HEADER HYDROLASE 12-JUN-09 3HU5 TITLE CRYSTAL STRUCTURE OF ISOCHORISMATASE FAMILY PROTEIN FROM DESULFOVIBRIO TITLE 2 VULGARIS SUBSP. VULGARIS STR. HILDENBOROUGH COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOCHORISMATASE FAMILY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DESULFOVIBRIO VULGARIS; SOURCE 3 ORGANISM_TAXID: 882; SOURCE 4 STRAIN: HILDENBOROUGH; SOURCE 5 GENE: DVU_0033; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC) KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, NEW YORK KEYWDS 2 STRUCTURAL GENOMIX RESEARCH CONSORTIUM, NYSGXRC, ISOCHORISMATASE KEYWDS 3 HYDROLASE. DESULFOVIBRIO VULGARIS, PSI-2, NEW YORK SGX RESEARCH KEYWDS 4 CENTER FOR STRUCTURAL GENOMICS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR V.N.MALASHKEVICH,R.TORO,C.MORANO,J.M.SAUDER,S.K.BURLEY,S.C.ALMO,NEW AUTHOR 2 YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 6 10-FEB-21 3HU5 1 AUTHOR JRNL LINK REVDAT 5 21-NOV-18 3HU5 1 AUTHOR REVDAT 4 01-NOV-17 3HU5 1 REMARK REVDAT 3 24-OCT-12 3HU5 1 AUTHOR REVDAT 2 13-JUL-11 3HU5 1 VERSN REVDAT 1 30-JUN-09 3HU5 0 JRNL AUTH V.N.MALASHKEVICH,R.TORO,C.MORANO,J.M.SAUDER,S.K.BURLEY, JRNL AUTH 2 S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF ISOCHORISMATASE FAMILY PROTEIN FROM JRNL TITL 2 DESULFOVIBRIO VULGARIS SUBSP. VULGARIS STR. HILDENBOROUGH JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 59514 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3024 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3332 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 198 REMARK 3 BIN FREE R VALUE : 0.3450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2772 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 424 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : -0.02000 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): 0.077 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.082 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.825 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2810 ; 0.028 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3820 ; 2.337 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 378 ; 6.973 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 108 ;30.561 ;23.148 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 446 ;15.360 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;15.970 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 462 ; 0.139 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2104 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1876 ; 1.406 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3000 ; 2.198 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 934 ; 3.639 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 820 ; 5.171 ; 4.500 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 6 A 195 REMARK 3 RESIDUE RANGE : A 205 A 502 REMARK 3 ORIGIN FOR THE GROUP (A): 29.0202 49.1643 39.5729 REMARK 3 T TENSOR REMARK 3 T11: 0.0329 T22: 0.0468 REMARK 3 T33: 0.0039 T12: -0.0034 REMARK 3 T13: 0.0085 T23: -0.0024 REMARK 3 L TENSOR REMARK 3 L11: 0.3822 L22: 0.6004 REMARK 3 L33: 0.2367 L12: -0.0267 REMARK 3 L13: -0.1811 L23: 0.0176 REMARK 3 S TENSOR REMARK 3 S11: 0.0141 S12: -0.0136 S13: -0.0011 REMARK 3 S21: 0.1374 S22: -0.0118 S23: 0.0401 REMARK 3 S31: -0.0046 S32: 0.0467 S33: -0.0024 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 6 B 195 REMARK 3 RESIDUE RANGE : B 205 B 499 REMARK 3 ORIGIN FOR THE GROUP (A): 9.0316 78.0932 36.0801 REMARK 3 T TENSOR REMARK 3 T11: 0.0855 T22: 0.0261 REMARK 3 T33: 0.1417 T12: 0.0279 REMARK 3 T13: 0.0505 T23: 0.0370 REMARK 3 L TENSOR REMARK 3 L11: 0.3616 L22: 0.7858 REMARK 3 L33: 0.1793 L12: -0.4673 REMARK 3 L13: -0.1497 L23: 0.2618 REMARK 3 S TENSOR REMARK 3 S11: -0.1537 S12: -0.0422 S13: -0.0775 REMARK 3 S21: 0.1660 S22: 0.0578 S23: 0.0195 REMARK 3 S31: 0.0447 S32: 0.0364 S33: 0.0959 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 3HU5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1000053585. