HEADER LYASE 21-MAY-08 3D7I TITLE CRYSTAL STRUCTURE OF CARBOXYMUCONOLACTONE DECARBOXYLASE FAMILY PROTEIN TITLE 2 POSSIBLY INVOLVED IN OXYGEN DETOXIFICATION (1591455) FROM TITLE 3 METHANOCOCCUS JANNASCHII AT 1.75 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CARBOXYMUCONOLACTONE DECARBOXYLASE FAMILY PROTEIN; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 2190; SOURCE 4 GENE: 1591455, MJ0742; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: MH4A KEYWDS 1591455, CARBOXYMUCONOLACTONE DECARBOXYLASE FAMILY PROTEIN POSSIBLY KEYWDS 2 INVOLVED IN OXYGEN DETOXIFICATION, STRUCTURAL GENOMICS, JOINT CENTER KEYWDS 3 FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, KEYWDS 4 LYASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 7 06-NOV-24 3D7I 1 REMARK REVDAT 6 01-FEB-23 3D7I 1 REMARK SEQADV REVDAT 5 24-JUL-19 3D7I 1 REMARK LINK REVDAT 4 25-OCT-17 3D7I 1 REMARK REVDAT 3 13-JUL-11 3D7I 1 VERSN REVDAT 2 24-FEB-09 3D7I 1 VERSN REVDAT 1 15-JUL-08 3D7I 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF CARBOXYMUCONOLACTONE DECARBOXYLASE JRNL TITL 2 FAMILY PROTEIN POSSIBLY INVOLVED IN OXYGEN DETOXIFICATION JRNL TITL 3 (1591455) FROM METHANOCOCCUS JANNASCHII AT 1.75 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.75 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 WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 38417 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) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1930 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2632 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.69 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 145 REMARK 3 BIN FREE R VALUE : 0.2830 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2128 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 104 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.13000 REMARK 3 B22 (A**2) : 0.30000 REMARK 3 B33 (A**2) : -0.43000 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): 0.090 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.089 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.541 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2305 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1491 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3155 ; 1.434 ; 2.012 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3744 ; 0.991 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 332 ; 4.807 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 65 ;37.527 ;25.538 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 432 ;12.888 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;25.592 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 407 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2522 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 404 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 556 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1516 ; 0.169 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1181 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1119 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 100 ; 0.141 ; 0.200 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): 30 ; 0.325 