HEADER OXIDOREDUCTASE 22-DEC-08 3FMX TITLE CRYSTAL STRUCTURE OF TARTRATE DEHYDROGENASE FROM PSEUDOMONAS PUTIDA TITLE 2 COMPLEXED WITH NADH COMPND MOL_ID: 1; COMPND 2 MOLECULE: TARTRATE DEHYDROGENASE/DECARBOXYLASE; COMPND 3 CHAIN: X; COMPND 4 SYNONYM: TDH, D-MALATE DEHYDROGENASE [DECARBOXYLATING]; COMPND 5 EC: 1.1.1.93, 4.1.1.73, 1.1.1.83; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 303; SOURCE 4 GENE: TTUC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET 3A KEYWDS OXIDOREDUCTASE, LYASE, MAGNESIUM, MANGANESE, NAD EXPDTA X-RAY DIFFRACTION AUTHOR R.MALIK,R.E.VIOLA REVDAT 4 06-SEP-23 3FMX 1 REMARK REVDAT 3 20-OCT-21 3FMX 1 REMARK SEQADV REVDAT 2 06-NOV-13 3FMX 1 FORMUL HET HETATM HETNAM REVDAT 2 2 1 VERSN REVDAT 1 12-JAN-10 3FMX 0 JRNL AUTH R.MALIK,R.E.VIOLA JRNL TITL STRUCTURAL CHARACTERIZATION OF TARTRATE DEHYDROGENASE: A JRNL TITL 2 VERSATILE ENZYME CATALYZING MULTIPLE REACTIONS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.95 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 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 85.0 REMARK 3 NUMBER OF REFLECTIONS : 11632 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) : 0.262 REMARK 3 R VALUE (WORKING SET) : 0.260 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 604 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 884 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.3550 REMARK 3 BIN FREE R VALUE SET COUNT : 47 REMARK 3 BIN FREE R VALUE : 0.3770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2813 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 17 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.13000 REMARK 3 B22 (A**2) : -0.13000 REMARK 3 B33 (A**2) : 0.19000 REMARK 3 B12 (A**2) : -0.06000 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): 0.793 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.466 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.345 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.902 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.871 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.822 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2907 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3954 ; 1.383 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 358 ; 6.561 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 136 ;40.201 ;23.824 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 454 ;21.116 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;17.004 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 423 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2251 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1651 ; 0.243 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1936 ; 0.321 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 128 ; 0.200 ; 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): 87 ; 0.245 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.145 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3FMX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-DEC-08. REMARK 100 THE DEPOSITION ID IS D_1000050787. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14251 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 84.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3FLK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.65 M AMMONIUM SULFATE, 0.2 M REMARK 280 AMMONIUM TARTRATE, 0.01 M DTT, PH 7.