HEADER LYASE 08-SEP-08 3EF8 TITLE CRYSTAL STRUCTURE OF PUTATIVE SCYTALONE DEHYDRATASE (YP_496742.1) FROM TITLE 2 NOVOSPHINGOBIUM AROMATICIVORANS DSM 12444 AT 1.50 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE SCYALONE DEHYDRATASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOVOSPHINGOBIUM AROMATICIVORANS DSM 12444; SOURCE 3 ORGANISM_TAXID: 279238; SOURCE 4 GENE: YP_496742.1, SARO_1465; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS YP_496742.1, PUTATIVE SCYTALONE DEHYDRATASE, STRUCTURAL GENOMICS, KEYWDS 2 JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE KEYWDS 3 INITIATIVE, PSI-2, UNKNOWN FUNCTION, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3EF8 1 REMARK SEQADV LINK REVDAT 5 24-JUL-19 3EF8 1 REMARK LINK REVDAT 4 25-OCT-17 3EF8 1 REMARK REVDAT 3 13-SEP-17 3EF8 1 TITLE KEYWDS REMARK REVDAT 2 24-FEB-09 3EF8 1 VERSN REVDAT 1 30-SEP-08 3EF8 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE SCYALONE DEHYDRATASE JRNL TITL 2 (YP_496742.1) FROM NOVOSPHINGOBIUM AROMATICIVORANS DSM 12444 JRNL TITL 3 AT 1.50 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0067 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 50819 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2579 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3577 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE SET COUNT : 205 REMARK 3 BIN FREE R VALUE : 0.2200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2352 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 128 REMARK 3 SOLVENT ATOMS : 232 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : 0.01000 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): 0.068 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.069 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.047 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2610 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1836 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3494 ; 1.683 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4421 ; 1.047 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 315 ; 5.431 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 122 ;29.574 ;22.459 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 406 ;11.880 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;16.623 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 370 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2871 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 571 ; 0.002 ; 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): 1538 ; 1.717 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 624 ; 0.471 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2488 ; 2.766 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1072 ; 4.163 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1006 ; 6.085 ;11.000 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 : MASK 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: REMARK 3 1.HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2.A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL REMARK 3 S-MET INCORPORATION. REMARK 3 3.A MAGNESIUM ION AND POLYETHYLENE GLYCOL FROM CRYSTALLIZATION REMARK 3 AND CRYOPROTECTION CONDITIONS HAVE BEEN MODELED IN THE STRUCTURE. REMARK 4 REMARK 4 3EF8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1000049248. