HEADER ISOMERASE 11-JUN-04 1VKO TITLE CRYSTAL STRUCTURE OF INOSITOL-3-PHOSPHATE SYNTHASE (CE21227) FROM TITLE 2 CAENORHABDITIS ELEGANS AT 2.30 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: INOSITOL-3-PHOSPHATE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 EC: 5.5.1.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAENORHABDITIS ELEGANS; SOURCE 3 ORGANISM_TAXID: 6239; SOURCE 4 GENE: CE21227; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS CE21227, INOSITOL-3-PHOSPHATE SYNTHASE, STRUCTURAL GENOMICS, JCSG, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, PSI, JOINT CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 8 03-APR-24 1VKO 1 REMARK REVDAT 7 25-JAN-23 1VKO 1 REMARK SEQADV LINK REVDAT 6 04-OCT-17 1VKO 1 REMARK REVDAT 5 13-JUL-11 1VKO 1 VERSN REVDAT 4 24-FEB-09 1VKO 1 VERSN REVDAT 3 28-MAR-06 1VKO 1 JRNL REVDAT 2 18-JAN-05 1VKO 1 AUTHOR KEYWDS REMARK REVDAT 1 17-AUG-04 1VKO 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF INOSITOL-3-PHOSPHATE SYNTHASE (CE21227) JRNL TITL 2 FROM CAENORHABDITIS ELEGANS AT 2.30 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0003 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.41 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 27525 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) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1470 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1976 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.44 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4007 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 149 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 49.54 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.39000 REMARK 3 B22 (A**2) : 1.05000 REMARK 3 B33 (A**2) : -5.43000 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): 0.297 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.244 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.200 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.544 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4159 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5657 ; 1.608 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 510 ; 6.944 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 186 ;39.468 ;24.731 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 694 ;17.577 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;16.642 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 635 ; 0.111 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3138 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1882 ; 0.231 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2789 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 218 ; 0.148 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.152 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 158 ; 0.196 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 21 ; 0.165 ; 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): 2557 ; 1.976 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4159 ; 3.433 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1620 ; 6.732 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1498 ; 8.730 ;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 11 A 501 REMARK 3 ORIGIN FOR THE GROUP (A): 12.6815 42.2816 50.6398 REMARK 3 T TENSOR REMARK 3 