HEADER TRANSFERASE 21-AUG-13 4MCI TITLE CRYSTAL STRUCTURE OF URIDINE PHOSPHORYLASE FROM VIBRIO FISCHERI ES114 TITLE 2 COMPLEXED WITH DMSO, NYSGRC TARGET 029520. COMPND MOL_ID: 1; COMPND 2 MOLECULE: URIDINE PHOSPHORYLASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.4.2.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO FISCHERI; SOURCE 3 ORGANISM_TAXID: 312309; SOURCE 4 STRAIN: ES114; SOURCE 5 GENE: 3280420, VF_A0530; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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, NYSGRC, PSI- KEYWDS 2 BIOLOGY, NEW YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM, KEYWDS 3 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR V.N.MALASHKEVICH,R.BHOSLE,R.TORO,B.HILLERICH,A.GIZZI,S.GARFORTH, AUTHOR 2 A.KAR,M.K.CHAN,J.LAFLUER,H.PATEL,B.MATIKAINEN,S.CHAMALA,S.LIM, AUTHOR 3 A.CELIKGIL,G.VILLEGAS,B.EVANS,J.LOVE,A.FISER,K.KHAFIZOV,R.SEIDEL, AUTHOR 4 J.B.BONANNO,S.C.ALMO,NEW YORK STRUCTURAL GENOMICS RESEARCH AUTHOR 5 CONSORTIUM (NYSGRC) REVDAT 3 06-DEC-23 4MCI 1 REMARK REVDAT 2 20-SEP-23 4MCI 1 REMARK SEQADV LINK REVDAT 1 04-SEP-13 4MCI 0 JRNL AUTH V.N.MALASHKEVICH,R.BHOSLE,R.TORO,B.HILLERICH,A.GIZZI, JRNL AUTH 2 S.GARFORTH,A.KAR,M.K.CHAN,J.LAFLUER,H.PATEL,B.MATIKAINEN, JRNL AUTH 3 S.CHAMALA,S.LIM,A.CELIKGIL,G.VILLEGAS,B.EVANS,J.LOVE, JRNL AUTH 4 A.FISER,K.KHAFIZOV,R.SEIDEL,J.B.BONANNO,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF URIDINE PHOSPHORYLASE FROM VIBRIO JRNL TITL 2 FISCHERI ES114 COMPLEXED WITH DMSO, NYSGRC TARGET 029520. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.01 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) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 19760 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1008 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) : 2.01 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.06 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1208 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.44 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE SET COUNT : 48 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1886 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 149 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.62000 REMARK 3 B22 (A**2) : -4.62000 REMARK 3 B33 (A**2) : 9.23000 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): 0.035 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.029 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.073 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.715 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1959 ; 0.009 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2636 ; 1.219 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 241 ; 6.030 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 90 ;35.524 ;24.889 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 310 ;12.300 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;18.786 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 308 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1443 ; 0.005 ; 0.020 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): 970 ; 1.452 ; 3.832 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1209 ; 2.413 ;51.427 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 988 ; 2.393 ; 4.581 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 -4 A 760 REMARK 3 ORIGIN FOR THE GROUP (A): 1.4417 29.6578 27.6162 REMARK 3 T TENSOR REMARK 3 T11: 0.1158 T22: 0.0623 REMARK 3 T33: 0.0087 T12: 0.0050 REMARK 3 T13: -0.0001 T23: 0.0075 REMARK 3 L TENSOR REMARK 3 L11: 0.4550 L22: 0.8413 REMARK 3 L33: 0.5318 L12: 0.1290 REMARK 3 L13: 0.0430 L23: 0.0489 REMARK 3 S TENSOR REMARK 3 S11: 0.0095 S12: 0.0092 S13: 0.0276 REMARK 3 S21: -0.0161 S22: -0.0044 S23: 0.0776 REMARK 3 S31: -0.1337 S32: -0.0474 S33: -0.0051 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN USED IF PRESENT IN THE INPUT REMARK 4 REMARK 4 4MCI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000081738. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-AUG-13 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 : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19810 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.010 REMARK 200 RESOLUTION RANGE LOW (A) : 81.996 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08800 REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.01 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.48200 REMARK 200 R SYM FOR SHELL (I) : 0.48200 REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 4LNH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULFATE, 0.1 M REMARK 280 HEPES:NAOH, PH 8.5, 25% PEG 3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 81.99650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.34070 