HEADER OXIDOREDUCTASE 14-JUL-04 1VL8 TITLE CRYSTAL STRUCTURE OF GLUCONATE 5-DEHYDROGENASE (TM0441) FROM TITLE 2 THERMOTOGA MARITIMA AT 2.07 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCONATE 5-DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: OXIDOREDUCTASE, SHORT CHAIN DEHYDROGENASE/REDUCTASE FAMILY; COMPND 5 EC: 1.1.1.69; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 243274; SOURCE 4 STRAIN: MSB8; SOURCE 5 GENE: TM0441; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TM0441, GLUCONATE 5-DEHYDROGENASE, STRUCTURAL GENOMICS, JCSG, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, PSI, JOINT CENTER FOR STRUCTURAL GENOMICS, KEYWDS 3 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 7 20-SEP-23 1VL8 1 REMARK REVDAT 6 25-JAN-23 1VL8 1 REMARK SEQADV LINK REVDAT 5 13-JUL-11 1VL8 1 VERSN REVDAT 4 24-FEB-09 1VL8 1 VERSN REVDAT 3 28-MAR-06 1VL8 1 JRNL REVDAT 2 18-JAN-05 1VL8 1 AUTHOR KEYWDS REMARK REVDAT 1 17-AUG-04 1VL8 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF GLUCONATE 5-DEHYDROGENASE (TM0441) FROM JRNL TITL 2 THERMOTOGA MARITIMA AT 2.07 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.07 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.07 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.5 REMARK 3 NUMBER OF REFLECTIONS : 50440 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) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2715 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) : 2.07 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.12 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3614 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.44 REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE SET COUNT : 197 REMARK 3 BIN FREE R VALUE : 0.2740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3838 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 102 REMARK 3 SOLVENT ATOMS : 331 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 32.51 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.08000 REMARK 3 B22 (A**2) : -1.08000 REMARK 3 B33 (A**2) : 2.16000 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): 0.117 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.114 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.076 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.347 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4028 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3685 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5474 ; 1.655 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8534 ; 0.947 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 504 ; 5.970 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 166 ;32.122 ;23.855 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 663 ;13.495 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;14.893 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 617 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4456 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 811 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 763 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3648 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1940 ; 0.175 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2241 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 221 ; 0.132 ; 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): 17 ; 0.146 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 96 ; 0.197 