T11: -0.0433 T22: -0.0449 REMARK 3 T33: 0.0022 T12: 0.1051 REMARK 3 T13: -0.0115 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 0.1655 L22: 0.2367 REMARK 3 L33: 1.0279 L12: 0.1861 REMARK 3 L13: -0.1851 L23: -0.0581 REMARK 3 S TENSOR REMARK 3 S11: -0.0047 S12: -0.0202 S13: 0.1208 REMARK 3 S21: -0.0436 S22: 0.0569 S23: 0.0026 REMARK 3 S31: 0.3462 S32: 0.2020 S33: -0.0522 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 : A 502 A 521 REMARK 3 ORIGIN FOR THE GROUP (A): 0.6668 23.2512 75.9671 REMARK 3 T TENSOR REMARK 3 T11: 0.0977 T22: -0.0928 REMARK 3 T33: -0.1341 T12: -0.0156 REMARK 3 T13: -0.0943 T23: 0.0168 REMARK 3 L TENSOR REMARK 3 L11: 3.5835 L22: 3.9456 REMARK 3 L33: 3.0502 L12: -1.2610 REMARK 3 L13: -3.0933 L23: -0.0652 REMARK 3 S TENSOR REMARK 3 S11: 0.1966 S12: -0.1719 S13: 0.0739 REMARK 3 S21: -0.0983 S22: -0.0128 S23: 0.1827 REMARK 3 S31: 0.3094 S32: 0.1057 S33: -0.1838 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 : A 601 A 601 REMARK 3 ORIGIN FOR THE GROUP (A): 17.7581 53.5553 44.7565 REMARK 3 T TENSOR REMARK 3 T11: -0.0084 T22: 0.0055 REMARK 3 T33: -0.0188 T12: 0.0677 REMARK 3 T13: 0.0667 T23: -0.0280 REMARK 3 L TENSOR REMARK 3 L11: 5.7373 L22: 0.8212 REMARK 3 L33: 0.1734 L12: -2.1706 REMARK 3 L13: 0.9975 L23: -0.3774 REMARK 3 S TENSOR REMARK 3 S11: 0.3636 S12: 0.2283 S13: 0.2754 REMARK 3 S21: 0.2017 S22: -0.4305 S23: -0.1231 REMARK 3 S31: -0.1313 S32: -0.0206 S33: 0.0669 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: EXTRA DENSITY IN THE ACTIVE SITE WAS REMARK 3 TENTATIVELY MODELED AS PYROPHOSPHATE BASED ON THE FIT TO REMARK 3 ELECTRON DENSITY. ONE POTASSIUM, TWO CHLORINES AND TWO REMARK 3 IODIDES ARE MODELED. THESE ENTITIES ARE POTENTIALLY FROM THE REMARK 3 CRYSTALLIZATION BUFFERS. REMARK 4 REMARK 4 1VKO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUN-04. REMARK 100 THE DEPOSITION ID IS D_1000001957. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-MAR-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.977757 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(311) BENT REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : FLAT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 4.2), CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28995 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 29.410 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.34400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: SHELXD, AUTOSHARP, MOLREP REMARK 200 STARTING MODEL: OBTAINED FROM MAD DATA OF A CRYSTAL OF SE-MET REMARK 200 SUBSTITUTED PROTEIN IN SPACE GROUP P21 21 2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.12M NA CL, 0.90M TARTRATE_K NA, REMARK 280 0.084M IMIDAZOLE, 0.016M IMIDAZOLE CHLORIDE , VAPOR DIFFUSION, REMARK 280 SITTING DROP,NANODROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+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 0.00000 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 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 1.000000 0.000000 0.000000 38.49000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.99000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 65.66000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 38.49000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.99000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.66000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 