAL ASP ALA GLY TYR ARG SEQRES 6 A 286 VAL ILE LEU LYS ASP SER PRO GLY PHE ASN LYS SER ASP SEQRES 7 A 286 ALA VAL VAL MET ASP GLU GLN ARG GLY LEU VAL ASN ALA SEQRES 8 A 286 ARG ALA VAL LYS GLY LEU MET ASP ALA LEU ASP ILE ASP SEQRES 9 A 286 ARG ALA HIS LEU VAL GLY ASN SER MET GLY GLY ALA THR SEQRES 10 A 286 ALA LEU ASN PHE ALA LEU GLU TYR PRO ASP ARG ILE GLY SEQRES 11 A 286 LYS LEU ILE LEU MET GLY PRO GLY GLY LEU GLY PRO SER SEQRES 12 A 286 MET PHE ALA PRO MET PRO MET GLU GLY ILE LYS LEU LEU SEQRES 13 A 286 PHE LYS LEU TYR ALA GLU PRO SER TYR GLU THR LEU LYS SEQRES 14 A 286 GLN MET LEU GLN VAL PHE LEU TYR ASP GLN SER LEU ILE SEQRES 15 A 286 THR GLU GLU LEU LEU GLN GLY ARG TRP GLU ALA ILE GLN SEQRES 16 A 286 ARG GLN PRO GLU HIS LEU LYS ASN PHE LEU ILE SER ALA SEQRES 17 A 286 GLN LYS ALA PRO LEU SER THR TRP ASP VAL THR ALA ARG SEQRES 18 A 286 LEU GLY GLU ILE LYS ALA LYS THR PHE ILE THR TRP GLY SEQRES 19 A 286 ARG ASP ASP ARG PHE VAL PRO LEU ASP HIS GLY LEU LYS SEQRES 20 A 286 LEU LEU TRP ASN ILE ASP ASP ALA ARG LEU HIS VAL PHE SEQRES 21 A 286 SER LYS CYS GLY HIS TRP ALA GLN TRP GLU HIS ALA ASP SEQRES 22 A 286 GLU PHE ASN ARG LEU VAL ILE ASP PHE LEU ARG HIS ALA SEQRES 1 B 286 MET THR ALA LEU THR GLU SER SER THR SER LYS PHE VAL SEQRES 2 B 286 LYS ILE ASN GLU LYS GLY PHE SER ASP PHE ASN ILE HIS SEQRES 3 B 286 TYR ASN GLU ALA GLY ASN GLY GLU THR VAL ILE MET LEU SEQRES 4 B 286 HIS GLY GLY GLY PRO GLY ALA GLY GLY TRP SER ASN TYR SEQRES 5 B 286 TYR ARG ASN VAL GLY PRO PHE VAL ASP ALA GLY TYR ARG SEQRES 6 B 286 VAL ILE LEU LYS ASP SER PRO GLY PHE ASN LYS SER ASP SEQRES 7 B 286 ALA VAL VAL MET ASP GLU GLN ARG GLY LEU VAL ASN ALA SEQRES 8 B 286 ARG ALA VAL LYS GLY LEU MET ASP ALA LEU ASP ILE ASP SEQRES 9 B 286 ARG ALA HIS LEU VAL GLY ASN SER MET GLY GLY ALA THR SEQRES 10 B 286 ALA LEU ASN PHE ALA LEU GLU TYR PRO ASP ARG ILE GLY SEQRES 11 B 286 LYS LEU ILE LEU MET GLY PRO GLY GLY LEU GLY PRO SER SEQRES 12 B 286 MET PHE ALA PRO MET PRO MET GLU GLY ILE LYS LEU LEU SEQRES 13 B 286 PHE LYS LEU TYR ALA GLU PRO SER TYR GLU THR LEU LYS SEQRES 14 B 286 GLN MET LEU GLN VAL PHE LEU TYR ASP GLN SER LEU ILE SEQRES 15 B 286 THR GLU GLU LEU LEU GLN GLY ARG TRP GLU ALA ILE GLN SEQRES 16 B 286 ARG GLN PRO GLU HIS LEU LYS ASN PHE LEU ILE SER ALA SEQRES 17 B 286 GLN LYS ALA PRO LEU SER THR TRP ASP VAL THR ALA ARG SEQRES 18 B 286 LEU GLY GLU ILE LYS ALA LYS THR PHE ILE THR TRP GLY SEQRES 19 B 286 ARG ASP ASP ARG PHE VAL PRO LEU ASP HIS GLY LEU LYS SEQRES 20 B 286 LEU LEU TRP ASN ILE ASP ASP ALA ARG LEU HIS VAL PHE SEQRES 21 B 286 SER LYS CYS GLY HIS TRP ALA GLN TRP GLU HIS ALA ASP SEQRES 22 B 286 GLU PHE ASN ARG LEU VAL ILE ASP PHE LEU ARG HIS ALA HET