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 62 ; 0.247 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.214 ; 0.200 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): 1578 ; 1.961 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 613 ; 0.444 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2464 ; 2.824 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 835 ; 4.576 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 668 ; 5.807 ;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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 8 A 104 REMARK 3 ORIGIN FOR THE GROUP (A): 4.5769 44.4342 35.3467 REMARK 3 T TENSOR REMARK 3 T11: -0.0718 T22: -0.0564 REMARK 3 T33: -0.1053 T12: 0.0220 REMARK 3 T13: -0.0095 T23: 0.0139 REMARK 3 L TENSOR REMARK 3 L11: 1.3082 L22: 0.5479 REMARK 3 L33: 2.0585 L12: -0.1347 REMARK 3 L13: -1.2284 L23: -0.2010 REMARK 3 S TENSOR REMARK 3 S11: -0.0502 S12: -0.2787 S13: -0.0509 REMARK 3 S21: 0.1517 S22: 0.0389 S23: -0.1066 REMARK 3 S31: 0.0267 S32: 0.2692 S33: 0.0114 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 7 B 104 REMARK 3 ORIGIN FOR THE GROUP (A): 1.6628 70.6043 41.0202 REMARK 3 T TENSOR REMARK 3 T11: -0.0205 T22: -0.0085 REMARK 3 T33: 0.0075 T12: -0.0351 REMARK 3 T13: -0.0055 T23: -0.0409 REMARK 3 L TENSOR REMARK 3 L11: 0.6896 L22: 1.9157 REMARK 3 L33: 0.9238 L12: 1.0466 REMARK 3 L13: -0.4829 L23: -0.8420 REMARK 3 S TENSOR REMARK 3 S11: 0.0668 S12: -0.1508 S13: 0.0474 REMARK 3 S21: 0.2538 S22: -0.0951 S23: -0.2646 REMARK 3 S31: -0.0953 S32: 0.2359 S33: 0.0284 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 9 C 104 REMARK 3 ORIGIN FOR THE GROUP (A): -14.1002 62.9982 36.9439 REMARK 3 T TENSOR REMARK 3 T11: -0.0594 T22: -0.0412 REMARK 3 T33: -0.0313 T12: 0.0048 REMARK 3 T13: 0.0317 T23: -0.0082 REMARK 3 L TENSOR REMARK 3 L11: 0.5959 L22: 2.5771 REMARK 3 L33: 0.4121 L12: 0.3398 REMARK 3 L13: -0.3017 L23: -0.8092 REMARK 3 S TENSOR REMARK 3 S11: 0.0421 S12: 0.0543 S13: 0.0803 REMARK 3 S21: -0.1119 S22: 0.0353 S23: 0.2594 REMARK 3 S31: 0.0406 S32: -0.1770 S33: -0.0774 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.ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 3.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 4. SULFATE, GLYCEROL, AND PEG WERE MODELED BASED ON REMARK 3 CRYSTALLIZATION CONDITIONS. REMARK 4 REMARK 4 3D7I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000047689. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAY-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 3.7 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) : 0.91162,0.97929,0.97907 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 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38442 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 28.952 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : 0.07800 REMARK 200 FOR THE DATA SET : 4.