38.49000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.99000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 65.66000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 38.49000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.99000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 65.66000 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 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 39550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 65240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -330.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 129.98000 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 131.32000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 129.98000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 131.32000 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 SER A 2 REMARK 465 SER A 3 REMARK 465 ALA A 4 REMARK 465 GLN A 5 REMARK 465 VAL A 6 REMARK 465 ASN A 7 REMARK 465 GLY A 8 REMARK 465 ILE A 9 REMARK 465 SER A 10 REMARK 465 SER A 522 REMARK 465 LYS A 523 REMARK 465 SER A 524 REMARK 465 GLN A 525 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 11 CE NZ REMARK 470 ARG A 12 CD NE CZ NH1 NH2 REMARK 470 GLN A 101 CD OE1 NE2 REMARK 470 LYS A 305 NZ REMARK 470 ARG A 356 CG CD NE CZ NH1 NH2 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 53 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 265 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 508 CB - CG - OD2 ANGL. DEV. = 6.0 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 SER A 145 -163.48 -127.41 REMARK 500 LYS A 162 34.18 70.41 REMARK 500 SER A 193 -14.93 -49.27 REMARK 500 ASN A 250 23.20 -157.93 REMARK 500 GLU A 266 49.02 -73.50 REMARK 500 ASN A 291 46.72 -86.62 REMARK 500 ASP A 312 113.50 87.80 REMARK 500 PHE A 380 72.21 -115.08 REMARK 500 ALA A 399 -122.27 56.32 REMARK 500 ILE A 412 -161.75 -119.88 REMARK 500 VAL A 453 -75.88 -85.66 REMARK 500 ASP A 455 -14.06 86.72 REMARK 500 ASP A 506 40.78 -104.53 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 K A 526 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 76 OD1 REMARK 620 2 ASN A 346 ND2 165.1 REMARK 620 3 ASP A 400 OD1 118.9 52.4 REMARK 620 4 SER A 429 N 79.1 102.4 60.1 REMARK 620 5 SER A 429 OG 71.3 97.8 48.0 51.6 REMARK 620 6 NAD A 601 O7N 70.8 123.6 144.9 92.2 131.5 REMARK 620 7 NAD A 601 O2N 90.7 83.8 114.2 161.9 111.1 98.5 REMARK 620 8 HOH A 684 O 145.1 48.3 94.2 112.2 142.1 75.7 84.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 526 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 527 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 528 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 529 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 530 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE POP A 602 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1315 RELATED DB: TARGETDB DBREF 1VKO A 1 525 UNP Q18664 Q18664_CAEEL 1 525 SEQADV 1VKO MET A -11 UNP Q18664 EXPRESSION TAG SEQADV 1VKO GLY A -10 UNP Q18664 EXPRESSION TAG SEQADV 1VKO SER A -9 UNP Q18664 EXPRESSION TAG SEQADV 1VKO ASP A -8 UNP Q18664 EXPRESSION TAG SEQADV 1VKO LYS A -7 UNP Q18664 EXPRESSION TAG SEQADV 1VKO ILE A -6 UNP Q18664 EXPRESSION TAG SEQADV 1VKO HIS A -5 UNP Q18664 EXPRESSION