HEADER ISOMERASE 14-JAN-11 3QC0 TITLE CRYSTAL STRUCTURE OF A SUGAR ISOMERASE (SMC04130) FROM SINORHIZOBIUM TITLE 2 MELILOTI 1021 AT 1.45 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUGAR ISOMERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SINORHIZOBIUM MELILOTI; SOURCE 3 ORGANISM_COMMON: SINORHIZOBIUM MELILOTI; SOURCE 4 ORGANISM_TAXID: 266834; SOURCE 5 STRAIN: 1021; SOURCE 6 GENE: R00122, SMC04130; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS TIM BARREL, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL KEYWDS 2 GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-BIOLOGY, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 5 27-NOV-24 3QC0 1 REMARK REVDAT 4 01-FEB-23 3QC0 1 REMARK SEQADV LINK REVDAT 3 25-OCT-17 3QC0 1 REMARK REVDAT 2 20-JUL-11 3QC0 1 KEYWDS REVDAT 1 06-APR-11 3QC0 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A SUGAR ISOMERASE (SMC04130) FROM JRNL TITL 2 SINORHIZOBIUM MELILOTI 1021 AT 1.45 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 70726 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) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3571 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4852 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.2480 REMARK 3 BIN FREE R VALUE SET COUNT : 243 REMARK 3 BIN FREE R VALUE : 0.2490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2041 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 101 REMARK 3 SOLVENT ATOMS : 267 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.06 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.09000 REMARK 3 B22 (A**2) : 2.09000 REMARK 3 B33 (A**2) : -3.13000 REMARK 3 B12 (A**2) : 1.04000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.053 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.038 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.285 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.963 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2271 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1588 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3071 ; 1.835 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3872 ; 0.952 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 301 ; 6.332 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 94 ;33.143 ;23.085 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 354 ;11.886 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;17.581 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 337 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2552 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 448 ; 0.002 ; 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): 1415 ; 1.538 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 586 ; 0.981 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2264 ; 2.223 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 856 ; 3.189 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 798 ; 4.701 ; 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): 3852 ; 1.680 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 276 ;10.728 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3809 ; 6.336 ; 3.000 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 274 REMARK 3 ORIGIN FOR THE GROUP (A): -12.5020 44.4220 0.7040 REMARK 3 T TENSOR REMARK 3 T11: 0.0532 T22: 0.0207 REMARK 3 T33: 0.0513 T12: -0.0184 REMARK 3 T13: -0.0171 T23: 0.0075 REMARK 3 L TENSOR REMARK 3 L11: 0.0117 L22: 0.5721 REMARK 3 L33: 0.8998 L12: -0.0383 REMARK 3 L13: 0.0878 L23: -0.6483 REMARK 3 S TENSOR REMARK 3 S11: 0.0118 S12: -0.0284 S13: -0.0039 REMARK 3 S21: -0.1413 S22: 0.0495 S23: 0.0127 REMARK 3 S31: 0.1699 S32: -0.0735 S33: -0.0614 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 RECORD CONTAINS SUM OF TLS AND REMARK 3 RESIDUAL B FACTORS. 