HEADER OXIDOREDUCTASE 12-AUG-09 3ING TITLE CRYSTAL STRUCTURE OF HOMOSERINE DEHYDROGENASE (NP_394635.1) FROM TITLE 2 THERMOPLASMA ACIDOPHILUM AT 1.95 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: HOMOSERINE DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOPLASMA ACIDOPHILUM; SOURCE 3 ORGANISM_COMMON: ARCHAEA; SOURCE 4 ORGANISM_TAXID: 2303; SOURCE 5 GENE: NP_394635.1, TA1179; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS NP_394635.1, HOMOSERINE DEHYDROGENASE, STRUCTURAL GENOMICS, JOINT KEYWDS 2 CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 PSI-2, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 5 01-FEB-23 3ING 1 REMARK SEQADV REVDAT 4 24-JUL-19 3ING 1 REMARK LINK REVDAT 3 25-OCT-17 3ING 1 REMARK REVDAT 2 13-JUL-11 3ING 1 VERSN REVDAT 1 01-SEP-09 3ING 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF HOMOSERINE DEHYDROGENASE (NP_394635.1) JRNL TITL 2 FROM THERMOPLASMA ACIDOPHILUM AT 1.95 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.95 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 28657 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) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1435 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1990 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 93 REMARK 3 BIN FREE R VALUE : 0.2430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2405 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 73 REMARK 3 SOLVENT ATOMS : 214 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 20.32 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : 0.99000 REMARK 3 B33 (A**2) : -1.04000 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): 0.125 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.122 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.083 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.481 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2589 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1704 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3517 ; 1.623 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4163 ; 1.120 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 335 ; 5.140 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 110 ;38.700 ;24.455 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 428 ;11.692 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;15.330 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 409 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2916 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 499 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 536 ; 0.242 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1963 ; 0.197 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1306 ; 0.182 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): 1324 ; 0.091 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 321 ; 0.188 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.027 ; 0.500 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): 9 ; 0.238 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 33 ; 0.311 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 22 ; 0.224 ; 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): 1633 ; 1.909 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 675 ; 0.543 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2638 ; 3.113 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 977 ; 4.977 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 879 ; 7.159 ;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 : 1 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 2 A 322 REMARK 3 ORIGIN FOR THE GROUP (A): 31.2118 31.4842 13.9403 REMARK 