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