HEADER HYDROLASE 24-FEB-10 3LWU TITLE CRYSTAL STRUCTURE OF PUTATIVE SUCCINYLGLUTAMATE TITLE 2 DESUCCINYLASE/ASPARTOACYLASE (YP_749235.1) FROM SHEWANELLA TITLE 3 FRIGIDIMARINA NCIMB 400 AT 2.10 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUCCINYLGLUTAMATE DESUCCINYLASE/ASPARTOACYLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHEWANELLA FRIGIDIMARINA; SOURCE 3 ORGANISM_TAXID: 318167; SOURCE 4 STRAIN: NCIMB 400; SOURCE 5 GENE: SFRI_0536; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS PUTATIVE SUCCINYLGLUTAMATE DESUCCINYLASE/ASPARTOACYLASE, STRUCTURAL KEYWDS 2 GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, PSI-2, HYDROLASE, METAL-BINDING, METAL BINDING KEYWDS 4 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 4 17-JUL-19 3LWU 1 REMARK LINK REVDAT 3 08-NOV-17 3LWU 1 REMARK REVDAT 2 13-JUL-11 3LWU 1 VERSN REVDAT 1 23-MAR-10 3LWU 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE SUCCINYLGLUTAMATE JRNL TITL 2 DESUCCINYLASE/ASPARTOACYLASE (YP_749235.1) FROM SHEWANELLA JRNL TITL 3 FRIGIDIMARINA NCIMB 400 AT 2.10 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 30947 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) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1561 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2122 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE SET COUNT : 112 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2880 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 200 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 31.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.44000 REMARK 3 B22 (A**2) : -1.66000 REMARK 3 B33 (A**2) : -0.78000 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): 0.148 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.133 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.724 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 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): 3014 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1956 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4111 ; 1.536 ; 1.956 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4799 ; 0.923 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 385 ; 6.492 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 138 ;34.135 ;24.783 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 476 ;14.053 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;14.729 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 458 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3404 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 601 ; 0.001 ; 0.020 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): 1881 ; 0.820 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 756 ; 0.197 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3030 ; 1.454 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1133 ; 2.450 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1074 ; 3.729 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 372 REMARK 3 ORIGIN FOR THE GROUP (A): 50.3390 22.3680 17.5120 REMARK 3 T TENSOR REMARK 3 T11: 0.0390 T22: 0.2260 REMARK 3 T33: 0.1557 T12: -0.0073 REMARK 3 T13: 0.0273 T23: -0.0596 REMARK 3 L TENSOR REMARK 3 L11: 0.5093 L22: 0.8395 REMARK 3 L33: 0.6405 L12: -0.2843 REMARK 3 L13: -0.0837 L23: 0.1827 REMARK 3 S TENSOR REMARK 3 S11: -0.0246 S12: 0.0395 S13: 0.0256 REMARK 3 S21: -0.1031 S22: 0.1054 S23: -0.2316 REMARK 3 S31: 0.0716 S32: 0.1701 S33: -0.0808 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED REMARK 3 SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. ZN HAS REMARK 3 BEEN MODELED ON THE BASIS OF ANOMALOUS DIFFERENCE FOURIERS AND REMARK 3 ITS USE AS AN ADDITIVE IN THE CRYSTALLIZATION SOLUTION. 5. A REMARK 3 SULFATE MOLECULE (SO4) FROM THE CRYSTALLIZATION SOLUTION IS REMARK 3 MODELED. 6. AN UNKNOW LIGAND (UNL) HAS BEEN MODELED IN THE REMARK 3 ACTIVE SITE NEAR ZN. THE UNL RESEMEBLES A DERIVATIVE OF EITHER REMARK 3 SUCCINYL-GLUTAMATE OR GLUTAMATE. 