3 T TENSOR REMARK 3 T11: -0.0475 T22: -0.0398 REMARK 3 T33: -0.0482 T12: -0.0017 REMARK 3 T13: -0.0123 T23: 0.0062 REMARK 3 L TENSOR REMARK 3 L11: 0.6958 L22: 0.7172 REMARK 3 L33: 0.7958 L12: 0.1058 REMARK 3 L13: 0.1240 L23: -0.0433 REMARK 3 S TENSOR REMARK 3 S11: 0.0193 S12: -0.0168 S13: -0.0511 REMARK 3 S21: -0.0439 S22: -0.0056 S23: -0.0127 REMARK 3 S31: 0.0291 S32: -0.0293 S33: -0.0137 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 : 1.20 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 OTHER REFINEMENT REMARKS: 1.HYDROGENS HAVE BEEN ADDED REMARK 3 IN THE RIDING POSITIONS. 2.ATOM RECORD CONTAINS RESIDUAL B REMARK 3 FACTORS ONLY. 3.A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL REMARK 3 S-MET INCORPORATION. 4.DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE REMARK 3 PHOSPHATE (NDP) AND SODIUM (NA), MOST LIKELY BOUND DURING REMARK 3 PROTEIN EXPRESSION WERE MODELED INTO THE STRUCTURE. THE SODIUM REMARK 3 WAS ASSIGNED BASED ON THE COORDINATION ENVIRONMENT, AGREEMENT REMARK 3 WITH ELECTRON DENSITY AND IT STRUCTURAL HOMOLOG(PDB ID 1EBU). REMARK 3 ETHYLENE GLYCOL (EDO) USED AS CRYOPROTECTANT WAS MODELED INTO REMARK 3 THE STRUCTURE. 5.THE RAMACHANDRAN OUTLIER (GLY146) IS SUPPORTED REMARK 3 BY ELECTRON DENSITY. REMARK 4 REMARK 4 3ING COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-AUG-09. REMARK 100 THE DEPOSITION ID IS D_1000054630. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.14 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) : 0.91162,0.97927,0.97908 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28686 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 28.105 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 3.650 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.4500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.49900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: DATA WERE SCALED USING XSCALE WITH FRIEDEL PAIRS KEPT AS REMARK 200 SEPARATE WHEN COMPUTING R-SYM, COMPLETENESS AND REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 49.0000% 2-PROPANOL, 5.0000% REMARK 280 POLYETHYLENE GLYCOL 1000, 0.1M CITRIC ACID PH 5.14, NANODROP, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 60.39400 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 60.39400 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 34.91050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.05650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 34.91050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.05650 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 60.39400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 34.91050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 46.05650 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 60.39400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 34.91050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 46.05650 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: ANALYTICAL SIZE EXCLUSION CHROMATOGRAPHY PROVIDES REMARK 300 SUPPORTING EVIDENCE THAT THE DIMER IS A SIGNIFICANT OLIGOMERIZATION REMARK 300 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 10.0 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 -1.000000 0.000000 0.000000 69.82100 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 60.39400 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 MSE A 1 REMARK 465 SER A 30 REMARK 465 ALA A 31 REMARK 465 GLN A 323 REMARK 465 LYS A 324 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 LYS A 2 CG CD CE NZ REMARK 470 ARG A 29 NE CZ NH1 NH2 REMARK 470 PHE A 32 CD1 CD2 CE1 CE2 CZ REMARK 470 SER A 33 OG REMARK 470 LYS A 35 CE NZ REMARK 470 