MLI A 287 7 HET MLI B 287 7 HETNAM MLI MALONATE ION FORMUL 3 MLI 2(C3 H2 O4 2-) FORMUL 5 HOH *95(H2 O) HELIX 1 1 GLU A 6 SER A 8 5 3 HELIX 2 2 GLY A 47 TYR A 53 1 7 HELIX 3 3 ASN A 55 ALA A 62 1 8 HELIX 4 4 GLN A 85 ASP A 102 1 18 HELIX 5 5 SER A 112 TYR A 125 1 14 HELIX 6 6 MET A 150 GLU A 162 1 13 HELIX 7 7 SER A 164 PHE A 175 1 12 HELIX 8 8 ASP A 178 ILE A 182 5 5 HELIX 9 9 THR A 183 GLN A 197 1 15 HELIX 10 10 GLN A 197 ALA A 211 1 15 HELIX 11 11 PRO A 212 ASP A 217 5 6 HELIX 12 12 VAL A 218 ILE A 225 5 8 HELIX 13 13 LEU A 242 ILE A 252 1 11 HELIX 14 14 TRP A 266 HIS A 271 1 6 HELIX 15 15 HIS A 271 ALA A 286 1 16 HELIX 16 16 GLY B 47 TYR B 53 1 7 HELIX 17 17 ASN B 55 ASP B 61 1 7 HELIX 18 18 GLN B 85 ASP B 102 1 18 HELIX 19 19 SER B 112 TYR B 125 1 14 HELIX 20 20 MET B 150 GLU B 162 1 13 HELIX 21 21 TYR B 165 LEU B 176 1 12 HELIX 22 22 ASP B 178 ILE B 182 5 5 HELIX 23 23 THR B 183 ARG B 196 1 14 HELIX 24 24 GLN B 197 ALA B 211 1 15 HELIX 25 25 PRO B 212 ASP B 217 5 6 HELIX 26 26 VAL B 218 ILE B 225 5 8 HELIX 27 27 LEU B 242 ILE B 252 1 11 HELIX 28 28 TRP B 266 HIS B 271 1 6 HELIX 29 29 HIS B 271 ALA B 286 1 16 SHEET 1 A16 SER A 10 ILE A 15 0 SHEET 2 A16 PHE A 23 ALA A 30 -1 O TYR A 27 N LYS A 11 SHEET 3 A16 TYR A 64 LYS A 69 -1 O VAL A 66 N ALA A 30 SHEET 4 A16 GLU A 34 LEU A 39 1 N MET A 38 O ILE A 67 SHEET 5 A16 ALA A 106 ASN A 111 1 O HIS A 107 N ILE A 37 SHEET 6 A16 ILE A 129 MET A 135 1 O ILE A 133 N LEU A 108 SHEET 7 A16 THR A 229 GLY A 234 1 O PHE A 230 N LEU A 134 SHEET 8 A16 ALA A 255 PHE A 260 1 O ARG A 256 N ILE A 231 SHEET 9 A16 ASP B 254 PHE B 260 -1 O LEU B 257 N VAL A 259 SHEET 10 A16 LYS B 228 GLY B 234 1 N THR B 229 O ASP B 254 SHEET 11 A16 ILE B 129 MET B 135 1 N LEU B 134 O THR B 232 SHEET 12 A16 ALA B 106 ASN B 111 1 N ALA B 106 O GLY B 130 SHEET 13 A16 THR B 35 LEU B 39 1 N THR B 35 O HIS B 107 SHEET 14 A16 ARG B 65 LYS B 69 1 O ILE B 67 N MET B 38 SHEET 15 A16 PHE B 23 ALA B 30 -1 N ASN B 28 O LEU B 68 SHEET 16 A16 SER B 10 ILE B 15 -1 N ILE B 15 O PHE B 23 CISPEP 1 MET A 148 PRO A 149 0 -3.08 CISPEP 2 GLU B 6 SER B 7 0 -14.72 CISPEP 3 MET B 148 PRO B 149 0 4.33 SITE 1 AC1 12 GLY A 41 GLY A 42 GLY A 43 ALA A 46 SITE 2 AC1 12 ASN A 51 ASN A 111 SER A 112 PHE A 175 SITE 3 AC1 12 ARG A 190 PHE A 239 HIS A 265 TRP A 266 SITE 1 AC2 11 GLY B 41 GLY B 42 GLY B 43 ALA B 46 SITE 2 AC2 11 ASN B 51 ASN B 111 SER B 112 ARG B 190 SITE 3 AC2 11 PHE B 239 HIS B 265 TRP B 266 CRYST1 135.183 135.183 66.268 90.00 90.00 120.00 P 64 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 0.007397 0.004271 0.000000 0.00000 SCALE2 0.000000 0.008542 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015090 0.00000