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-FEB-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97905 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : FLAT COLLIMATING MIRROR, TOROID REMARK 200 FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50820 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 29.921 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.12700 REMARK 200 R SYM (I) : 0.12700 REMARK 200 FOR THE DATA SET : 3.7310 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.81800 REMARK 200 R SYM FOR SHELL (I) : 0.81800 REMARK 200 FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2000M MGCL2, 20.0000% PEG-8000, 0.1M REMARK 280 TRIS PH 8.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.92550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.27750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 79.16800 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 29.92550 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 17.27750 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 79.16800 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 29.92550 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 17.27750 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 79.16800 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 34.55499 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 158.33600 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 34.55499 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 158.33600 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 34.55499 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 158.33600 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 300 REMARK: AUTHORS STATE THAT SIZE EXCLUSION CHROMATOGRAPHY WITH REMARK 300 STATIC LIGHT SCATTERING SUPPORTS THE ASSIGNMENT OF A TRIMER AS A REMARK 300 SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION. 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 KCAL/MOL 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 BIOMT1 2 -0.500000 -0.866025 0.000000 -29.92550 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 51.83249 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -59.85100 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 MG MG A 150 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 277 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 279 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 265 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 GLY A 0 REMARK 465 GLY B 0 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 MSE A 1 SE CE REMARK 470 THR A 2 OG1 CG2 REMARK 470 ASP A 3 CG OD1 OD2 REMARK 470 ASN A 46 CG OD1 ND2 REMARK 470 LYS A 57 CD CE NZ REMARK 470 GLU A 60 CG CD OE1 OE2 REMARK 470 PHE A 65 CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 101 CD OE1 OE2 REMARK 470 ARG A 140 CD NE CZ NH1 NH2 REMARK 470 GLU A 149 CG CD OE1 OE2 REMARK 470 MSE B 1 CG SE CE REMARK 470 ASP B 3 CG OD1 OD2 REMARK 470 ASN B 46 CG OD1 ND2 REMARK 470 LYS B 57 CD CE NZ REMARK 470 GLU B 60 CG CD OE1 OE2 REMARK 470 PHE B 65 CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 101 CG CD OE1 OE2 REMARK 470 LYS B 125 CE NZ REMARK 470 ARG B 140 CZ NH1 NH2 REMARK 470 GLU B 149 CD OE1 OE2 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 10 NE - CZ - NH1 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG B 97 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG B 97 NE - CZ - NH2 ANGL. DEV. = -4.1 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 HIS A 27 74.76 -116.47 REMARK 500 ASP A 38 46.34 -94.64 REMARK 500 HIS B 27 71.80 -113.53 REMARK 500 ASP B 38 54.64 -100.