3. ANISOU RECORD CONTAINS SUM OF TLS AND REMARK 3 RESIDUAL U FACTORS. 4. WATERS WERE EXCLUDED FROM AUTOMATIC TLS REMARK 3 ASSIGNMENT. 5. A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. 6. THE IDENTITY OF THE METAL SITE WAS TENTATIVELY REMARK 3 ASSIGNED AS A PARTIAL OCCUPANCY ZINC SITE BASED ON THE PRESENCE REMARK 3 OF ZINC IN A X-RAY FLUORESCENCE EXCITATION SCAN. HOWEVER, OTHER REMARK 3 METALS WERE ALSO PRESENT IN THE SCAN WITH LOWER PEAK HEIGHTS. REMARK 3 THE CHANGE IN ANOMALOUS DIFFERENCE DENSITY PEAK HEIGHTS REMARK 3 CALCULATED WITH DATA COLLECTED ABOVE AND BELOW THE ZINC K- REMARK 3 ABSORPTION EDGE SHOWS ONLY A SMALL DECREASE SUGGESTING THAT REMARK 3 ADDITIONAL METALS MAY BE BOUND AT THE SITE. HOMOLOGOUS REMARK 3 STRUCTURES HAVE BOTH ZN (PDB ID: 1I6N, 2Q02, 3JU2) AND MN (PDB REMARK 3 ID: 2OU4, 2QUL, 2QUM, 2QUN) IONS MODELED AT THIS SITE. 7. REMARK 3 TETRAETHYLENE GLYCOL (PG4) MOLECULES FROM THE CRYSTALLIZATION REMARK 3 SOLUTION ARE MODELED. 8. AN UNKNOWN LIGAND (UNL) IS MODELED NEAR REMARK 3 ZINC ION. 9. ATOM OCCUPANCIES WERE REFINED WITH PHENIX.REFINE REMARK 3 SOFTWARE. REMARK 4 REMARK 4 3QC0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063453. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : 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) : 0.91837,0.97929,0.97915 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70842 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 29.865 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : 0.07500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.69200 REMARK 200 R SYM FOR SHELL (I) : 0.69200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD 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 (%): 61.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50.0% PEG-200, 0.1M HEPES PH 7.5, REMARK 280 NANODROP, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 88.24033 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 176.48067 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 132.36050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 220.60083 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 44.12017 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 88.24033 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 176.48067 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 220.60083 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 132.36050 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 44.12017 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: ANALYTICAL SIZE EXCLUSION CHROMATOGRAPHY SUPPORTS THE REMARK 300 ASSIGNMENT OF A DIMER AS THE SIGNIFICANT OLIGOMERIZATION STATE IN REMARK 300 SOLUTION. 