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 19.63333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 81.99650 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 47.34070 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 19.63333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 81.99650 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 47.34070 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 19.63333 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 81.99650 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 47.34070 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 19.63333 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 81.99650 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 47.34070 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 19.63333 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 81.99650 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 47.34070 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 19.63333 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 94.68140 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 39.26667 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 94.68140 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 39.26667 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 94.68140 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 39.26667 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 94.68140 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 39.26667 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 94.68140 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 39.26667 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 94.68140 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 39.26667 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: HEXAMERIC 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 31780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 53880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -81.0 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 58.90000 REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 58.90000 REMARK 350 BIOMT1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 58.90000 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 610 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 614 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 662 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 744 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 -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 SER A -14 REMARK 465 SER A -13 REMARK 465 GLY A -12 REMARK 465 VAL A -11 REMARK 465 ASP A -10 REMARK 465 LEU A -9 REMARK 465 GLY A -8 REMARK 465 THR A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 GLN A 208 REMARK 465 ASP A 209 REMARK 465 VAL A 210 REMARK 465 LYS A 211 REMARK 465 GLY A 243 REMARK 465 ALA A 244 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 611 O HOH A 633 2.07 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 44 -128.92 49.92 REMARK 500 GLU A 181 -30.69 -135.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 313 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 314 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGRC-029520 RELATED DB: TARGETTRACK DBREF 4MCI A 1 244 UNP Q5E046 Q5E046_VIBF1 1 244 SEQADV 4MCI MSE A -21 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI HIS A -20 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI HIS A -19 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI HIS A -18 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI HIS A -17 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI HIS A -16 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI HIS A -15 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI SER A -14 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI SER A -13 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI GLY A -12 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI VAL A -11 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI ASP A -10 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI LEU A -9 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI GLY A -8 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI THR A -7 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI GLU A -6 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI ASN A -5 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI LEU A -4 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI TYR A -3 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI PHE A -2 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI GLN A -1 UNP Q5E046 EXPRESSION TAG SEQADV 4MCI SER A 0 UNP Q5E046 EXPRESSION TAG SEQRES 1 A 266 MSE HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 266 GLY THR GLU ASN