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 119171 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 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 (%) : 97.3 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.3180 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.56900 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: SAD REMARK 200 SOFTWARE USED: SHELX, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM CHLORIDE, 0.1 M TRIS REMARK 280 -HCL, 25% PEG 3350, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K 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 52.83050 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 52.83050 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 31.83150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 58.39500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.83150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 58.39500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 52.83050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.83150 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 58.39500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 52.83050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.83150 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 58.39500 REMARK 290 SMTRY3 8 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYMMETRIC UNIT. 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 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: 8280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 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 63.66300 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 52.83050 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 31.83150 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 -58.39500 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 31.83150 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 -58.39500 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 52.83050 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 MSE A 1 REMARK 465 SER A 2 REMARK 465 LEU A 3 REMARK 465 THR A 4 REMARK 465 ARG A 5 REMARK 465 ARG A 196 REMARK 465 GLU A 197 REMARK 465 GLY A 198 REMARK 465 HIS A 199 REMARK 465 HIS A 200 REMARK 465 HIS A 201 REMARK 465 HIS A 202 REMARK 465 HIS A 203 REMARK 465 HIS A 204 REMARK 465 MSE B 1 REMARK 465 SER B 2 REMARK 465 LEU B 3 REMARK 465 THR B 4 REMARK 465 ARG B 5 REMARK 465 ARG B 196 REMARK 465 GLU B 197 REMARK 465 GLY B 198 REMARK 465 HIS B 199 REMARK 465 HIS B 200 REMARK 465 HIS B 201 REMARK 465 HIS B 202 REMARK 465 HIS B 203 REMARK 465 HIS B 204 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 O HOH B 439 O HOH B 441 1.99 REMARK 500 O HOH A 500 O HOH A 501 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 432 O HOH B 441 5545 2.11 REMARK 500 O HOH A 315 O HOH B 441 5545 2.17 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 CYS A 28 CB CYS A 28 SG -0.106 REMARK 500 MSE A 113 CB MSE A 113 CG 0.381 REMARK 500 MSE B 113 CB MSE B 113 CG 0.327 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 A 7 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 7 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 GLY A 78 N - CA - C ANGL. DEV. = -16.5 DEGREES REMARK 500 LEU A 104 CA - CB - CG ANGL. DEV. = -13.9 DEGREES REMARK 500 MSE A 113 CB - CG - SE ANGL. DEV. = -28.0 DEGREES REMARK 500 ASP A 127 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG A 141 NE - CZ - NH2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP A 159 CB - CG - OD1 ANGL. DEV. = 8.1 DEGREES REMARK 500 MSE B 16 CG - SE - CE ANGL. DEV. = -14.2 DEGREES REMARK 500 MSE B 33 CB - CG - SE ANGL. DEV. = -19.1 DEGREES REMARK 500 MSE B 33 CG - SE - CE ANGL. DEV. = 23.1 DEGREES REMARK 500 MSE B 113 CB - CG - SE ANGL. DEV. = -24.8 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 ALA A 59 70.24 -152.00 REMARK 500 PHE A 75 31.06 -83.49 REMARK 500 ASN A 138 -94.31 -116.06 REMARK 500 PRO B 26 -80.93 -32.97 REMARK 500 ALA B 27 46.33 -101.89 REMARK 500 ALA B 59 72.03 -154.47 REMARK 500 GLU B 77 -151.43 112.07 REMARK 500 ASN B 138 -94.11 -113.50 REMARK 500 ASP B 151 8.76 86.