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.53500 REMARK 200 R SYM FOR SHELL (I) : 0.53500 REMARK 200 FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM SULFATE, 17.8% REMARK 280 POLYETHYLENE GLYCOL 300, 10.0% GLYCEROL, 0.1M PHOSPHATE-CITRATE REMARK 280 PH 3.7, NANODROP, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 55.61850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.61850 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 1.000000 0.000000 0.000000 36.78550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.33600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 36.78550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.33600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 55.61850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 36.78550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 46.33600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 55.61850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 36.78550 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 46.33600 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: AUTHORS STATE THAT SIZE EXCLUSION CHROMATOGRAPHY WITH REMARK 300 STATIC LIGHT SCATTERING SUPPORTS THE ASSIGNMENT OF A HEXAMER AS A REMARK 300 SIGNIFICANT OLIGOMERIZATION STATE. 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 20480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -298.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 55.61850 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 MET A 1 REMARK 465 LYS A 2 REMARK 465 ASN A 3 REMARK 465 GLU A 4 REMARK 465 VAL A 5 REMARK 465 PHE A 6 REMARK 465 PHE A 7 REMARK 465 GLY B 0 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 ASN B 3 REMARK 465 GLU B 4 REMARK 465 VAL B 5 REMARK 465 PHE B 6 REMARK 465 GLY C 0 REMARK 465 MET C 1 REMARK 465 LYS C 2 REMARK 465 ASN C 3 REMARK 465 GLU C 4 REMARK 465 VAL C 5 REMARK 465 PHE C 6 REMARK 465 PHE C 7 REMARK 465 GLY C 8 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 9 CG CD OE1 OE2 REMARK 470 LYS A 12 CG CD CE NZ REMARK 470 GLU A 57 CG CD OE1 OE2 REMARK 470 GLU A 61 CG CD OE1 OE2 REMARK 470 LYS A 62 CG CD CE NZ REMARK 470 LYS A 65 CG CD CE NZ REMARK 470 LYS A 69 CD CE NZ REMARK 470 LYS A 99 CD CE NZ REMARK 470 LYS A 103 CD CE NZ REMARK 470 GLU B 9 CG CD OE1 OE2 REMARK 470 LYS B 27 CD CE NZ REMARK 470 GLU B 57 CD OE1 OE2 REMARK 470 VAL B 58 CG1 CG2 REMARK 470 GLU B 61 CD OE1 OE2 REMARK 470 LYS B 62 CG CD CE NZ REMARK 470 LYS B 65 CD CE NZ REMARK 470 LYS B 69 CG CD CE NZ REMARK 470 GLU B 70 CG CD OE1 OE2 REMARK 470 LYS B 99 CD CE NZ REMARK 470 LYS B 103 CD CE NZ REMARK 470 GLU C 9 CG CD OE1 OE2 REMARK 470 LYS C 12 CG CD CE NZ REMARK 470 LYS C 36 CD CE NZ REMARK 470 GLU C 61 CD OE1 OE2 REMARK 470 LYS C 62 CG CD CE NZ REMARK 470 LYS C 65 CD CE NZ REMARK 470 LYS C 69 CG CD CE NZ REMARK 470 GLU C 70 CG CD OE1 OE2 REMARK 470 LYS C 96 CE NZ REMARK 470 LYS C 99 CE NZ REMARK 470 LYS C 103 CD CE NZ 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 MSE B 98 SE MSE B 98 CE -0.517 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 ASP A 39 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 83 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG B 83 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG C 54 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG C 83 NE - CZ - NH1 ANGL. DEV. = 3.1 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 THR A 37 -49.80 -131.36 REMARK 500 THR A 37 -41.38 -135.66 REMARK 500 THR C 37 -40.75 -137.30 