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.159 ; 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): 2743 ; 2.181 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1043 ; 0.521 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3988 ; 2.492 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1711 ; 5.163 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1482 ; 6.908 ;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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 5 A 255 2 REMARK 3 1 B 5 B 255 2 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 1470 ; 0.06 ; 0.05 REMARK 3 MEDIUM POSITIONAL 1 A (A): 2233 ; 0.37 ; 0.50 REMARK 3 TIGHT THERMAL 1 A (A**2): 1470 ; 0.25 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2233 ; 1.00 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 5 A 255 REMARK 3 ORIGIN FOR THE GROUP (A): 10.8390 28.6130 8.6340 REMARK 3 T TENSOR REMARK 3 T11: -0.1602 T22: -0.1182 REMARK 3 T33: -0.0427 T12: 0.0091 REMARK 3 T13: 0.0230 T23: -0.0142 REMARK 3 L TENSOR REMARK 3 L11: 1.0340 L22: 0.7376 REMARK 3 L33: 0.8456 L12: 0.0192 REMARK 3 L13: -0.3153 L23: 0.1909 REMARK 3 S TENSOR REMARK 3 S11: -0.0139 S12: -0.0059 S13: -0.0368 REMARK 3 S21: -0.0071 S22: -0.0268 S23: 0.1464 REMARK 3 S31: 0.0078 S32: -0.1330 S33: 0.0407 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 4 B 255 REMARK 3 ORIGIN FOR THE GROUP (A): 35.6430 45.9700 13.4260 REMARK 3 T TENSOR REMARK 3 T11: -0.1272 T22: -0.1165 REMARK 3 T33: -0.0841 T12: -0.0124 REMARK 3 T13: -0.0218 T23: -0.0219 REMARK 3 L TENSOR REMARK 3 L11: 1.0389 L22: 1.2858 REMARK 3 L33: 0.9848 L12: -0.0798 REMARK 3 L13: -0.1547 L23: 0.0332 REMARK 3 S TENSOR REMARK 3 S11: -0.0045 S12: -0.1450 S13: 0.1249 REMARK 3 S21: 0.1659 S22: -0.0223 S23: -0.0783 REMARK 3 S31: -0.1349 S32: 0.0872 S33: 0.0268 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 1VL8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUL-04. REMARK 100 THE DEPOSITION ID IS D_1000001974. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-FEB-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979127 REMARK 200 MONOCHROMATOR : ROSENBAUM-ROCK DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : WATER COOLED; SAGITALLY FOCUSING REMARK 200 2ND CRYSTAL, ROSENBAUM-ROCK REMARK 200 VERTICAL FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : APS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61222 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.960 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 (%) : 89.4 REMARK 200 DATA REDUNDANCY : 6.890 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08800 REMARK 200 FOR THE DATA SET : 16.0100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.35 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.67200 REMARK 200 FOR SHELL : 1.060 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1G6K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ACETATE PH 4.2, 35% GLYCEROL, 0.4M REMARK 280 NH4H2PO3 , VAPOR DIFFUSION,SITTING DROP,NANODROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 61.16150 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 61.75200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 61.75200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 91.74225 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 61.75200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 61.75200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 30.58075 