TAG SEQADV 1VKO HIS A -4 UNP Q18664 EXPRESSION TAG SEQADV 1VKO HIS A -3 UNP Q18664 EXPRESSION TAG SEQADV 1VKO HIS A -2 UNP Q18664 EXPRESSION TAG SEQADV 1VKO HIS A -1 UNP Q18664 EXPRESSION TAG SEQADV 1VKO HIS A 0 UNP Q18664 EXPRESSION TAG SEQRES 1 A 537 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 A 537 SER SER ALA GLN VAL ASN GLY ILE SER LYS ARG LEU ILE SEQRES 3 A 537 VAL GLU SER PRO ASN VAL LYS LEU GLU ASP GLY VAL LEU SEQRES 4 A 537 GLU SER ARG PHE THR TYR ARG LYS ASN HIS PHE GLU HIS SEQRES 5 A 537 ARG ALA ASP GLY LEU HIS VAL THR PRO LYS GLU HIS ASP SEQRES 6 A 537 TYR SER PHE LYS THR VAL LEU LYS PRO ARG LYS THR GLY SEQRES 7 A 537 LEU LEU LEU VAL GLY LEU GLY GLY ASN ASN GLY SER THR SEQRES 8 A 537 ALA VAL GLY SER ILE PHE ALA ASN GLN TYR ALA MET THR SEQRES 9 A 537 TRP ARG THR LYS GLU GLY HIS SER GLN ALA ASN TYR PHE SEQRES 10 A 537 GLY SER VAL THR GLN THR ALA THR VAL HIS LEU GLY TYR SEQRES 11 A 537 ASP SER ALA THR GLN ASN GLN ILE PHE VAL PRO PHE LYS SEQRES 12 A 537 ASP ILE VAL PRO ILE LEU SER PRO ASN ASP LEU ILE ILE SEQRES 13 A 537 SER GLY TRP ASP ILE SER ASP SER ASN LEU TYR GLU ALA SEQRES 14 A 537 MET GLY ARG ALA LYS VAL PHE GLU PRO GLU LEU GLN GLU SEQRES 15 A 537 LYS LEU ARG PRO PHE MET GLU PRO ILE VAL PRO LEU PRO SEQRES 16 A 537 SER ILE TYR TYR PRO ASP PHE ILE ALA SER ASN GLN GLY SEQRES 17 A 537 ASP ARG ALA ASN ASN VAL ILE PRO GLY ASP ASN LYS LEU SEQRES 18 A 537 GLU HIS LEU GLU HIS ILE ARG ALA ASP ILE ARG LYS PHE SEQRES 19 A 537 LYS GLN GLU HIS GLU LEU GLU CYS VAL ILE VAL LEU TRP SEQRES 20 A 537 THR ALA ASN THR GLU ARG TYR THR ASP VAL ARG GLN GLY SEQRES 21 A 537 LEU ASN ALA THR ALA ASP GLU ILE MET GLU SER ILE ARG SEQRES 22 A 537 VAL ASN GLU ASP GLU VAL SER PRO SER ASN ILE PHE ALA SEQRES 23 A 537 VAL ALA SER ILE LEU GLU GLY ALA HIS TYR ILE ASN GLY SEQRES 24 A 537 SER PRO GLN ASN THR LEU VAL PRO GLY LEU ILE GLU LEU SEQRES 25 A 537 ALA GLU ARG HIS LYS VAL PHE VAL GLY GLY ASP ASP PHE SEQRES 26 A 537 LYS SER GLY GLN THR LYS PHE LYS SER ALA PHE VAL ASP SEQRES 27 A 537 PHE LEU VAL SER SER GLY MET LYS PRO GLU SER ILE VAL SEQRES 28 A 537 SER TYR ASN HIS LEU GLY ASN ASN ASP GLY LYS ASN LEU SEQRES 29 A 537 SER GLU ALA ARG GLN PHE ARG SER LYS GLU ILE SER LYS SEQRES 30 A 537 SER SER VAL VAL ASP ASP MET VAL LYS SER ASN GLN ILE SEQRES 31 A 537 LEU PHE PRO ASP ALA LYS ASN PRO ASP TYR CYS VAL VAL SEQRES 32 A 537 ILE LYS TYR VAL PRO TYR VAL ALA ASP SER LYS ARG ALA SEQRES 33 A 537 MET ASP GLU TYR ILE CYS SER ILE PHE MET GLY GLY LYS SEQRES 34 A 537 GLN THR PHE VAL VAL HIS ASN THR CYS GLU ASP SER LEU SEQRES 35 A 537 LEU ALA SER PRO LEU ILE TYR ASP LEU ALA ILE LEU THR SEQRES 36 A 537 GLU LEU ALA SER ARG VAL SER TYR LYS VAL ASP ASP GLU SEQRES 37 A 537 TYR LYS PRO PHE HIS SER VAL LEU SER ILE LEU SER LEU SEQRES 38 A 537 LEU LEU LYS ALA PRO VAL VAL PRO PRO GLY THR PRO ILE SEQRES 39 A 537 SER ASN ALA PHE MET ARG GLN PHE SER THR LEU THR LYS SEQRES 40 A 537 LEU VAL THR ALA LEU ALA GLY PHE PRO SER ASP THR ASP SEQRES 41 A 537 MET GLN ILE GLU PHE PHE THR GLN LEU PRO ALA ALA LYS SEQRES 42 A 537 SER LYS SER GLN HET K A 526 1 HET CL A 527 1 HET CL A 528 1 HET IOD A 529 1 HET IOD A 530 1 HET NAD A 601 44 HET POP A 602 9 HETNAM K POTASSIUM ION HETNAM CL CHLORIDE ION HETNAM IOD IODIDE ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM POP PYROPHOSPHATE 2- FORMUL 2 K K 1+ FORMUL 3 