7. RAMACHANDRAN OUTLIER RESIDUE REMARK 3 176 IS WELL SUPPORTED BY THE DENSITY. REMARK 4 REMARK 4 3LWU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057829. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97931 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : FLAT COLLIMATING MIRROR, TOROID REMARK 200 FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30948 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 29.623 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.82000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10.0000% GLYCEROL, 12.5000% REMARK 280 POLYETHYLENE GLYCOL 300, 0.2000M AMMONIUM SULFATE, 0.1M REMARK 280 PHOSPHATE-CITRATE PH 4.5, 0.006 M ZINC CHLORIDE, NANODROP, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: F 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,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y+1/2,Z+1/2 REMARK 290 7555 -X,Y+1/2,-Z+1/2 REMARK 290 8555 X,-Y+1/2,-Z+1/2 REMARK 290 9555 X+1/2,Y,Z+1/2 REMARK 290 10555 -X+1/2,-Y,Z+1/2 REMARK 290 11555 -X+1/2,Y,-Z+1/2 REMARK 290 12555 X+1/2,-Y,-Z+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z REMARK 290 14555 -X+1/2,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y+1/2,-Z REMARK 290 16555 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 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.48600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 64.78700 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.48600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 64.78700 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.48600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 64.78700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.48600 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 64.78700 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 63.27450 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 64.78700 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 63.27450 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 64.78700 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 63.27450 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 64.78700 REMARK 290 SMTRY1 12 1.000000 0.000000 0.000000 63.27450 REMARK 290 SMTRY2 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 64.78700 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 63.27450 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 64.48600 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 63.27450 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 64.48600 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 63.27450 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 64.48600 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 63.27450 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 64.48600 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A REMARK 300 TETRAMER AS THE SIGNIFICANT OLIGOMERIZATION STATE. 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 REMARK 350 TOTAL BURIED SURFACE AREA: 19910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 50860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -321.0 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 64.48600 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 64.78700 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 63.27450 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 64.78700 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 63.27450 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 64.48600 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 487 LIES ON A SPECIAL POSITION. 