ARG A 49 NE CZ NH1 NH2 REMARK 470 ASN A 50 CG OD1 ND2 REMARK 470 GLU A 75 CG CD OE1 OE2 REMARK 470 LYS A 164 CE NZ REMARK 470 ARG A 165 CZ NH1 NH2 REMARK 470 GLU A 235 CG CD OE1 OE2 REMARK 470 ASP A 257 CG OD1 OD2 REMARK 470 ASP A 258 CG OD1 OD2 REMARK 470 ARG A 259 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 260 NE CZ NH1 NH2 REMARK 470 LYS A 272 CG 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 A 110 SE MSE A 110 CE -0.470 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 LEU A 84 CA - CB - CG ANGL. DEV. = 13.9 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 ASP A 41 -167.83 -125.56 REMARK 500 ASN A 50 74.26 -108.00 REMARK 500 TYR A 140 35.98 -150.18 REMARK 500 LEU A 150 -68.05 -138.76 REMARK 500 ARG A 259 -3.41 63.86 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 NA A 325 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 141 O REMARK 620 2 GLU A 141 OE2 78.3 REMARK 620 3 VAL A 144 O 82.7 127.6 REMARK 620 4 ALA A 145 O 119.9 159.6 67.6 REMARK 620 5 VAL A 148 O 157.4 83.1 119.1 77.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 325 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NDP A 326 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 327 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 328 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 329 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 330 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 332 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 380082 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 3ING A 1 324 UNP Q9HIZ7 Q9HIZ7_THEAC 1 324 SEQADV 3ING GLY A 0 UNP Q9HIZ7 EXPRESSION TAG SEQRES 1 A 325 GLY MSE LYS GLU ILE ARG ILE ILE LEU MSE GLY THR GLY SEQRES 2 A 325 ASN VAL GLY LEU ASN VAL LEU ARG ILE ILE ASP ALA SER SEQRES 3 A 325 ASN ARG ARG ARG SER ALA PHE SER ILE LYS VAL VAL GLY SEQRES 4 A 325 VAL SER ASP SER ARG SER TYR ALA SER GLY ARG ASN LEU SEQRES 5 A 325 ASP ILE SER SER ILE ILE SER ASN LYS GLU LYS THR GLY SEQRES 6 A 325 ARG ILE SER ASP ARG ALA PHE SER GLY PRO GLU ASP LEU SEQRES 7 A 325 MSE GLY GLU ALA ALA ASP LEU LEU VAL ASP CYS THR PRO SEQRES 8 A 325 ALA SER ARG ASP GLY VAL ARG GLU TYR SER LEU TYR ARG SEQRES 9 A 325 MSE ALA PHE GLU SER GLY MSE ASN VAL VAL THR ALA ASN SEQRES 10 A 325 LYS SER GLY LEU ALA ASN LYS TRP HIS ASP ILE MSE ASP SEQRES 11 A 325 SER ALA ASN GLN ASN SER LYS TYR ILE ARG TYR GLU ALA SEQRES 12 A 325 THR VAL ALA GLY GLY VAL PRO LEU PHE SER VAL LEU ASP SEQRES 13 A 325 TYR SER ILE LEU PRO SER LYS VAL LYS ARG PHE ARG GLY SEQRES 14 A 325 ILE VAL SER SER THR ILE ASN TYR VAL ILE ARG ASN MSE SEQRES 15 A 325 ALA ASN GLY ARG SER LEU ARG ASP VAL VAL ASP ASP ALA SEQRES 16 A 325 ILE LYS LYS GLY ILE ALA GLU SER ASN PRO GLN ASP ASP SEQRES 17 A 325 LEU ASN GLY LEU ASP ALA ALA ARG LYS SER VAL ILE LEU SEQRES 18 A 325 VAL ASN HIS ILE PHE GLY THR GLU TYR THR LEU ASN ASP SEQRES 19 A 325 VAL GLU TYR SER GLY VAL ASP GLU ARG SER TYR ASN ALA SEQRES 20 A 325 ASN ASP ARG LEU VAL THR GLU VAL TYR VAL ASP ASP ARG SEQRES 21 A 325 ARG PRO VAL ALA VAL SER ARG ILE ILE SER LEU ASN LYS SEQRES 22 A 325 ASP ASP PHE LEU MSE SER ILE GLY MSE ASP GLY LEU GLY SEQRES 23 A 325 TYR GLN ILE GLU THR ASP SER ASN GLY THR VAL ASN VAL SEQRES 24 A 325 SER ASP ILE TYR ASP GLY PRO TYR GLU THR ALA GLY ALA SEQRES 25 A 325 VAL VAL ASN ASP ILE LEU LEU LEU SER LYS VAL GLN LYS MODRES 3ING MSE A 9 MET SELENOMETHIONINE MODRES 3ING MSE A 78 MET SELENOMETHIONINE MODRES 3ING MSE A 104 MET SELENOMETHIONINE MODRES 3ING MSE A 110 MET SELENOMETHIONINE MODRES 3ING MSE A 128 MET SELENOMETHIONINE MODRES 3ING MSE A 181 MET SELENOMETHIONINE MODRES 3ING MSE A 277 MET SELENOMETHIONINE MODRES 3ING MSE