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 6 2 2 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,-Y,Z REMARK 290 5555 Y,-X+Y,Z REMARK 290 6555 X-Y,X,Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-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 -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 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 0.00000 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 19010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 48210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -94.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 -182.90600 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 -182.90600 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 7870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 -182.90600 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET X 1 REMARK 465 PRO X 2 REMARK 465 ALA X 3 REMARK 465 HIS X 4 REMARK 465 ASP X 365 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 SER X 5 CB OG REMARK 480 ARG X 108 CB CG CD NE CZ NH1 NH2 REMARK 480 LYS X 124 CB CG CD CE NZ REMARK 480 GLU X 183 CB CG CD OE1 OE2 REMARK 480 GLU X 318 CB CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OH TYR X 74 O MET X 302 1.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 LYS X 124 CA LYS X 124 CB -0.241 REMARK 500 GLU X 183 CA GLU X 183 CB -0.438 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 SER X 5 N - CA - CB ANGL. DEV. = 9.2 DEGREES REMARK 500 LYS X 124 CB - CA - C ANGL. DEV. = 26.4 DEGREES REMARK 500 LYS X 124 N - CA - CB ANGL. DEV. = -21.8 DEGREES REMARK 500 GLU X 183 CB - CA - C ANGL. DEV. = 15.2 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 ARG X 26 -70.41 -48.60 REMARK 500 GLU X 40 77.24 -113.62 REMARK 500 TRP X 80 83.72 -157.14 REMARK 500 SER X 93 -90.36 -138.63 REMARK 500 PHE X 97 -72.18 -53.81 REMARK 500 PRO X 114 107.45 -19.03 REMARK 500 ALA X 119 28.02 -77.84 REMARK 500 ASN X 122 35.77 25.86 REMARK 500 ASP X 129 115.97 -169.35 REMARK 500 GLU X 138 -141.69 -137.14 REMARK 500 GLU X 153 -38.03 -33.12 REMARK 500 TYR X 174 36.09 -52.83 REMARK 500 ALA X 175 -25.35 -156.06 REMARK 500 ASP X 177 -52.68 -128.68 REMARK 500 LYS X 192 52.33 -147.13 REMARK 500 GLN X 234 62.92 -150.45 REMARK 500 ASP X 250 9.55 -62.53 REMARK 500 ILE X 251 -121.67 -85.97 REMARK 500 LEU X 252 -61.72 6.29 REMARK 500 SER X 253 -38.93 -28.83 REMARK 500 PRO X 257 -17.57 -42.83 REMARK 500 ALA X 260 -60.22 -107.08 REMARK 500 ARG X 275 1.17 57.09 REMARK 500 ASN X 295 51.67 33.24 REMARK 500 TRP X 304 -37.55 -37.21 REMARK 500 GLN X 315 -101.46 50.65 REMARK 500 HIS X 324 -72.01 -53.65 REMARK 500 MET X 344 -13.19 -151.84 REMARK 500 ARG X 363 -19.11 -47.53 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 NAI X 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH4 X 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3FLK RELATED DB: PDB REMARK 900 COMPLEX WITH INTERMEDIATE ANALOG (OXALATE), NADH AND DIVALENT METAL REMARK 900 ION DBREF 3FMX X 1 365 UNP Q51945 TTUC_PSEPU 1 365 SEQADV 3FMX GLY X 79 UNP Q51945 ASP 79 ENGINEERED MUTATION SEQADV 3FMX X UNP Q51945 VAL 243 DELETION SEQRES 1 X 364 MET PRO ALA HIS SER PHE ARG ILE ALA ALA ILE PRO GLY SEQRES 2 X 364 ASP GLY ILE GLY LEU GLU VAL LEU PRO GLU GLY ILE ARG SEQRES 3 X 364 VAL LEU GLU ALA ALA ALA LEU LYS HIS GLY LEU ALA LEU SEQRES 4 X 364 GLU PHE ASP THR PHE GLU TRP ALA SER CYS ASP TYR TYR SEQRES 5 X 364 LEU GLN HIS GLY LYS MET MET PRO ASP ASP TRP ALA GLU SEQRES 6 X 364 GLN LEU LYS GLN TYR ASP ALA ILE TYR PHE GLY ALA VAL SEQRES 7 X 364 GLY TRP PRO ASP LYS VAL PRO ASP HIS ILE SER LEU TRP SEQRES 8 X 364 GLY SER LEU LEU LYS PHE ARG ARG GLU PHE ASP GLN TYR SEQRES 9 X 364 VAL ASN ILE ARG PRO VAL ARG LEU PHE PRO GLY VAL PRO SEQRES 10 X 364 CYS ALA LEU ALA ASN ARG LYS VAL GLY ASP ILE ASP PHE SEQRES 11 X 364 VAL