LEU TYR PHE GLN SER MSE SER LYS GLN SEQRES 3 A 266 PRO HIS ILE CYS VAL ASP GLU ASN GLN VAL SER PRO TYR SEQRES 4 A 266 VAL ILE VAL CYS GLY GLU PRO ASP ARG VAL ASN ARG ILE SEQRES 5 A 266 VAL GLU LEU MSE ASP ASN VAL GLU LEU LEU ALA GLU ASN SEQRES 6 A 266 ARG GLU TYR ARG VAL PHE ASN GLY VAL TYR LYS GLY THR SEQRES 7 A 266 THR ILE THR ILE CYS SER THR GLY ILE GLY ALA PRO SER SEQRES 8 A 266 MSE ILE ILE ALA VAL GLU GLU LEU LYS LEU CYS GLY ALA SEQRES 9 A 266 THR HIS VAL ILE ARG VAL GLY SER ALA GLY ALA MSE GLN SEQRES 10 A 266 ASP HIS ILE GLN LEU GLY GLU LEU ILE VAL ALA GLU GLY SEQRES 11 A 266 ALA VAL ARG ASP GLU GLY GLY SER LYS ALA TYR ILE SER SEQRES 12 A 266 SER ALA TYR PRO ALA TYR ALA SER PHE ALA LEU LEU LYS SEQRES 13 A 266 GLU ILE SER HIS PHE LEU GLU ASN GLN SER VAL LYS TYR SEQRES 14 A 266 TYR PHE GLY VAL VAL ARG SER HIS ASP SER PHE TYR THR SEQRES 15 A 266 ASP GLU GLU ASP GLN LEU CYS GLN TYR TRP ASN LYS LYS SEQRES 16 A 266 GLY ILE LEU GLY ALA ASP MSE GLU THR SER ALA LEU PHE SEQRES 17 A 266 THR VAL GLY ARG LEU ARG GLY LEU GLN VAL ALA SER ILE SEQRES 18 A 266 LEU ASN ASN VAL VAL LEU TYR GLN GLN ASP VAL LYS GLU SEQRES 19 A 266 GLY VAL ASN GLN TYR VAL ASN ASP ASN LYS ALA MSE MSE SEQRES 20 A 266 ASN GLY GLU ARG LEU ALA ALA ILE THR ALA LEU GLU THR SEQRES 21 A 266 LEU CYS LYS GLN GLY ALA MODRES 4MCI MSE A 1 MET SELENOMETHIONINE MODRES 4MCI MSE A 34 MET SELENOMETHIONINE MODRES 4MCI MSE A 70 MET SELENOMETHIONINE MODRES 4MCI MSE A 94 MET SELENOMETHIONINE MODRES 4MCI MSE A 180 MET SELENOMETHIONINE MODRES 4MCI MSE A 224 MET SELENOMETHIONINE MODRES 4MCI MSE A 225 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 34 8 HET MSE A 70 8 HET MSE A 94 8 HET MSE A 180 8 HET MSE A 224 8 HET MSE A 225 8 HET SO4 A 301 5 HET DMS A 302 4 HET DMS A 303 4 HET DMS A 304 4 HET DMS A 305 4 HET DMS A 306 4 HET DMS A 307 4 HET DMS A 308 4 HET DMS A 309 4 HET DMS A 310 4 HET DMS A 311 4 HET DMS A 312 4 HET DMS A 313 4 HET DMS A 314 4 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM DMS DIMETHYL SULFOXIDE FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 2 SO4 O4 S 2- FORMUL 3 DMS 13(C2 H6 O S) FORMUL 16 HOH *149(H2 O) HELIX 1 1 LEU A -4 LYS A 3 1 8 HELIX 2 2 GLU A 23 GLU A 32 1 10 HELIX 3 3 GLY A 66 CYS A 80 1 15 HELIX 4 4 GLU A 113 ALA A 118 1 6 HELIX 5 5 SER A 129 ASN A 142 1 14 HELIX 6 6 GLU A 162 LYS A 173 1 12 HELIX 7 7 GLU A 181 ARG A 192 1 12 HELIX 8 8 GLY A 213 CYS A 240 1 28 SHEET 1 A 9 ASP A 35 ASN A 43 0 SHEET 2 A 9 TYR A 46 TYR A 53 -1 O VAL A 48 N LEU A 40 SHEET 3 A 9 THR A 56 SER A 62 -1 O ILE A 60 N PHE A 49 SHEET 4 A 9 TYR A 17 CYS A 21 1 N ILE A 19 O THR A 59 SHEET 5 A 9 HIS A 84 ALA A 93 1 O VAL A 88 N VAL A 20 SHEET 6 A 9 GLY A 177 ASP A 179 -1 O ALA A 178 N GLY A 92 SHEET 7 A 9 TYR A 147 HIS A 155 1 N ARG A 153 O GLY A 177 SHEET 8 A 9 LEU A 103 ASP A 112 1 N VAL A 105 O TYR A 148 SHEET 9 A 9 ALA A 126 TYR A 127 -1 O ALA A 126 N ALA A 109 SHEET 1 B 8 ASP A 35 ASN A 43 0 SHEET 2 B 8 TYR A 46 TYR A 53 -1 O VAL A 48 N LEU A 40 SHEET 3 B 8 THR A 56 SER A 62 -1 O ILE A 60 N PHE A 49 SHEET 4 B 8 TYR A 17 CYS A 21 1 N ILE A 19 O THR A 59 SHEET 5 B 8 HIS A 84 ALA A 93 1 O VAL A 88 N VAL A 20 SHEET 6 B 8 GLN A 195 VAL A 204 1 O GLN A 195 N VAL A 85 SHEET 7 B 8 LEU A 103 ASP A 112 -1 N ILE A 104 O LEU A 200 SHEET 8 B 8 ALA A 126 TYR A 127 -1 O ALA A 126 N ALA A 109 LINK C SER A 0 N MSE A 1 1555 1555 1.32 LINK C MSE A 1 N SER A 2 1555 1555 1.33 LINK C LEU A 33 N MSE A 34 1555 1555 1.33 LINK C MSE A 34 N ASP A 35 1555 1555 1.34 LINK C SER A 69 N MSE A 70 1555 1555 1.35 LINK C MSE A 70 N ILE A 71 1555 1555 1.32 LINK C ALA A 93 N MSE A 94 1555 1555 1.33 LINK C MSE A 94 N GLN A 95 1555 1555 1.33 LINK C ASP A 179 N MSE A 180 1555 1555 1.33 LINK C MSE A 180 N GLU A 181 1555 1555 1.33 LINK C ALA A 223 N MSE A 224 1555 1555 1.33 LINK C MSE A 224 N MSE A 225 1555 1555 1.34 LINK C MSE A 225 N ASN A 226 1555 1555 1.33 SITE 1 AC1 8 GLY A 22 ARG A 26 ARG A 44 ARG A 87 SITE 2 AC1 8 GLY A 89 SER A 90 HOH A 621 HOH A 648 SITE 1 AC2 3 TYR A 147 TYR A 148 PHE A 149 SITE 1 AC3 6 LEU A 33 MSE A 34 VAL A 52 TYR A 53 SITE 2 AC3 6 LYS A 54 HOH A 645 SITE 1 AC4 2 GLU A 141 GLN A 143 SITE 1 AC5 2 LYS A 117 ALA A 118 SITE 1 AC6 3 ASN A 28 GLU A 42 ARG A 47 SITE 1 AC7 3 SER A 15 THR A 56 THR A 57 SITE 1 AC8 5 ASN A 12 GLN A 13 VAL A 14 SER A 15 SITE 2 AC8 5 THR A 57 SITE 1 AC9 4 LYS A 173 GLY A 174 LEU A 191 GLY A 193 SITE 1 BC1 3 GLY A 213 ASN A 215 GLN A 216 SITE 1 BC2 2 GLN A 95 TYR A 148 SITE 1 BC3 2 GLU A 38 ASN A 215 SITE 1 BC4 3 HIS A 6 HOH A 621 HOH A 623 SITE 1 BC5 1 TYR A 169 CRYST1 163.993 163.993 58.900 90.00 90.00 120.00 H 3 2 18 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 0.006098 0.003521 0.000000 0.00000 SCALE2 0.000000 0.007041 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016978 0.00000