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 150 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 196 O REMARK 620 2 HOH A 220 O 90.7 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 151 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 152 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 153 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 151 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 155 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 156 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 157 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 B 152 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 158 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 B 153 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 B 154 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 367578 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3EF8 A 1 149 UNP Q2G8B5 Q2G8B5_NOVAD 1 149 DBREF 3EF8 B 1 149 UNP Q2G8B5 Q2G8B5_NOVAD 1 149 SEQADV 3EF8 GLY A 0 UNP Q2G8B5 EXPRESSION TAG SEQADV 3EF8 GLY B 0 UNP Q2G8B5 EXPRESSION TAG SEQRES 1 A 150 GLY MSE THR ASP THR ASN LEU VAL GLU MSE ARG ALA ILE SEQRES 2 A 150 GLU ARG MSE MSE PHE ASP TYR SER TYR HIS LEU ASP MSE SEQRES 3 A 150 ASN HIS PRO GLU GLU LEU ALA ALA LEU PHE VAL GLU ASP SEQRES 4 A 150 CYS GLU VAL SER TYR ALA PRO ASN PHE GLY ALA THR GLY SEQRES 5 A 150 ARG ASP ALA TYR LYS LYS THR LEU GLU GLY ILE GLY THR SEQRES 6 A 150 PHE PHE ARG GLY THR SER HIS HIS ASN SER ASN ILE CYS SEQRES 7 A 150 ILE ASP PHE VAL SER GLU THR GLU ALA ASN VAL ARG SER SEQRES 8 A 150 VAL VAL LEU ALA ILE HIS ARG TYR THR LYS GLU ARG PRO SEQRES 9 A 150 ASP GLY ILE LEU TYR GLY GLN TYR PHE ASP THR VAL VAL SEQRES 10 A 150 LYS VAL ASP GLY GLN TRP LYS PHE LYS ARG ARG GLU LEU SEQRES 11 A 150 ARG THR THR MSE THR THR ASP TYR HIS VAL ARG ALA ALA SEQRES 12 A 150 ASN PRO ILE GLY ARG ALA GLU SEQRES 1 B 150 GLY MSE THR ASP THR ASN LEU VAL GLU MSE ARG ALA ILE SEQRES 2 B 150 GLU ARG MSE MSE PHE ASP TYR SER TYR HIS LEU ASP MSE SEQRES 3 B 150 ASN HIS PRO GLU GLU LEU ALA ALA LEU PHE VAL GLU ASP SEQRES 4 B 150 CYS GLU VAL SER TYR ALA PRO ASN PHE GLY ALA THR GLY SEQRES 5 B 150 ARG ASP ALA TYR LYS LYS THR LEU GLU GLY ILE GLY THR SEQRES 6 B 150 PHE PHE ARG GLY THR SER HIS HIS ASN SER ASN ILE CYS SEQRES 7 B 150 ILE ASP PHE VAL SER GLU THR GLU ALA ASN VAL ARG SER SEQRES 8 B 150 VAL VAL LEU ALA ILE HIS ARG TYR THR LYS GLU ARG PRO SEQRES 9 B 150 ASP GLY ILE LEU TYR GLY GLN TYR PHE ASP THR VAL VAL SEQRES 10 B 150 LYS VAL ASP GLY GLN TRP LYS PHE LYS ARG ARG GLU LEU SEQRES 11 B 150 ARG THR THR MSE THR THR ASP TYR HIS VAL ARG ALA ALA SEQRES 12 B 150 ASN PRO ILE GLY ARG ALA GLU MODRES 3EF8 MSE A 1 MET SELENOMETHIONINE MODRES 3EF8 MSE A 9 MET SELENOMETHIONINE MODRES 3EF8 MSE A 15 MET SELENOMETHIONINE MODRES 3EF8 MSE A 16 MET SELENOMETHIONINE MODRES 3EF8 MSE A 25 MET SELENOMETHIONINE MODRES 3EF8 MSE A 133 MET SELENOMETHIONINE MODRES 3EF8 MSE B 1 MET SELENOMETHIONINE MODRES 3EF8 MSE B 9 MET SELENOMETHIONINE MODRES 3EF8 MSE B 15 MET SELENOMETHIONINE MODRES 3EF8 MSE B 16 MET SELENOMETHIONINE MODRES 3EF8 MSE B 25 MET SELENOMETHIONINE MODRES 3EF8 MSE B 133 MET SELENOMETHIONINE HET MSE A 1 6 HET MSE A 9 8 HET MSE A 15 8 HET MSE A 16 8 HET MSE A 25 8 HET MSE A 133 16 HET MSE B 1 5 HET MSE B 9 8 HET MSE B 15 8 HET MSE B 16 8 HET MSE B 25 8 HET MSE B 133 16 HET MG A 150 1 HET PEG A 151 7 HET PEG A 152 7 HET PEG A 153 7 HET PGE A 154 10 HET PGE A 155 10 HET PGE A 156 10 HET PGE A 157 10 HET PG4 A 158 13 HET PEG B 150 7 HET PEG B 151 7 HET PG4 B 152 13 HET PG4 B 153 13 HET PG4 B 154 13 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM PGE TRIETHYLENE GLYCOL HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 3 MG MG 2+ FORMUL 4 