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: 9000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 122.62227 REMARK 350 BIOMT3 2 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 477 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 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 GLN A 2 CG CD OE1 NE2 REMARK 470 GLU A 4 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 536 O HOH A 537 2.17 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 65 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 65 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 85 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ARG A 151 -43.51 -133.43 REMARK 500 ARG A 151 -45.60 -131.98 REMARK 500 ALA A 152 119.74 -160.65 REMARK 500 CYS A 205 -165.06 169.86 REMARK 500 ASN A 253 -88.02 -131.49 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PG4 A 302 REMARK 610 PG4 A 303 REMARK 610 PG4 A 304 REMARK 610 PG4 A 305 REMARK 610 PG4 A 307 REMARK 610 PG4 A 309 REMARK 610 PG4 A 310 REMARK 610 PG4 A 311 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 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 141 OE1 REMARK 620 2 GLU A 141 OE2 6.2 REMARK 620 3 ASP A 176 OD2 94.0 96.3 REMARK 620 4 HIS A 203 ND1 86.4 91.6 100.5 REMARK 620 5 GLU A 247 OE1 177.7 171.5 87.3 95.3 REMARK 620 6 UNL A 300 O14 87.4 81.7 89.1 168.9 90.7 REMARK 620 7 HOH A 319 O 91.6 88.8 171.8 85.7 86.8 85.3 REMARK 620 N 1 2 3 4 5 6 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 311 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 403584 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3QC0 A 1 274 UNP Q92T58 Q92T58_RHIME 1 274 SEQADV 3QC0 GLY A 0 UNP Q92T58 EXPRESSION TAG SEQRES 1 A 275 GLY MSE GLN VAL GLU GLY LEU SER ILE ASN LEU ALA THR SEQRES 2 A 275 ILE ARG GLU GLN CYS GLY PHE ALA GLU ALA VAL ASP ILE SEQRES 3 A 275 CYS LEU LYS HIS GLY ILE THR ALA ILE ALA PRO TRP ARG SEQRES 4 A 275 ASP GLN VAL ALA ALA ILE GLY LEU GLY GLU ALA GLY ARG SEQRES 5 A 275 ILE VAL ARG ALA ASN GLY LEU LYS LEU THR GLY LEU CYS SEQRES 6 A 275 ARG GLY GLY PHE PHE PRO ALA PRO ASP ALA SER GLY ARG SEQRES 7 A 275 GLU LYS ALA ILE ASP ASP ASN ARG ARG ALA VAL ASP GLU SEQRES 8 A 275 ALA ALA GLU LEU GLY ALA ASP CYS LEU VAL LEU VAL ALA SEQRES 9 A 275 GLY GLY LEU PRO GLY GLY SER LYS ASN ILE ASP ALA ALA SEQRES 10 A 275 ARG ARG MSE VAL VAL GLU GLY ILE ALA ALA VAL LEU PRO SEQRES 11 A 275 HIS ALA ARG ALA ALA GLY VAL PRO LEU ALA ILE GLU PRO SEQRES 12 A 275 LEU HIS PRO MSE TYR ALA ALA ASP ARG ALA CYS VAL ASN SEQRES 13 A 275 THR LEU GLY GLN ALA LEU ASP ILE CYS GLU THR LEU GLY SEQRES 14 A 275 PRO GLY VAL GLY VAL ALA ILE ASP VAL TYR HIS VAL TRP SEQRES 15 A 275 TRP ASP PRO ASP LEU ALA ASN GLN ILE ALA ARG ALA GLY SEQRES 16 A 275 LYS MSE LYS ALA ILE LEU ALA HIS HIS ILE CYS ASP TRP SEQRES 17 A 275 LEU VAL PRO THR LYS ASP MSE LEU THR ASP ARG GLY MSE SEQRES 18 A 275 MSE GLY ASP GLY VAL ILE ASP LEU LYS GLY ILE ARG ARG SEQRES 19 A 275 ARG ILE GLU ALA ALA GLY PHE HIS GLY ALA GLN GLU VAL SEQRES 20 A 275 GLU ILE PHE SER ALA ASP ASN TRP TRP LYS ARG PRO ALA SEQRES 21 A 275 ASP GLU VAL ILE ALA THR CYS VAL GLU ARG TYR ARG ASN SEQRES 22 A 275 CYS CYS MODRES 3QC0 MSE A 1 MET SELENOMETHIONINE MODRES 3QC0 MSE A 119 MET SELENOMETHIONINE MODRES 3QC0 MSE A 146 MET SELENOMETHIONINE MODRES 3QC0 MSE A 196 MET SELENOMETHIONINE MODRES 3QC0 MSE A 214 MET SELENOMETHIONINE MODRES 3QC0 MSE A 220 MET SELENOMETHIONINE MODRES 3QC0 MSE A 221 MET SELENOMETHIONINE HET MSE A 1 5 HET MSE A 119 8 HET MSE A 146 8 HET MSE A 196 8 HET MSE A 214 8 HET MSE A 220 8 HET MSE A 221 8 HET UNL A 300 14 HET ZN A 301 1 HET PG4 A 302 7 HET PG4 A 303 7 HET PG4 A 304 7 HET PG4 A 305 7 HET PG4 A 306 13 HET PG4 A 307 8 HET PG4 A 308 13 HET PG4 A 309 7 HET PG4 A 310 7 HET PG4 A 311 10 HETNAM MSE SELENOMETHIONINE HETNAM UNL UNKNOWN LIGAND HETNAM ZN ZINC ION HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 3 ZN ZN 2+ FORMUL 4 PG4 10(C8 