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 SO4 A 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 C 105 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 381877 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. THE CONSTRUCT REMARK 999 WAS ENGINEERED WITH THE FOLLOWING MUTATIONS: K15A, E16A, K17A. REMARK 999 SITES OF MUTATIONS WERE SELECTED FROM HIGH ENTROPY SITES PREDICTED REMARK 999 BY THE UCLA SURFACE ENTROPY REDUCTION SERVER. DBREF 3D7I A 1 104 UNP Q58152 Y742_METJA 1 104 DBREF 3D7I B 1 104 UNP Q58152 Y742_METJA 1 104 DBREF 3D7I C 1 104 UNP Q58152 Y742_METJA 1 104 SEQADV 3D7I GLY A 0 UNP Q58152 EXPRESSION TAG SEQADV 3D7I ALA A 15 UNP Q58152 LYS 15 SEE REMARK 999 SEQADV 3D7I ALA A 16 UNP Q58152 GLU 16 SEE REMARK 999 SEQADV 3D7I ALA A 17 UNP Q58152 LYS 17 SEE REMARK 999 SEQADV 3D7I GLY B 0 UNP Q58152 EXPRESSION TAG SEQADV 3D7I ALA B 15 UNP Q58152 LYS 15 SEE REMARK 999 SEQADV 3D7I ALA B 16 UNP Q58152 GLU 16 SEE REMARK 999 SEQADV 3D7I ALA B 17 UNP Q58152 LYS 17 SEE REMARK 999 SEQADV 3D7I GLY C 0 UNP Q58152 EXPRESSION TAG SEQADV 3D7I ALA C 15 UNP Q58152 LYS 15 SEE REMARK 999 SEQADV 3D7I ALA C 16 UNP Q58152 GLU 16 SEE REMARK 999 SEQADV 3D7I ALA C 17 UNP Q58152 LYS 17 SEE REMARK 999 SEQRES 1 A 105 GLY MET LYS ASN GLU VAL PHE PHE GLY GLU GLY MSE LYS SEQRES 2 A 105 VAL VAL ALA ALA ALA TYR PRO ASP LEU TYR ASP ILE ILE SEQRES 3 A 105 VAL LYS LEU ASN ASP THR VAL PHE THR GLY LYS THR LEU SEQRES 4 A 105 ASP TYR LYS THR GLN LYS LEU ILE ALA ILE GLY ILE VAL SEQRES 5 A 105 ALA SER ARG CYS ASP GLU VAL ALA ILE GLU LYS GLN MSE SEQRES 6 A 105 LYS SER ALA MSE LYS GLU LEU GLY ILE THR LYS GLU GLU SEQRES 7 A 105 ILE ALA ASP VAL LEU ARG VAL VAL LEU LEU THR SER GLY SEQRES 8 A 105 MSE PRO ALA PHE THR LYS ALA MSE LYS ILE LEU GLU LYS SEQRES 9 A 105 LEU SEQRES 1 B 105 GLY MET LYS ASN GLU VAL PHE PHE GLY GLU GLY MSE LYS SEQRES 2 B 105 VAL VAL ALA ALA ALA TYR PRO ASP LEU TYR ASP ILE ILE SEQRES 3 B 105 VAL LYS LEU ASN ASP THR VAL PHE THR GLY LYS THR LEU SEQRES 4 B 105 ASP TYR LYS THR GLN LYS LEU ILE ALA ILE GLY ILE VAL SEQRES 5 B 105 ALA SER ARG CYS ASP GLU VAL ALA ILE GLU LYS GLN MSE SEQRES 6 B 105 LYS SER ALA MSE LYS GLU LEU GLY ILE THR LYS GLU GLU SEQRES 7 B 105 ILE ALA ASP VAL LEU ARG VAL VAL LEU LEU THR SER GLY SEQRES 8 B 105 MSE PRO ALA PHE THR LYS ALA MSE LYS ILE LEU GLU LYS SEQRES 9 B 105 LEU SEQRES 1 C 105 GLY MET LYS ASN GLU VAL PHE PHE GLY GLU GLY MSE LYS SEQRES 2 C 105 VAL VAL ALA ALA ALA TYR PRO ASP LEU TYR ASP ILE ILE SEQRES 3 C 105 VAL LYS LEU ASN ASP THR VAL PHE THR GLY LYS THR LEU SEQRES 4 C 105 ASP TYR LYS THR GLN LYS LEU ILE ALA ILE GLY ILE VAL SEQRES 5 C 105 ALA SER ARG CYS ASP GLU VAL ALA ILE GLU LYS GLN MSE SEQRES 6 C 105 LYS SER ALA MSE LYS GLU LEU GLY ILE THR LYS GLU GLU SEQRES 7 C 105 ILE ALA ASP VAL LEU ARG VAL VAL LEU LEU THR SER GLY SEQRES 8 C 105 MSE PRO ALA PHE THR LYS ALA MSE LYS ILE LEU GLU LYS SEQRES 9 C 105 LEU MODRES 3D7I MSE A 11 MET SELENOMETHIONINE MODRES 3D7I MSE A 64 MET SELENOMETHIONINE MODRES 3D7I MSE A 68 MET SELENOMETHIONINE MODRES 3D7I MSE A 91 MET SELENOMETHIONINE MODRES 3D7I MSE A 98 MET SELENOMETHIONINE MODRES 3D7I MSE B 11 MET SELENOMETHIONINE MODRES 3D7I MSE B 64 MET SELENOMETHIONINE MODRES 3D7I MSE B 68 MET