A 281 MET SELENOMETHIONINE HET MSE A 9 8 HET MSE A 78 8 HET MSE A 104 8 HET MSE A 110 8 HET MSE A 128 8 HET MSE A 181 8 HET MSE A 277 8 HET MSE A 281 8 HET NA A 325 1 HET NDP A 326 48 HET EDO A 327 4 HET EDO A 328 4 HET EDO A 329 4 HET EDO A 330 4 HET EDO A 331 4 HET EDO A 332 4 HETNAM MSE SELENOMETHIONINE HETNAM NA SODIUM ION HETNAM NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM 2 NDP PHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 2 NA NA 1+ FORMUL 3 NDP C21 H30 N7 O17 P3 FORMUL 4 EDO 6(C2 H6 O2) FORMUL 10 HOH *214(H2 O) HELIX 1 1 GLY A 12 ARG A 29 1 18 HELIX 2 2 ASP A 52 GLY A 64 1 13 HELIX 3 3 GLY A 73 MSE A 78 5 6 HELIX 4 4 GLY A 95 SER A 108 1 14 HELIX 5 5 LYS A 117 SER A 135 1 19 HELIX 6 6 TYR A 140 VAL A 144 5 5 HELIX 7 7 LEU A 150 SER A 157 1 8 HELIX 8 8 SER A 171 ASN A 183 1 13 HELIX 9 9 SER A 186 GLY A 198 1 13 HELIX 10 10 PRO A 204 ASN A 209 1 6 HELIX 11 11 GLY A 210 GLY A 226 1 17 HELIX 12 12 THR A 230 VAL A 234 5 5 HELIX 13 13 ASP A 274 ILE A 279 5 6 HELIX 14 14 GLY A 304 LYS A 321 1 18 SHEET 1 A 6 TYR A 45 SER A 47 0 SHEET 2 A 6 SER A 33 SER A 40 -1 N VAL A 39 O ALA A 46 SHEET 3 A 6 GLU A 3 MSE A 9 1 N ILE A 4 O LYS A 35 SHEET 4 A 6 LEU A 84 ASP A 87 1 O VAL A 86 N MSE A 9 SHEET 5 A 6 ASN A 111 THR A 114 1 O VAL A 113 N LEU A 85 SHEET 6 A 6 ILE A 138 ARG A 139 1 O ARG A 139 N THR A 114 SHEET 1 B 5 ARG A 260 SER A 269 0 SHEET 2 B 5 ASP A 248 ASP A 257 -1 N TYR A 255 O VAL A 262 SHEET 3 B 5 VAL A 163 ILE A 169 -1 N GLY A 168 O THR A 252 SHEET 4 B 5 GLY A 285 THR A 290 -1 O GLU A 289 N LYS A 164 SHEET 5 B 5 THR A 295 SER A 299 -1 O VAL A 296 N ILE A 288 LINK C LEU A 8 N MSE A 9 1555 1555 1.33 LINK C MSE A 9 N GLY A 10 1555 1555 1.33 LINK C LEU A 77 N MSE A 78 1555 1555 1.31 LINK C MSE A 78 N GLY A 79 1555 1555 1.33 LINK C ARG A 103 N MSE A 104 1555 1555 1.33 LINK C MSE A 104 N ALA A 105 1555 1555 1.33 LINK C GLY A 109 N MSE A 110 1555 1555 1.33 LINK C MSE A 110 N ASN A 111 1555 1555 1.34 LINK C ILE A 127 N MSE A 128 1555 1555 1.34 LINK C MSE A 128 N ASP A 129 1555 1555 1.33 LINK C ASN A 180 N MSE A 181 1555 1555 1.32 LINK C MSE A 181 N ALA A 182 1555 1555 1.34 LINK C LEU A 276 N MSE A 277 1555 1555 1.33 LINK C MSE A 277 N SER A 278 1555 1555 1.35 LINK C GLY A 280 N MSE A 281 1555 1555 1.33 LINK C MSE A 281 N ASP A 282 1555 1555 1.33 LINK O GLU A 141 NA NA A 325 1555 1555 2.66 LINK OE2 GLU A 141 NA NA A 325 1555 1555 2.84 LINK O VAL A 144 NA NA A 325 1555 1555 2.54 LINK O ALA A 145 NA NA A 325 1555 1555 2.85 LINK O VAL A 148 NA NA A 325 1555 1555 2.60 SITE 1 AC1 5 GLU A 141 VAL A 144 ALA A 145 GLY A 146 SITE 2 AC1 5 VAL A 148 SITE 1 AC2 32 GLY A 10 THR A 11 GLY A 12 ASN A 13 SITE 2 AC2 32 VAL A 14 ASP A 41 SER A 42 LYS A 60 SITE 3 AC2 32 CYS A 88 THR A 89 PRO A 90 ALA A 115 SITE 4 AC2 32 ASN A 116 LYS A 117 ALA A 142 ARG A 188 SITE 5 AC2 32 GLY A 198 GLU A 201 SER A 202 PRO A 305 SITE 6 AC2 32 THR A 308 HOH A 344 HOH A 348 HOH A 350 SITE 7 AC2 32 HOH A 373 HOH A 375 HOH A 378 HOH A 384 SITE 8 AC2 32 HOH A 404 HOH A 410 HOH A 418 HOH A 425 SITE 1 AC3 3 ASN A 13 LYS A 196 EDO A 328 SITE 1 AC4 5 ARG A 188 ASP A 189 ASP A 192 EDO A 327 SITE 2 AC4 5 HOH A 338 SITE 1 AC5 7 SER A 172 TYR A 176 ARG A 179 GLY A 280 SITE 2 AC5 7 MSE A 281 GLY A 283 HOH A 403 SITE 1 AC6 3 ASP A 155 HIS A 223 HOH A 347 SITE 1 AC7 5 ALA A 131 ASN A 132 SER A 135 LYS A 136 SITE 2 AC7 5 TYR A 137 SITE 1 AC8 4 VAL A 163 ILE A 224 PHE A 225 HOH A 385 CRYST1 69.821 92.113 120.788 90.00 90.00 90.00 C 2 2 21 8 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 0.014322 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010856 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008279 0.00000