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 -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 ASP A -15 REMARK 465 LYS A -14 REMARK 465 ILE A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 465 PHE A -2 REMARK 465 GLN A -1 REMARK 465 GLY A 0 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 MSE A 1 CG SE CE REMARK 470 SER A 33 OG REMARK 470 ASN A 109 CG OD1 ND2 REMARK 470 GLU A 232 CG CD OE1 OE2 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 OD1 ASP A 190 NE2 GLN A 370 3655 1.96 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 139 CB CYS A 139 SG -0.142 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 GLU A 87 49.09 -91.03 REMARK 500 GLU A 87 49.80 -92.33 REMARK 500 PRO A 176 -88.96 -80.71 REMARK 500 SER A 196 59.04 -99.09 REMARK 500 ALA A 245 -138.89 63.97 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 ZN A 374 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 UNL A 373 O9 REMARK 620 2 GLU A 47 OE1 97.5 REMARK 620 3 HIS A 173 ND1 121.4 95.6 REMARK 620 4 HIS A 44 ND1 118.9 116.8 104.6 REMARK 620 5 GLU A 47 OE2 70.1 55.9 151.3 88.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 374 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 375 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 375169 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. DBREF 3LWU A 1 372 UNP Q088B8 Q088B8_SHEFN 1 372 SEQADV 3LWU MSE A -18 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU GLY A -17 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU SER A -16 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU ASP A -15 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU LYS A -14 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU ILE A -13 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU HIS A -12 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU HIS A -11 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU HIS A -10 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU HIS A -9 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU HIS A -8 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU HIS A -7 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU GLU A -6 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU ASN A -5 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU LEU A -4 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU TYR A -3 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU PHE A -2 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU GLN A -1 UNP Q088B8 EXPRESSION TAG SEQADV 3LWU GLY A 0 UNP Q088B8 EXPRESSION TAG SEQRES 1 A 391 MSE GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS GLU SEQRES 2 A 391 ASN LEU TYR PHE GLN GLY MSE THR LYS ALA ILE GLN SER SEQRES 3 A 391 SER VAL GLN VAL GLY GLU LEU ALA THR GLY GLN ALA LEU SEQRES 4 A 391 THR VAL PRO ILE TYR SER PHE MSE GLY SER GLU ASN SER SEQRES 5 A 391 ALA PRO SER VAL TYR ILE GLN ALA ASN VAL HIS GLY ALA SEQRES 6 A 391 GLU VAL GLN GLY ASN ALA VAL ILE TYR GLN LEU MSE THR SEQRES 7 A 391 LEU LEU GLU GLY TYR GLN VAL LEU GLY ASP ILE THR LEU SEQRES 8 A 391 ALA PRO LEU ALA ASN PRO LEU GLY ILE ASN GLN LYS SER SEQRES 9 A 391 GLY GLU PHE THR LEU GLY ARG PHE ASP PRO ILE THR GLY SEQRES 10 A 391 VAL ASN TRP ASN ARG GLU TYR PHE ASP HIS ASN VAL ASP SEQRES 11 A 391 ILE GLN ASN TRP TYR ALA GLU HIS GLN HIS LEU THR ASN SEQRES 12 A 391 SER GLU LEU PHE CYS ALA TYR ARG SER MSE LEU VAL GLU SEQRES 13 A 391 THR CYS GLN ALA ARG LEU THR HIS SER PHE GLY ILE SER SEQRES 14 A 391 THR GLY HIS ARG LEU ALA VAL ASN LEU GLN ALA MSE ALA SEQRES 15 A 391 HIS GLN ALA ASP ILE VAL LEU ASP LEU HIS THR GLY PRO SEQRES 16 A 391 LYS SER CYS LYS HIS LEU TYR CYS PRO GLU TYR ASP ILE SEQRES 17 A 391 ASP ALA ALA ARG PHE PHE SER ILE PRO TYR THR LEU ILE SEQRES 18 A 391 ILE PRO ASN SER PHE GLY GLY ALA MSE ASP GLU ALA THR SEQRES 19 A 391 PHE CYS PRO TRP TRP GLN LEU THR GLU TYR ALA THR SER SEQRES 20 A 391 GLN GLY ARG GLU PHE SER VAL PRO VAL SER ALA PHE THR SEQRES 21 A 391 LEU GLU LEU ALA SER GLN GLU ARG ILE ASP LEU ALA ASP SEQRES 22 A 391 ALA LEU GLU ASP ALA LYS GLY ILE LEU ALA TYR LEU SER SEQRES 23 A 391 HIS ARG GLY VAL ILE ALA GLU LYS VAL ASN PRO ALA SER SEQRES 24 A 391 MSE GLU ARG PHE GLY CYS TYR LEU LYS ASP TYR LYS LYS SEQRES 25 A 391 PHE HIS ALA PRO LYS ALA GLY LEU ILE GLU TYR CYS ALA SEQRES 26 A 391 SER VAL GLY GLU PRO LEU THR ALA GLY LYS PRO LEU VAL SEQRES 27 A 391 ASN ILE LEU ARG ILE ASP LEU TYR GLY