H18 O5) FORMUL 14 HOH *267(H2 O) HELIX 1 1 ALA A 11 ARG A 14 5 4 HELIX 2 2 GLY A 18 HIS A 29 1 12 HELIX 3 3 TRP A 37 GLY A 45 1 9 HELIX 4 4 GLY A 45 GLY A 57 1 13 HELIX 5 5 ASP A 73 LEU A 94 1 22 HELIX 6 6 ASN A 112 GLY A 135 1 24 HELIX 7 7 HIS A 144 ALA A 148 5 5 HELIX 8 8 THR A 156 GLY A 168 1 13 HELIX 9 9 VAL A 177 TRP A 181 1 5 HELIX 10 10 ASP A 185 MSE A 196 1 12 HELIX 11 11 ASP A 227 ALA A 238 1 12 HELIX 12 12 ASN A 253 ARG A 257 5 5 HELIX 13 13 PRO A 258 CYS A 274 1 17 SHEET 1 A 9 LYS A 59 LEU A 60 0 SHEET 2 A 9 ALA A 33 ALA A 35 1 N ILE A 34 O LYS A 59 SHEET 3 A 9 LEU A 6 ASN A 9 1 N ILE A 8 O ALA A 35 SHEET 4 A 9 GLN A 244 VAL A 246 1 O VAL A 246 N SER A 7 SHEET 5 A 9 ILE A 199 ILE A 204 1 N HIS A 202 O GLU A 245 SHEET 6 A 9 VAL A 171 ASP A 176 1 N VAL A 173 O LEU A 200 SHEET 7 A 9 LEU A 138 ILE A 140 1 N LEU A 138 O GLY A 172 SHEET 8 A 9 LEU A 99 VAL A 102 1 N LEU A 99 O ALA A 139 SHEET 9 A 9 LEU A 63 GLY A 67 1 N GLY A 66 O VAL A 100 LINK C MSE A 1 N GLN A 2 1555 1555 1.34 LINK C ARG A 118 N MSE A 119 1555 1555 1.32 LINK C MSE A 119 N VAL A 120 1555 1555 1.33 LINK C PRO A 145 N MSE A 146 1555 1555 1.34 LINK C MSE A 146 N TYR A 147 1555 1555 1.35 LINK C LYS A 195 N MSE A 196 1555 1555 1.32 LINK C MSE A 196 N LYS A 197 1555 1555 1.33 LINK C ASP A 213 N MSE A 214 1555 1555 1.32 LINK C MSE A 214 N LEU A 215 1555 1555 1.34 LINK C GLY A 219 N MSE A 220 1555 1555 1.34 LINK C MSE A 220 N MSE A 221 1555 1555 1.31 LINK C MSE A 221 N GLY A 222 1555 1555 1.32 LINK OE1BGLU A 141 ZN ZN A 301 1555 1555 2.03 LINK OE2AGLU A 141 ZN ZN A 301 1555 1555 2.04 LINK OD2 ASP A 176 ZN ZN A 301 1555 1555 2.09 LINK ND1 HIS A 203 ZN ZN A 301 1555 1555 2.28 LINK OE1 GLU A 247 ZN ZN A 301 1555 1555 2.03 LINK O14 UNL A 300 ZN ZN A 301 1555 1555 2.17 LINK ZN ZN A 301 O HOH A 319 1555 1555 2.20 CISPEP 1 CYS A 64 ARG A 65 0 -3.23 CISPEP 2 VAL A 209 PRO A 210 0 -4.82 SITE 1 AC1 5 GLU A 141 ASP A 176 HIS A 203 GLU A 247 SITE 2 AC1 5 HOH A 319 SITE 1 AC2 4 ARG A 51 GLY A 194 LYS A 195 ALA A 237 SITE 1 AC3 4 GLN A 16 TRP A 255 ARG A 257 PRO A 258 SITE 1 AC4 7 GLY A 108 GLY A 109 SER A 110 MSE A 119 SITE 2 AC4 7 GLU A 268 HOH A 403 HOH A 408 SITE 1 AC5 7 LEU A 106 PRO A 107 GLY A 108 GLY A 109 SITE 2 AC5 7 SER A 110 VAL A 225 HOH A 413 SITE 1 AC6 7 ASN A 112 ASP A 114 ALA A 115 ARG A 118 SITE 2 AC6 7 GLU A 122 ARG A 271 HOH A 511 SITE 1 AC7 3 GLY A 170 MSE A 196 LYS A 197 SITE 1 AC8 3 ASN A 188 ALA A 191 LYS A 195 SITE 1 AC9 4 LYS A 212 ASP A 213 MSE A 214 HOH A 544 SITE 1 BC1 5 GLN A 16 CYS A 17 GLY A 18 GLU A 21 SITE 2 BC1 5 HOH A 574 SITE 1 BC2 10 VAL A 3 GLU A 4 GLY A 5 LEU A 6 SITE 2 BC2 10 GLY A 30 ILE A 31 THR A 32 HIS A 241 SITE 3 BC2 10 ALA A 243 HOH A 514 CRYST1 70.796 70.796 264.721 90.00 90.00 120.00 P 61 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014125 0.008155 0.000000 0.00000 SCALE2 0.000000 0.016310 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003778 0.00000 HETATM 1 N MSE A 1 -15.700 27.308 -20.098 1.00 67.74 N ANISOU 1 N MSE A 1 12330 6357 7049 -777 -892 137 N HETATM 2 CA MSE A 1 -16.655 27.062 -18.976 1.00 67.28 C ANISOU 2 CA MSE A 1 12184 6336 7044 -904 -989 164 C HETATM 3 C MSE A 1 -16.346 27.950 -17.740 1.00 65.08 C ANISOU 3 C MSE A 1 11618 6171 6938 -850 -932 157 C HETATM 4 O MSE A 1 -17.200 28.728 -17.315 1.00 64.11 O ANISOU 4 O MSE A 1 11336 6146 6876 -957 -992 125 O HETATM 5 CB MSE A 1 -16.667 25.574 -18.593 1.00 68.64 C ANISOU 5 CB MSE A 1 12492 6441 7148 -911 -1013 204 C