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11302D RELATED DB: TARGETDB DBREF 3HU5 A 4 196 UNP Q72G28 Q72G28_DESVH 2 194 DBREF 3HU5 B 4 196 UNP Q72G28 Q72G28_DESVH 2 194 SEQADV 3HU5 MSE A 1 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 SER A 2 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 LEU A 3 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 GLU A 197 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 GLY A 198 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS A 199 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS A 200 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS A 201 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS A 202 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS A 203 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS A 204 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 MSE B 1 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 SER B 2 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 LEU B 3 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 GLU B 197 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 GLY B 198 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS B 199 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS B 200 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS B 201 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS B 202 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS B 203 UNP Q72G28 EXPRESSION TAG SEQADV 3HU5 HIS B 204 UNP Q72G28 EXPRESSION TAG SEQRES 1 A 204 MSE SER LEU THR ARG ASN ARG THR VAL ALA LEU ALA ILE SEQRES 2 A 204 ILE ASP MSE GLN ASN ASP PHE VAL LEU PRO GLY ALA PRO SEQRES 3 A 204 ALA CYS VAL GLU GLY ALA MSE GLY THR VAL PRO VAL ILE SEQRES 4 A 204 ALA GLY LEU LEU ALA LYS ALA ARG ALA GLU GLY TRP MSE SEQRES 5 A 204 VAL LEU HIS VAL VAL ARG ALA HIS ARG ALA ASP GLY SER SEQRES 6 A 204 ASP ALA GLU LYS SER ARG GLU HIS LEU PHE LEU GLU GLY SEQRES 7 A 204 GLY GLY LEU CYS VAL ALA GLY THR PRO GLY ALA GLU ILE SEQRES 8 A 204 VAL ALA GLY LEU GLU PRO ALA SER GLY GLU THR VAL LEU SEQRES 9 A 204 VAL LYS THR ARG PHE SER ALA PHE MSE GLY THR GLU CYS SEQRES 10 A 204 ASP MSE LEU LEU ARG ARG ARG GLY VAL ASP THR LEU LEU SEQRES 11 A 204 VAL SER GLY THR GLN TYR PRO ASN CYS ILE ARG GLY THR SEQRES 12 A 204 ALA VAL ASP ALA PHE ALA LEU ASP TYR ASP VAL VAL VAL SEQRES 13 A 204 VAL THR ASP ALA CYS SER ALA ARG THR PRO GLY VAL ALA SEQRES 14 A 204 GLU SER ASN ILE ASN ASP MSE ARG ALA MSE GLY ILE THR SEQRES 15 A 204 CYS VAL PRO LEU THR ALA LEU ASP ASP VAL LEU ALA ARG SEQRES 16 A 204 ARG GLU GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 204 MSE SER LEU THR ARG ASN ARG THR VAL ALA LEU ALA ILE SEQRES 2 B 204 ILE ASP MSE GLN ASN ASP PHE VAL LEU PRO GLY ALA PRO SEQRES 3 B 204 ALA CYS VAL GLU GLY ALA MSE GLY THR VAL PRO VAL ILE SEQRES 4 B 204 ALA GLY LEU LEU ALA LYS ALA ARG ALA GLU GLY TRP MSE SEQRES 5 B 204 VAL LEU HIS VAL VAL ARG ALA HIS ARG ALA ASP GLY SER SEQRES 6 B 204 ASP ALA GLU LYS SER ARG GLU HIS LEU PHE LEU GLU GLY SEQRES 7 B 204 GLY GLY LEU CYS VAL ALA GLY THR PRO GLY ALA GLU ILE SEQRES 8 B 204 VAL ALA GLY LEU GLU PRO ALA SER GLY GLU THR VAL LEU SEQRES 9 B 204 VAL LYS THR ARG PHE SER ALA PHE MSE GLY THR GLU CYS SEQRES 10 B 204 ASP MSE LEU LEU ARG ARG ARG GLY VAL ASP THR LEU LEU SEQRES 11 B 204 VAL SER GLY THR GLN TYR PRO ASN CYS ILE ARG GLY THR SEQRES 12 B 204 ALA VAL ASP ALA PHE ALA LEU ASP TYR ASP VAL VAL VAL SEQRES 13 B 204 VAL THR ASP ALA CYS SER ALA ARG THR PRO GLY VAL ALA SEQRES 14 B 204 GLU SER ASN ILE ASN ASP MSE ARG ALA