SER GLU GLN ALA SEQRES 28 A 391 TYR GLN ALA ILE SER LEU PRO MSE ASP CYS VAL PRO ILE SEQRES 29 A 391 LEU HIS PHE ALA SER ALA SER VAL LEU GLN GLY THR GLU SEQRES 30 A 391 LEU TYR LYS VAL MSE THR ASN VAL PHE PRO LEU GLN PRO SEQRES 31 A 391 SER MODRES 3LWU MSE A 1 MET SELENOMETHIONINE MODRES 3LWU MSE A 28 MET SELENOMETHIONINE MODRES 3LWU MSE A 58 MET SELENOMETHIONINE MODRES 3LWU MSE A 134 MET SELENOMETHIONINE MODRES 3LWU MSE A 162 MET SELENOMETHIONINE MODRES 3LWU MSE A 211 MET SELENOMETHIONINE MODRES 3LWU MSE A 281 MET SELENOMETHIONINE MODRES 3LWU MSE A 340 MET SELENOMETHIONINE MODRES 3LWU MSE A 363 MET SELENOMETHIONINE HET MSE A 1 5 HET MSE A 28 8 HET MSE A 58 8 HET MSE A 134 8 HET MSE A 162 8 HET MSE A 211 8 HET MSE A 281 8 HET MSE A 340 8 HET MSE A 363 8 HET UNL A 373 12 HET ZN A 374 1 HET SO4 A 375 5 HETNAM MSE SELENOMETHIONINE HETNAM UNL UNKNOWN LIGAND HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 1 MSE 9(C5 H11 N O2 SE) FORMUL 3 ZN ZN 2+ FORMUL 4 SO4 O4 S 2- FORMUL 5 HOH *200(H2 O) HELIX 1 1 VAL A 48 GLU A 62 1 15 HELIX 2 2 ASN A 77 ASN A 82 1 6 HELIX 3 3 ASN A 100 GLU A 104 5 5 HELIX 4 4 ASP A 111 GLN A 120 1 10 HELIX 5 5 THR A 123 ARG A 142 1 20 HELIX 6 6 LEU A 143 HIS A 145 5 3 HELIX 7 7 SER A 150 HIS A 164 1 15 HELIX 8 8 TYR A 187 PHE A 195 5 9 HELIX 9 9 ALA A 210 GLN A 229 1 20 HELIX 10 10 ASP A 251 ARG A 269 1 19 HELIX 11 11 ILE A 324 TYR A 327 5 4 HELIX 12 12 SER A 329 GLN A 331 5 3 SHEET 1 A10 ILE A 5 GLU A 13 0 SHEET 2 A10 ALA A 19 PHE A 27 -1 O ILE A 24 N SER A 7 SHEET 3 A10 ILE A 70 ALA A 73 -1 O ILE A 70 N PHE A 27 SHEET 4 A10 VAL A 37 ALA A 41 1 N ILE A 39 O ALA A 73 SHEET 5 A10 ILE A 168 GLY A 175 1 O LEU A 172 N GLN A 40 SHEET 6 A10 SER A 238 SER A 246 1 O LEU A 242 N HIS A 173 SHEET 7 A10 HIS A 181 PRO A 185 -1 N TYR A 183 O THR A 241 SHEET 8 A10 TYR A 199 ILE A 203 1 O LEU A 201 N LEU A 182 SHEET 9 A10 PHE A 284 TYR A 287 1 O CYS A 286 N ILE A 202 SHEET 10 A10 PHE A 367 PRO A 368 -1 O PHE A 367 N GLY A 285 SHEET 1 B 4 LYS A 177 SER A 178 0 SHEET 2 B 4 VAL A 343 HIS A 347 -1 O HIS A 347 N LYS A 177 SHEET 3 B 4 GLU A 358 MSE A 363 -1 O LYS A 361 N ILE A 345 SHEET 4 B 4 TYR A 291 HIS A 295 -1 N PHE A 294 O LEU A 359 SHEET 1 C 4 TYR A 333 SER A 337 0 SHEET 2 C 4 PRO A 317 LEU A 322 -1 N VAL A 319 O ILE A 336 SHEET 3 C 4 GLY A 300 TYR A 304 -1 N LEU A 301 O LEU A 322 SHEET 4 C 4 SER A 352 VAL A 353 -1 O VAL A 353 N GLY A 300 LINK C MSE A 1 N THR A 2 1555 1555 1.35 LINK C PHE A 27 N MSE A 28 1555 1555 1.32 LINK C MSE A 28 N GLY A 29 1555 1555 1.32 LINK C LEU A 57 N MSE A 58 1555 1555 1.32 LINK C MSE A 58 N THR A 59 1555 1555 1.33 LINK C SER A 133 N MSE A 134 1555 1555 1.33 LINK C MSE A 134 N LEU A 135 1555 1555 1.34 LINK C ALA A 161 N MSE A 162 1555 1555 1.34 LINK C MSE A 162 N ALA A 163 1555 1555 1.33 LINK C ALA A 210 N MSE A 211 1555 1555 1.34 LINK C MSE A 211 N ASP A 212 1555 1555 1.33 LINK C SER A 280 N MSE A 281 1555 1555 1.33 LINK C MSE A 281 N GLU A 282 1555 1555 1.32 LINK C PRO A 339 N MSE A 340 1555 1555 1.33 LINK C MSE A 340 N ASP A 341 1555 1555 1.32 LINK C VAL A 362 N MSE A 363 1555 1555 1.32 LINK C MSE A 363 N THR A 364 1555 1555 1.32 LINK O9 UNL A 373 ZN ZN A 374 1555 1555 1.91 LINK OE1 GLU A 47 ZN ZN A 374 1555 1555 2.06 LINK ND1 HIS A 173 ZN ZN A 374 1555 1555 2.06 LINK ND1 HIS A 44 ZN ZN A 374 1555 1555 2.07 LINK OE2 GLU A 47 ZN ZN A 374 1555 1555 2.58 SITE 1 AC1 3 HIS A 44 GLU A 47 HIS A 173 SITE 1 AC2 6 SER A 150 LYS A 293 HIS A 295 HOH A 422 SITE 2 AC2 6 HOH A 429 HOH A 544 CRYST1 126.549 128.972 129.574 90.00 90.00 90.00 F 2 2 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 0.007902 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007754 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007718 0.00000 HETATM 1 N MSE A 1 35.112 -3.610 9.498 1.00 32.98 N HETATM 2 CA MSE A 1 36.150 -4.302 10.311 1.00 32.75 C HETATM 3 C MSE A 1 37.439 -3.429 10.456 1.00 32.30 C HETATM 4 O MSE A 1 38.443 -3.731 9.775 1.00 32.51 O HETATM 5 CB MSE A 1 36.500 -5.645 9.647 1.00 32.96 C