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 61.75200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 61.75200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 91.74225 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 61.75200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 61.75200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 30.58075 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 61.16150 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 19570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -127.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 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 A -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 LYS A 2 REMARK 465 GLU A 3 REMARK 465 VAL A 4 REMARK 465 MET B -11 REMARK 465 GLY B -10 REMARK 465 SER B -9 REMARK 465 ASP B -8 REMARK 465 LYS B -7 REMARK 465 ILE B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 GLU B 3 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 ARG A 65 CZ NH1 NH2 REMARK 470 LYS A 82 CE NZ REMARK 470 GLU A 83 CG CD OE1 OE2 REMARK 470 LYS A 87 NZ REMARK 470 GLU A 206 CD OE1 OE2 REMARK 470 LYS A 213 CD CE NZ REMARK 470 GLN B 51 CD OE1 NE2 REMARK 470 ARG B 65 NE CZ NH1 NH2 REMARK 470 ARG B 194 CZ NH1 NH2 REMARK 470 GLU B 206 CD OE1 OE2 REMARK 470 LYS B 207 CE NZ REMARK 470 LYS B 213 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 CYS B 34 CB CYS B 34 SG -0.118 REMARK 500 ARG B 184 CZ ARG B 184 NH1 0.091 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 ARG B 184 NE - CZ - NH2 ANGL. DEV. = -5.1 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 ASN A 138 61.40 -152.40 REMARK 500 ASP A 249 11.62 -142.71 REMARK 500 ASP B 249 13.88 -141.47 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 B 256 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 151 OE1 REMARK 620 2 HOH A 275 O 89.2 REMARK 620 3 GLU B 151 OE1 179.4 91.2 REMARK 620 4 HOH B 275 O 91.7 171.9 88.0 REMARK 620 5 HOH B 276 O 92.3 91.4 87.3 96.6 REMARK 620 6 HOH B 277 O 90.5 83.4 90.0 88.6 174.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 256 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 256 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP A 274 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP B 274 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 282314 RELATED DB: TARGETDB DBREF 1VL8 A 1 255 UNP Q9WYS2 Q9WYS2_THEMA 1 255 DBREF 1VL8 B 1 255 UNP Q9WYS2 Q9WYS2_THEMA 1 255 SEQADV 1VL8 MET A -11 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 GLY A -10 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 SER A -9 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 ASP A -8 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 LYS A -7 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 ILE A -6 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS A -5 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS A -4 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS A -3 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS A -2 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS A -1 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS A 0 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 MET B -11 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 GLY B -10 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 SER B -9 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 ASP B -8 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 LYS B -7 