PEG 5(C4 H10 O3) FORMUL 7 PGE 4(C6 H14 O4) FORMUL 11 PG4 4(C8 H18 O5) FORMUL 17 HOH *232(H2 O) HELIX 1 1 MSE A 1 MSE A 25 1 25 HELIX 2 2 HIS A 27 ALA A 33 1 7 HELIX 3 3 GLY A 51 LEU A 59 1 9 HELIX 4 4 GLY A 61 PHE A 65 1 5 HELIX 5 5 MSE B 1 MSE B 25 1 25 HELIX 6 6 HIS B 27 ALA B 33 1 7 HELIX 7 7 GLY B 51 LEU B 59 1 9 HELIX 8 8 GLY B 61 PHE B 65 1 5 SHEET 1 A 6 PHE A 47 THR A 50 0 SHEET 2 A 6 PHE A 35 ALA A 44 -1 N TYR A 43 O PHE A 47 SHEET 3 A 6 GLN A 121 THR A 135 1 O LEU A 129 N SER A 42 SHEET 4 A 6 GLY A 105 VAL A 118 -1 N GLN A 110 O ARG A 130 SHEET 5 A 6 GLU A 85 TYR A 98 -1 N VAL A 88 O ASP A 113 SHEET 6 A 6 PHE A 66 SER A 82 -1 N GLY A 68 O ARG A 97 SHEET 1 B 6 PHE B 47 THR B 50 0 SHEET 2 B 6 PHE B 35 ALA B 44 -1 N TYR B 43 O PHE B 47 SHEET 3 B 6 GLN B 121 THR B 135 1 O LEU B 129 N SER B 42 SHEET 4 B 6 GLY B 105 VAL B 118 -1 N GLN B 110 O ARG B 130 SHEET 5 B 6 GLU B 85 TYR B 98 -1 N VAL B 88 O ASP B 113 SHEET 6 B 6 PHE B 66 SER B 82 -1 N CYS B 77 O ARG B 89 LINK C MSE A 1 N THR A 2 1555 1555 1.32 LINK C GLU A 8 N MSE A 9 1555 1555 1.33 LINK C MSE A 9 N ARG A 10 1555 1555 1.32 LINK C ARG A 14 N MSE A 15 1555 1555 1.33 LINK C MSE A 15 N MSE A 16 1555 1555 1.33 LINK C MSE A 16 N PHE A 17 1555 1555 1.32 LINK C ASP A 24 N MSE A 25 1555 1555 1.33 LINK C MSE A 25 N ASN A 26 1555 1555 1.31 LINK C THR A 132 N AMSE A 133 1555 1555 1.33 LINK C THR A 132 N BMSE A 133 1555 1555 1.33 LINK C AMSE A 133 N THR A 134 1555 1555 1.33 LINK C BMSE A 133 N THR A 134 1555 1555 1.33 LINK C MSE B 1 N THR B 2 1555 1555 1.33 LINK C GLU B 8 N MSE B 9 1555 1555 1.32 LINK C MSE B 9 N ARG B 10 1555 1555 1.32 LINK C ARG B 14 N MSE B 15 1555 1555 1.33 LINK C MSE B 15 N MSE B 16 1555 1555 1.32 LINK C MSE B 16 N PHE B 17 1555 1555 1.31 LINK C ASP B 24 N MSE B 25 1555 1555 1.30 LINK C MSE B 25 N ASN B 26 1555 1555 1.32 LINK C THR B 132 N AMSE B 133 1555 1555 1.33 LINK C THR B 132 N BMSE B 133 1555 1555 1.32 LINK C AMSE B 133 N THR B 134 1555 1555 1.33 LINK C BMSE B 133 N THR B 134 1555 1555 1.34 LINK MG MG A 150 O HOH A 196 1555 1555 2.15 LINK MG MG A 150 O HOH A 220 1555 1555 2.07 SITE 1 AC1 2 HOH A 196 HOH A 220 SITE 1 AC2 2 ARG A 97 THR A 132 SITE 1 AC3 4 ARG A 14 ASP A 79 GLN A 121 LYS B 100 SITE 1 AC4 1 GLU A 101 SITE 1 AC5 6 ASP B 79 ASN B 87 VAL B 88 PHE B 112 SITE 2 AC5 6 ASP B 113 HOH B 218 SITE 1 AC6 2 GLU B 8 GLU B 83 SITE 1 AC7 7 VAL A 7 GLU A 8 ALA A 11 LYS A 117 SITE 2 AC7 7 HOH A 195 HOH A 206 HOH A 219 SITE 1 AC8 4 ASP A 38 GLU A 40 GLU A 85 LYS A 125 SITE 1 AC9 7 ARG A 14 CYS A 77 ASP A 79 ASN A 87 SITE 2 AC9 7 VAL A 88 ARG A 89 ASP A 113 SITE 1 BC1 8 ASN A 5 VAL A 7 MSE A 9 ARG A 10 SITE 2 BC1 8 ARG A 14 CYS A 77 ILE A 78 HOH A 180 SITE 1 BC2 7 ARG B 67 ARG B 97 THR B 131 THR B 132 SITE 2 BC2 7 THR B 134 ARG B 140 HOH B 180 SITE 1 BC3 6 GLU A 101 ARG A 102 PRO A 103 ASP A 104 SITE 2 BC3 6 HOH A 204 HOH A 243 SITE 1 BC4 8 ARG B 130 PRO B 144 ILE B 145 GLY B 146 SITE 2 BC4 8 ARG B 147 HOH B 175 HOH B 199 HOH B 201 SITE 1 BC5 4 ARG B 102 PRO B 103 ASP B 104 HOH B 217 CRYST1 59.851 59.851 237.504 90.00 90.00 120.00 H 3 18 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 0.016708 0.009646 0.000000 0.00000 SCALE2 0.000000 0.019293 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004210 0.00000 HETATM 1 N MSE A 1 -7.945 7.354 21.222 1.00 40.35 N HETATM 2 CA MSE A 1 -7.939 5.925 20.818 1.00 38.08 C HETATM 3 C MSE A 1 -7.220 5.082 21.858 1.00 37.52 C HETATM 4 O MSE A 1 -6.896 5.546 22.955 1.00 34.36 O HETATM 5 CB MSE A 1 -7.233 5.747 19.470 1.00 37.88 C HETATM 6 CG MSE A 1 -5.712 5.826 19.564 1.00 38.77 C