SELENOMETHIONINE MODRES 3D7I MSE B 91 MET SELENOMETHIONINE MODRES 3D7I MSE B 98 MET SELENOMETHIONINE MODRES 3D7I MSE C 11 MET SELENOMETHIONINE MODRES 3D7I MSE C 64 MET SELENOMETHIONINE MODRES 3D7I MSE C 68 MET SELENOMETHIONINE MODRES 3D7I MSE C 91 MET SELENOMETHIONINE MODRES 3D7I MSE C 98 MET SELENOMETHIONINE HET MSE A 11 8 HET MSE A 64 8 HET MSE A 68 8 HET MSE A 91 8 HET MSE A 98 13 HET MSE B 11 8 HET MSE B 64 8 HET MSE B 68 8 HET MSE B 91 13 HET MSE B 98 8 HET MSE C 11 8 HET MSE C 64 8 HET MSE C 68 8 HET MSE C 91 13 HET MSE C 98 8 HET SO4 A 105 5 HET SO4 A 106 5 HET SO4 B 105 5 HET PG4 C 105 13 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 1 MSE 15(C5 H11 N O2 SE) FORMUL 4 SO4 3(O4 S 2-) FORMUL 7 PG4 C8 H18 O5 FORMUL 8 HOH *104(H2 O) HELIX 1 1 GLY A 8 TYR A 18 1 11 HELIX 2 2 TYR A 18 PHE A 33 1 16 HELIX 3 3 ASP A 39 SER A 53 1 15 HELIX 4 4 ASP A 56 GLY A 72 1 17 HELIX 5 5 THR A 74 GLY A 90 1 17 HELIX 6 6 GLY A 90 LEU A 104 1 15 HELIX 7 7 GLY B 8 TYR B 18 1 11 HELIX 8 8 TYR B 18 PHE B 33 1 16 HELIX 9 9 ASP B 39 SER B 53 1 15 HELIX 10 10 ASP B 56 GLY B 72 1 17 HELIX 11 11 THR B 74 GLY B 90 1 17 HELIX 12 12 GLY B 90 LEU B 104 1 15 HELIX 13 13 GLY C 10 TYR C 18 1 9 HELIX 14 14 TYR C 18 PHE C 33 1 16 HELIX 15 15 ASP C 39 SER C 53 1 15 HELIX 16 16 ASP C 56 GLY C 72 1 17 HELIX 17 17 THR C 74 GLY C 90 1 17 HELIX 18 18 GLY C 90 LEU C 104 1 15 LINK C GLY A 10 N MSE A 11 1555 1555 1.33 LINK C MSE A 11 N LYS A 12 1555 1555 1.33 LINK C GLN A 63 N MSE A 64 1555 1555 1.35 LINK C MSE A 64 N LYS A 65 1555 1555 1.33 LINK C ALA A 67 N MSE A 68 1555 1555 1.34 LINK C MSE A 68 N LYS A 69 1555 1555 1.33 LINK C GLY A 90 N MSE A 91 1555 1555 1.33 LINK C MSE A 91 N PRO A 92 1555 1555 1.35 LINK C ALA A 97 N MSE A 98 1555 1555 1.34 LINK C MSE A 98 N LYS A 99 1555 1555 1.34 LINK C GLY B 10 N MSE B 11 1555 1555 1.33 LINK C MSE B 11 N LYS B 12 1555 1555 1.34 LINK C GLN B 63 N MSE B 64 1555 1555 1.33 LINK C MSE B 64 N LYS B 65 1555 1555 1.34 LINK C ALA B 67 N MSE B 68 1555 1555 1.33 LINK C MSE B 68 N LYS B 69 1555 1555 1.33 LINK C GLY B 90 N MSE B 91 1555 1555 1.32 LINK C MSE B 91 N PRO B 92 1555 1555 1.34 LINK C ALA B 97 N MSE B 98 1555 1555 1.34 LINK C MSE B 98 N LYS B 99 1555 1555 1.33 LINK C GLY C 10 N MSE C 11 1555 1555 1.33 LINK C MSE C 11 N LYS C 12 1555 1555 1.33 LINK C GLN C 63 N MSE C 64 1555 1555 1.33 LINK C MSE C 64 N LYS C 65 1555 1555 1.33 LINK C ALA C 67 N MSE C 68 1555 1555 1.33 LINK C MSE C 68 N LYS C 69 1555 1555 1.33 LINK C GLY C 90 N MSE C 91 1555 1555 1.32 LINK C MSE C 91 N PRO C 92 1555 1555 1.35 LINK C ALA C 97 N MSE C 98 1555 1555 1.32 LINK C MSE C 98 N LYS C 99 1555 1555 1.34 SITE 1 AC1 6 LYS A 36 ARG A 83 TYR C 18 PRO C 19 SITE 2 AC1 6 ASP C 20 LEU C 21 SITE 1 AC2 5 TYR A 18 PRO A 19 ASP A 20 LEU A 21 SITE 2 AC2 5 ARG B 83 SITE 1 AC3 5 TYR B 18 PRO B 19 ASP B 20 LEU B 21 SITE 2 AC3 5 LYS B 36 SITE 1 AC4 8 ILE A 73 THR A 74 LYS A 75 GLU A 76 SITE 2 AC4 8 TYR B 18 THR C 74 LYS C 75 GLU C 76 CRYST1 73.571 92.672 111.237 90.00 90.00 90.00 C 2 2 21 24 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 0.013592 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010791 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008990 0.00000