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 ILE B -6 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS B -5 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS B -4 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS B -3 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS B -2 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS B -1 UNP Q9WYS2 EXPRESSION TAG SEQADV 1VL8 HIS B 0 UNP Q9WYS2 EXPRESSION TAG SEQRES 1 A 267 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 A 267 LYS GLU VAL PHE ASP LEU ARG GLY ARG VAL ALA LEU VAL SEQRES 3 A 267 THR GLY GLY SER ARG GLY LEU GLY PHE GLY ILE ALA GLN SEQRES 4 A 267 GLY LEU ALA GLU ALA GLY CYS SER VAL VAL VAL ALA SER SEQRES 5 A 267 ARG ASN LEU GLU GLU ALA SER GLU ALA ALA GLN LYS LEU SEQRES 6 A 267 THR GLU LYS TYR GLY VAL GLU THR MET ALA PHE ARG CYS SEQRES 7 A 267 ASP VAL SER ASN TYR GLU GLU VAL LYS LYS LEU LEU GLU SEQRES 8 A 267 ALA VAL LYS GLU LYS PHE GLY LYS LEU ASP THR VAL VAL SEQRES 9 A 267 ASN ALA ALA GLY ILE ASN ARG ARG HIS PRO ALA GLU GLU SEQRES 10 A 267 PHE PRO LEU ASP GLU PHE ARG GLN VAL ILE GLU VAL ASN SEQRES 11 A 267 LEU PHE GLY THR TYR TYR VAL CYS ARG GLU ALA PHE SER SEQRES 12 A 267 LEU LEU ARG GLU SER ASP ASN PRO SER ILE ILE ASN ILE SEQRES 13 A 267 GLY SER LEU THR VAL GLU GLU VAL THR MET PRO ASN ILE SEQRES 14 A 267 SER ALA TYR ALA ALA SER LYS GLY GLY VAL ALA SER LEU SEQRES 15 A 267 THR LYS ALA LEU ALA LYS GLU TRP GLY ARG TYR GLY ILE SEQRES 16 A 267 ARG VAL ASN VAL ILE ALA PRO GLY TRP TYR ARG THR LYS SEQRES 17 A 267 MET THR GLU ALA VAL PHE SER ASP PRO GLU LYS LEU ASP SEQRES 18 A 267 TYR MET LEU LYS ARG ILE PRO LEU GLY ARG THR GLY VAL SEQRES 19 A 267 PRO GLU ASP LEU LYS GLY VAL ALA VAL PHE LEU ALA SER SEQRES 20 A 267 GLU GLU ALA LYS TYR VAL THR GLY GLN ILE ILE PHE VAL SEQRES 21 A 267 ASP GLY GLY TRP THR ALA ASN SEQRES 1 B 267 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 B 267 LYS GLU VAL PHE ASP LEU ARG GLY ARG VAL ALA LEU VAL SEQRES 3 B 267 THR GLY GLY SER ARG GLY LEU GLY PHE GLY ILE ALA GLN SEQRES 4 B 267 GLY LEU ALA GLU ALA GLY CYS SER VAL VAL VAL ALA SER SEQRES 5 B 267 ARG ASN LEU GLU GLU ALA SER GLU ALA ALA GLN LYS LEU SEQRES 6 B 267 THR GLU LYS TYR GLY VAL GLU THR MET ALA PHE ARG CYS SEQRES 7 B 267 ASP VAL SER ASN TYR GLU GLU VAL LYS LYS LEU LEU GLU SEQRES 8 B 267 ALA VAL LYS GLU LYS PHE GLY LYS LEU ASP THR VAL VAL SEQRES 9 B 267 ASN ALA ALA GLY ILE ASN ARG ARG HIS PRO ALA GLU GLU SEQRES 10 B 267 PHE PRO LEU ASP GLU PHE ARG GLN VAL ILE GLU VAL ASN SEQRES 11 B 267 LEU PHE GLY THR TYR TYR VAL CYS ARG GLU ALA PHE SER SEQRES 12 B 267 LEU LEU ARG GLU SER ASP ASN PRO SER ILE ILE ASN ILE SEQRES 13 B 267 GLY SER LEU THR VAL GLU GLU VAL THR MET PRO ASN ILE SEQRES 14 B 267 SER ALA TYR ALA ALA SER LYS GLY GLY VAL ALA SER LEU SEQRES 15 B 267 THR LYS ALA LEU ALA LYS GLU TRP GLY ARG TYR GLY ILE SEQRES 16 B 267 ARG VAL ASN VAL ILE ALA PRO GLY TRP TYR ARG THR LYS SEQRES 17 B 267 MET THR GLU ALA VAL PHE SER ASP PRO GLU LYS LEU ASP SEQRES 18 B 267 TYR MET LEU LYS ARG ILE PRO LEU GLY ARG THR GLY VAL SEQRES 19 B 267 PRO GLU ASP LEU LYS GLY VAL ALA VAL PHE LEU ALA SER SEQRES 20 B 267 GLU GLU ALA LYS TYR VAL THR GLY GLN ILE ILE PHE VAL SEQRES 21 B 267 ASP GLY GLY TRP THR ALA ASN HET PO4 A 256 5 HET NAP A 274 48 HET MG B 256 1 HET NAP B 274 48 HETNAM PO4 PHOSPHATE ION HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM MG MAGNESIUM ION HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 3 PO4 O4 P 3- FORMUL 4 