VAL VAL ARG GLU ASN THR GLU GLY GLU TYR SER SER SEQRES 12 X 364 LEU GLY GLY ILE MET PHE GLU ASN THR GLU ASN GLU ILE SEQRES 13 X 364 VAL ILE GLN GLU SER ILE PHE THR ARG ARG GLY VAL ASP SEQRES 14 X 364 ARG ILE LEU LYS TYR ALA PHE ASP LEU ALA GLU LYS ARG SEQRES 15 X 364 GLU ARG LYS HIS VAL THR SER ALA THR LYS SER ASN GLY SEQRES 16 X 364 MET ALA ILE SER MET PRO TYR TRP ASP LYS ARG THR GLU SEQRES 17 X 364 ALA MET ALA ALA HIS TYR PRO HIS VAL SER TRP ASP LYS SEQRES 18 X 364 GLN HIS ILE ASP ILE LEU CYS ALA ARG PHE VAL LEU GLN SEQRES 19 X 364 PRO GLU ARG PHE ASP VAL VAL VAL ALA SER ASN LEU PHE SEQRES 20 X 364 GLY ASP ILE LEU SER ASP LEU GLY PRO ALA CYS ALA GLY SEQRES 21 X 364 THR ILE GLY ILE ALA PRO SER ALA ASN LEU ASN PRO GLU SEQRES 22 X 364 ARG ASN PHE PRO SER LEU PHE GLU PRO VAL HIS GLY SER SEQRES 23 X 364 ALA PRO ASP ILE PHE GLY LYS ASN ILE ALA ASN PRO ILE SEQRES 24 X 364 ALA MET ILE TRP SER GLY ALA LEU MET LEU GLU PHE LEU SEQRES 25 X 364 GLY GLN GLY ASP GLU ARG TYR GLN ARG ALA HIS ASP ASP SEQRES 26 X 364 MET LEU ASN ALA ILE GLU ARG VAL ILE ALA ASP GLY SER SEQRES 27 X 364 VAL THR PRO ASP MET GLY GLY THR LEU SER THR GLN GLN SEQRES 28 X 364 VAL GLY ALA ALA ILE SER ASP THR LEU ALA ARG LEU ASP HET NAI X 401 44 HET NH4 X 402 1 HETNAM NAI 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE HETNAM NH4 AMMONIUM ION HETSYN NAI NADH FORMUL 2 NAI C21 H29 N7 O14 P2 FORMUL 3 NH4 H4 N 1+ FORMUL 4 HOH *17(H2 O) HELIX 1 1 GLY X 15 LEU X 21 1 7 HELIX 2 2 LEU X 21 GLY X 36 1 16 HELIX 3 3 SER X 48 GLY X 56 1 9 HELIX 4 4 ASP X 62 LYS X 68 1 7 HELIX 5 5 PRO X 85 GLY X 92 1 8 HELIX 6 6 SER X 93 PHE X 101 1 9 HELIX 7 7 THR X 164 TYR X 174 1 11 HELIX 8 8 ILE X 198 ALA X 212 1 15 HELIX 9 9 ILE X 224 GLN X 234 1 11 HELIX 10 10 ASN X 246 ILE X 251 1 6 HELIX 11 11 THR X 262 ILE X 265 5 4 HELIX 12 12 ALA X 288 PHE X 292 5 5 HELIX 13 13 PRO X 299 GLN X 315 1 17 HELIX 14 14 ASP X 317 GLY X 338 1 22 HELIX 15 15 SER X 349 LEU X 364 1 16 SHEET 1 A 8 LEU X 39 GLU X 40 0 SHEET 2 A 8 PHE X 6 GLY X 13 1 N ILE X 8 O GLU X 40 SHEET 3 A 8 ALA X 72 ALA X 77 1 O TYR X 74 N ALA X 9 SHEET 4 A 8 SER X 279 PRO X 283 1 O PHE X 281 N PHE X 75 SHEET 5 A 8 PRO X 267 LEU X 271 -1 N ASN X 270 O LEU X 280 SHEET 6 A 8 VAL X 105 ILE X 107 -1 N VAL X 105 O LEU X 271 SHEET 7 A 8 ASP X 129 GLU X 135 -1 O ARG X 134 N ASN X 106 SHEET 8 A 8 VAL X 110 ARG X 111 -1 N VAL X 110 O PHE X 130 SHEET 1 B10 LEU X 39 GLU X 40 0 SHEET 2 B10 PHE X 6 GLY X 13 1 N ILE X 8 O GLU X 40 SHEET 3 B10 ALA X 72 ALA X 77 1 O TYR X 74 N ALA X 9 SHEET 4 B10 SER X 279 PRO X 283 1 O PHE X 281 N PHE X 75 SHEET 5 B10 PRO X 267 LEU X 271 -1 N ASN X 270 O LEU X 280 SHEET 6 B10 VAL X 105 ILE X 107 -1 N VAL X 105 O LEU X 271 SHEET 7 B10 ASP X 129 GLU X 135 -1 O ARG X 134 N ASN X 106 SHEET 8 B10 VAL X 240 ALA X 244 1 O ALA X 244 N GLU X 135 SHEET 9 B10 HIS X 186 THR X 191 1 N THR X 188 O VAL X 240 SHEET 10 B10 SER X 218 HIS X 223 1 O ASP X 220 N VAL X 187 SHEET 1 C 2 GLY X 145 MET X 148 0 SHEET 2 C 2 ILE X 156 GLN X 159 -1 O ILE X 158 N GLY X 146 SITE 1 AC1 21 PHE X 75 ALA X 77 VAL X 78 GLY X 79 SITE 2 AC1 21 ASP X 86 LEU X 94 ASN X 194 ILE X 226 SITE 3 AC1 21 ARG X 230 ILE X 263 GLY X 264 GLU X 282 SITE 4 AC1 21 HIS X 285 GLY X 286 SER X 287 ALA X 288 SITE 5 AC1 21 ASP X 290 ILE X 291 ASN X 298 ASP X 343 SITE 6 AC1 21 NH4 X 402 SITE 1 AC2 5 GLY X 76 GLU X 282 PRO X 283 HIS X 285 SITE 2 AC2 5 NAI X 401 CRYST1 182.906 182.906 66.980 90.00 90.00 120.00 P 6 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.005467 0.003157 0.000000 0.00000 SCALE2 0.000000 0.006313 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014930 0.00000