MSE GLY ILE THR SEQRES 15 B 204 CYS VAL PRO LEU THR ALA LEU ASP ASP VAL LEU ALA ARG SEQRES 16 B 204 ARG GLU GLY HIS HIS HIS HIS HIS HIS MODRES 3HU5 MSE A 16 MET SELENOMETHIONINE MODRES 3HU5 MSE A 33 MET SELENOMETHIONINE MODRES 3HU5 MSE A 52 MET SELENOMETHIONINE MODRES 3HU5 MSE A 113 MET SELENOMETHIONINE MODRES 3HU5 MSE A 119 MET SELENOMETHIONINE MODRES 3HU5 MSE A 176 MET SELENOMETHIONINE MODRES 3HU5 MSE A 179 MET SELENOMETHIONINE MODRES 3HU5 MSE B 16 MET SELENOMETHIONINE MODRES 3HU5 MSE B 33 MET SELENOMETHIONINE MODRES 3HU5 MSE B 52 MET SELENOMETHIONINE MODRES 3HU5 MSE B 113 MET SELENOMETHIONINE MODRES 3HU5 MSE B 119 MET SELENOMETHIONINE MODRES 3HU5 MSE B 176 MET SELENOMETHIONINE MODRES 3HU5 MSE B 179 MET SELENOMETHIONINE HET MSE A 16 8 HET MSE A 33 8 HET MSE A 52 8 HET MSE A 113 8 HET MSE A 119 8 HET MSE A 176 8 HET MSE A 179 8 HET MSE B 16 8 HET MSE B 33 8 HET MSE B 52 8 HET MSE B 113 8 HET MSE B 119 8 HET MSE B 176 8 HET MSE B 179 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 3 HOH *424(H2 O) HELIX 1 1 GLN A 17 LEU A 22 1 6 HELIX 2 2 GLY A 31 GLY A 50 1 20 HELIX 3 3 GLU A 68 LEU A 76 5 9 HELIX 4 4 THR A 86 GLU A 90 5 5 HELIX 5 5 GLU A 116 ARG A 124 1 9 HELIX 6 6 ASN A 138 LEU A 150 1 13 HELIX 7 7 THR A 165 GLY A 180 1 16 HELIX 8 8 PRO A 185 THR A 187 5 3 HELIX 9 9 ALA A 188 ARG A 195 1 8 HELIX 10 10 GLN B 17 LEU B 22 1 6 HELIX 11 11 ALA B 32 GLY B 34 5 3 HELIX 12 12 THR B 35 GLY B 50 1 16 HELIX 13 13 GLU B 68 LEU B 76 5 9 HELIX 14 14 GLU B 116 GLY B 125 1 10 HELIX 15 15 ASN B 138 LEU B 150 1 13 HELIX 16 16 THR B 165 GLY B 180 1 16 HELIX 17 17 PRO B 185 THR B 187 5 3 HELIX 18 18 ALA B 188 ARG B 195 1 8 SHEET 1 A 6 THR A 102 VAL A 105 0 SHEET 2 A 6 MSE A 52 VAL A 57 1 N HIS A 55 O THR A 102 SHEET 3 A 6 VAL A 9 ILE A 14 1 N LEU A 11 O LEU A 54 SHEET 4 A 6 THR A 128 THR A 134 1 O LEU A 130 N ALA A 10 SHEET 5 A 6 ASP A 153 SER A 162 1 O ASP A 153 N LEU A 129 SHEET 6 A 6 THR A 182 VAL A 184 1 O THR A 182 N VAL A 156 SHEET 1 B 6 THR B 102 VAL B 105 0 SHEET 2 B 6 MSE B 52 VAL B 57 1 N HIS B 55 O THR B 102 SHEET 3 B 6 VAL B 9 ILE B 14 1 N LEU B 11 O LEU B 54 SHEET 4 B 6 THR B 128 THR B 134 1 O LEU B 130 N ALA B 10 SHEET 5 B 6 ASP B 153 SER B 162 1 O ASP B 153 N LEU B 129 SHEET 6 B 6 THR B 182 VAL B 184 1 O THR B 182 N VAL B 156 LINK C ASP A 15 N MSE A 16 1555 1555 1.32 LINK C MSE A 16 N GLN A 17 1555 1555 1.33 LINK C ALA A 32 N MSE A 33 1555 1555 1.31 LINK C MSE A 33 N GLY A 34 1555 1555 1.34 LINK C TRP A 51 N MSE A 52 1555 1555 1.34 LINK C MSE A 52 N VAL A 53 1555 1555 1.31 LINK C PHE A 112 N MSE A 113 1555 1555 1.36 LINK C MSE A 113 N GLY A 114 1555 1555 1.34 LINK C ASP A 118 N MSE A 119 1555 1555 1.30 LINK C MSE A 119 N LEU A 120 1555 1555 1.32 LINK C ASP A 175 N MSE A 176 1555 1555 1.36 LINK C MSE A 176 N ARG A 177 1555 1555 1.34 LINK C ALA A 178 N MSE A 179 1555 1555 1.35 LINK C MSE A 179 N GLY A 180 1555 1555 1.33 LINK C ASP B 15 N MSE B 16 1555 1555 1.34 LINK C MSE B 16 N GLN B 17 1555 1555 1.32 LINK C ALA B 32 N MSE B 33 1555 1555 1.33 LINK C MSE B 33 N GLY B 34 1555 1555 1.33 LINK C TRP B 51 N MSE B 52 1555 1555 1.34 LINK C MSE B 52 N VAL B 53 1555 1555 1.35 LINK C PHE B 112 N MSE B 113 1555 1555 1.37 LINK C MSE B 113 N GLY B 114 1555 1555 1.31 LINK C ASP B 118 N MSE B 119 1555 1555 1.33 LINK C MSE B 119 N LEU B 120 1555 1555 1.34 LINK C ASP B 175 N MSE B 176 1555 1555 1.32 LINK C MSE B 176 N ARG B 177 1555 1555 1.33 LINK C ALA B 178 N MSE B 179 1555 1555 1.34 LINK C MSE B 179 N GLY B 180 1555 1555 1.33 CISPEP 1 LEU A 76 GLU A 77 0 -10.63 CISPEP 2 GLU A 77 GLY A 78 0 -29.65 CISPEP 3 THR A 134 GLN A 135 0 -1.97 CISPEP 4 THR B 134 GLN B 135 0 -9.38 CRYST1 63.663 116.790 105.661 90.00 90.00 90.00 C 2 2 21 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 0.015708 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008562 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009464 0.00000