CL 2(CL 1-) FORMUL 5 IOD 2(I 1-) FORMUL 7 NAD C21 H27 N7 O14 P2 FORMUL 8 POP H2 O7 P2 2- FORMUL 9 HOH *149(H2 O) HELIX 1 1 GLY A 74 TYR A 89 1 16 HELIX 2 2 SER A 107 ALA A 112 1 6 HELIX 3 3 LYS A 131 ILE A 133 5 3 HELIX 4 4 SER A 138 ASN A 140 5 3 HELIX 5 5 TYR A 155 LYS A 162 1 8 HELIX 6 6 GLU A 165 GLU A 177 1 13 HELIX 7 7 TYR A 187 ILE A 191 5 5 HELIX 8 8 ALA A 192 ALA A 199 5 8 HELIX 9 9 ASN A 207 GLU A 227 1 21 HELIX 10 10 THR A 252 VAL A 262 1 11 HELIX 11 11 SER A 268 GLU A 280 1 13 HELIX 12 12 VAL A 294 LYS A 305 1 12 HELIX 13 13 GLY A 316 SER A 331 1 16 HELIX 14 14 ASN A 346 LEU A 352 1 7 HELIX 15 15 GLU A 354 SER A 367 1 14 HELIX 16 16 VAL A 369 ASN A 376 1 8 HELIX 17 17 PRO A 396 ALA A 399 5 4 HELIX 18 18 PHE A 413 GLY A 415 5 3 HELIX 19 19 ASP A 428 SER A 447 1 20 HELIX 20 20 LEU A 464 LEU A 471 5 8 HELIX 21 21 ALA A 485 GLY A 502 1 18 HELIX 22 22 GLN A 510 PHE A 514 5 5 SHEET 1 A 5 VAL A 20 GLU A 23 0 SHEET 2 A 5 VAL A 26 ARG A 41 -1 O GLU A 28 N LYS A 21 SHEET 3 A 5 GLY A 44 VAL A 59 -1 O TYR A 54 N PHE A 31 SHEET 4 A 5 VAL A 449 LYS A 452 -1 O SER A 450 N LYS A 57 SHEET 5 A 5 TYR A 457 LYS A 458 -1 O LYS A 458 N TYR A 451 SHEET 1 B 5 LEU A 142 TRP A 147 0 SHEET 2 B 5 THR A 65 VAL A 70 1 N LEU A 67 O ILE A 143 SHEET 3 B 5 CYS A 230 TRP A 235 1 O ILE A 232 N LEU A 68 SHEET 4 B 5 HIS A 283 ASN A 286 1 O HIS A 283 N VAL A 233 SHEET 5 B 5 VAL A 308 GLY A 309 1 O GLY A 309 N ASN A 286 SHEET 1 C 2 THR A 92 THR A 95 0 SHEET 2 C 2 GLY A 98 GLN A 101 -1 O GLY A 98 N THR A 95 SHEET 1 D 2 THR A 113 ASP A 119 0 SHEET 2 D 2 ASN A 124 PRO A 129 -1 O ILE A 126 N GLY A 117 SHEET 1 E 3 ASP A 387 VAL A 390 0 SHEET 2 E 3 LYS A 334 LEU A 344 1 N SER A 340 O CYS A 389 SHEET 3 E 3 LYS A 393 TYR A 394 1 O LYS A 393 N ASN A 342 SHEET 1 F 4 ASP A 387 VAL A 390 0 SHEET 2 F 4 LYS A 334 LEU A 344 1 N SER A 340 O CYS A 389 SHEET 3 F 4 SER A 401 SER A 411 -1 O ILE A 409 N GLU A 336 SHEET 4 F 4 LYS A 417 GLU A 427 -1 O PHE A 420 N TYR A 408 LINK OD1 ASN A 76 K K A 526 1555 1555 2.94 LINK ND2 ASN A 346 K K A 526 1555 1555 3.58 LINK OD1 ASP A 400 K K A 526 1555 1555 3.56 LINK N SER A 429 K K A 526 1555 1555 3.64 LINK OG SER A 429 K K A 526 1555 1555 3.19 LINK K K A 526 O7N NAD A 601 1555 1555 2.67 LINK K K A 526 O2N NAD A 601 1555 1555 2.57 LINK K K A 526 O HOH A 684 1555 1555 2.70 CISPEP 1 GLY A 310 ASP A 311 0 1.77 SITE 1 AC1 7 ASN A 76 ASN A 346 ASP A 400 ASP A 428 SITE 2 AC1 7 SER A 429 NAD A 601 HOH A 684 SITE 1 AC2 1 HIS A 115 SITE 1 AC3 1 TYR A 104 SITE 1 AC4 1 SER A 120 SITE 1 AC5 1 ASP A 382 SITE 1 AC6 30 VAL A 70 GLY A 71 GLY A 73 GLY A 74 SITE 2 AC6 30 ASN A 75 ASN A 76 ASP A 148 ILE A 149 SITE 3 AC6 30 SER A 184 ILE A 185 ARG A 198 THR A 236 SITE 4 AC6 30 ALA A 237 ASN A 238 THR A 239 GLY A 287 SITE 5 AC6 30 SER A 288 ASP A 312 PHE A 313 SER A 315 SITE 6 AC6 30 ASN A 347 ASP A 348 LYS A 361 ASP A 428 SITE 7 AC6 30 ALA A 432 LYS A 472 K A 526 POP A 602 SITE 8 AC6 30 HOH A 630 HOH A 682 SITE 1 AC7 10 SER A 315 GLY A 316 GLN A 317 THR A 318 SITE 2 AC7 10 LYS A 361 LYS A 365 LYS A 402 LYS A 472 SITE 3 AC7 10 NAD A 601 HOH A 691 CRYST1 76.980 129.980 131.320 90.00 90.00 90.00 I 2 2 2 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 0.012990 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007693 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007615 0.00000