NAP 2(C21 H28 N7 O17 P3) FORMUL 5 MG MG 2+ FORMUL 7 HOH *331(H2 O) HELIX 1 1 ARG A 19 ALA A 32 1 14 HELIX 2 2 ASN A 42 GLY A 58 1 17 HELIX 3 3 ASN A 70 GLY A 86 1 17 HELIX 4 4 PRO A 102 PHE A 106 5 5 HELIX 5 5 PRO A 107 LEU A 119 1 13 HELIX 6 6 LEU A 119 ARG A 134 1 16 HELIX 7 7 SER A 146 GLU A 150 5 5 HELIX 8 8 ILE A 157 GLY A 179 1 23 HELIX 9 9 ARG A 180 GLY A 182 5 3 HELIX 10 10 THR A 198 SER A 203 1 6 HELIX 11 11 ASP A 204 ARG A 214 1 11 HELIX 12 12 VAL A 222 ASP A 225 5 4 HELIX 13 13 LEU A 226 SER A 235 1 10 HELIX 14 14 GLU A 236 LYS A 239 5 4 HELIX 15 15 GLY A 251 ASN A 255 5 5 HELIX 16 16 ARG B 19 ALA B 32 1 14 HELIX 17 17 ASN B 42 GLY B 58 1 17 HELIX 18 18 ASN B 70 GLY B 86 1 17 HELIX 19 19 PRO B 102 PHE B 106 5 5 HELIX 20 20 PRO B 107 LEU B 119 1 13 HELIX 21 21 LEU B 119 ARG B 134 1 16 HELIX 22 22 SER B 146 GLU B 150 5 5 HELIX 23 23 ILE B 157 GLY B 179 1 23 HELIX 24 24 ARG B 180 GLY B 182 5 3 HELIX 25 25 THR B 195 MET B 197 5 3 HELIX 26 26 THR B 198 SER B 203 1 6 HELIX 27 27 ASP B 204 ARG B 214 1 11 HELIX 28 28 VAL B 222 ASP B 225 5 4 HELIX 29 29 LEU B 226 SER B 235 1 10 HELIX 30 30 GLU B 236 LYS B 239 5 4 HELIX 31 31 GLY B 251 ASN B 255 5 5 SHEET 1 A 7 THR A 61 ARG A 65 0 SHEET 2 A 7 SER A 35 SER A 40 1 N VAL A 38 O MET A 62 SHEET 3 A 7 VAL A 11 THR A 15 1 N VAL A 14 O VAL A 37 SHEET 4 A 7 THR A 90 ASN A 93 1 O VAL A 92 N LEU A 13 SHEET 5 A 7 SER A 140 ILE A 144 1 O ILE A 142 N VAL A 91 SHEET 6 A 7 ARG A 184 PRO A 190 1 O ARG A 184 N ILE A 141 SHEET 7 A 7 ILE A 245 VAL A 248 1 O ILE A 246 N ALA A 189 SHEET 1 B 7 THR B 61 ARG B 65 0 SHEET 2 B 7 SER B 35 SER B 40 1 N VAL B 38 O MET B 62 SHEET 3 B 7 VAL B 11 THR B 15 1 N VAL B 14 O VAL B 37 SHEET 4 B 7 THR B 90 ASN B 93 1 O VAL B 92 N LEU B 13 SHEET 5 B 7 SER B 140 ILE B 144 1 O ILE B 142 N VAL B 91 SHEET 6 B 7 ARG B 184 PRO B 190 1 O ARG B 184 N ILE B 141 SHEET 7 B 7 ILE B 245 VAL B 248 1 O ILE B 246 N VAL B 187 LINK OE1 GLU A 151 MG MG B 256 7555 1555 2.01 LINK O HOH A 275 MG MG B 256 7555 1555 2.18 LINK OE1 GLU B 151 MG MG B 256 1555 1555 2.05 LINK MG MG B 256 O HOH B 275 1555 1555 2.28 LINK MG MG B 256 O HOH B 276 1555 1555 2.27 LINK MG MG B 256 O HOH B 277 1555 1555 2.16 SITE 1 AC1 7 GLU A 116 PHE A 120 HOH A 419 HOH A 420 SITE 2 AC1 7 ARG B 112 GLU B 116 PHE B 120 SITE 1 AC2 6 GLU A 151 HOH A 275 GLU B 151 HOH B 275 SITE 2 AC2 6 HOH B 276 HOH B 277 SITE 1 AC3 30 GLY A 16 SER A 18 ARG A 19 GLY A 20 SITE 2 AC3 30 LEU A 21 SER A 40 ARG A 41 ASN A 42 SITE 3 AC3 30 CYS A 66 ASP A 67 VAL A 68 ALA A 94 SITE 4 AC3 30 ALA A 95 GLY A 96 ILE A 97 VAL A 117 SITE 5 AC3 30 ILE A 144 GLY A 145 TYR A 160 LYS A 164 SITE 6 AC3 30 PRO A 190 GLY A 191 TRP A 192 TYR A 193 SITE 7 AC3 30 THR A 195 MET A 197 THR A 198 HOH A 278 SITE 8 AC3 30 HOH A 388 HOH A 389 SITE 1 AC4 34 GLY B 16 SER B 18 ARG B 19 GLY B 20 SITE 2 AC4 34 LEU B 21 SER B 40 ARG B 41 ASN B 42 SITE 3 AC4 34 CYS B 66 ASP B 67 VAL B 68 ALA B 94 SITE 4 AC4 34 ALA B 95 GLY B 96 ILE B 97 VAL B 117 SITE 5 AC4 34 ILE B 144 GLY B 145 SER B 146 TYR B 160 SITE 6 AC4 34 LYS B 164 PRO B 190 GLY B 191 TYR B 193 SITE 7 AC4 34 THR B 195 MET B 197 THR B 198 HOH B 281 SITE 8 AC4 34 HOH B 346 HOH B 371 HOH B 373 HOH B 376 SITE 9 AC4 34 HOH B 387 HOH B 418 CRYST1 123.504 123.504 122.323 90.00 90.00 90.00 P 43 21 2 16 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 0.008097 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008097 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008175 0.00000