HEADER TRANSFERASE 21-AUG-13 4MCH TITLE CRYSTAL STRUCTURE OF URIDINE PHOSPHORYLASE FROM VIBRIO FISCHERI ES114 TITLE 2 COMPLEXED WITH 6-HYDROXY-1-NAPHTHOIC ACID, 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 4MCH 1 REMARK REVDAT 2 20-SEP-23 4MCH 1 REMARK SEQADV LINK REVDAT 1 04-SEP-13 4MCH 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 6-HYDROXY-1-NAPHTHOIC ACID, JRNL TITL 3 NYSGRC TARGET 029520. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.73 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) : 1.73 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 31134 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1570 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) : 1.73 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.78 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2166 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.48 REMARK 3 BIN R VALUE (WORKING SET) : 0.3050 REMARK 3 BIN FREE R VALUE SET COUNT : 111 REMARK 3 BIN FREE R VALUE : 0.3150 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 : 75 REMARK 3 SOLVENT ATOMS : 156 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -9.21000 REMARK 3 B22 (A**2) : -9.21000 REMARK 3 B33 (A**2) : 18.42000 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): 0.020 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.020 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.047 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.152 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1977 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2660 ; 1.196 ; 1.994 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 241 ; 5.942 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 90 ;36.096 ;24.889 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 310 ;11.902 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;20.072 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 309 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1457 ; 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 ; 1.537 ; 4.302 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1209 ; 2.466 ;57.809 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1006 ; 2.490 ; 5.151 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): 1.4853 29.7345 27.3260 REMARK 3 T TENSOR REMARK 3 T11: 0.0609 T22: 0.0177 REMARK 3 T33: 0.0060 T12: 0.0065 REMARK 3 T13: 0.0024 T23: 0.0047 REMARK 3 L TENSOR REMARK 3 L11: 0.3796 L22: 0.7518 REMARK 3 L33: 0.4037 L12: 0.1254 REMARK 3 L13: 0.0466 L23: 0.0381 REMARK 3 S TENSOR REMARK 3 S11: 0.0102 S12: 0.0063 S13: 0.0115 REMARK 3 S21: -0.0039 S22: 0.0040 S23: 0.0600 REMARK 3 S31: -0.1178 S32: -0.0494 S33: -0.0143 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 4MCH 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_1000081737. 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31147 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730 REMARK 200 RESOLUTION RANGE LOW (A) : 19.753 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.10300 REMARK 200 R SYM (I) : 0.10300 REMARK 200 FOR THE DATA SET : 7.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.73 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.01500 REMARK 200 R SYM FOR SHELL (I) : 1.50200 REMARK 200 FOR SHELL : 0.500 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 (%): 51.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 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 81.98750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.33551 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 19.45167 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 81.98750 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 47.33551 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 19.45167 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 81.98750 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 47.33551 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 19.45167 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 81.98750 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 47.33551 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 19.45167 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 81.98750 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 47.33551 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 19.45167 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 81.98750 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 47.33551 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 19.45167 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 94.67101 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 38.90333 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 94.67101 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 38.90333 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 94.67101 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 38.90333 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 94.67101 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 38.90333 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 94.67101 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 38.90333 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 94.67101 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 38.90333 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: 33690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 52950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 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 58.35500 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 58.35500 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 58.35500 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 664 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 686 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: 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 -132.63 51.51 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 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 61N A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 513 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 514 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 515 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LNH RELATED DB: PDB REMARK 900 RELATED ID: NYSGRC-029520 RELATED DB: TARGETTRACK DBREF 4MCH A 1 244 UNP Q5E046 Q5E046_VIBF1 1 244 SEQADV 4MCH MSE A -21 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH HIS A -20 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH HIS A -19 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH HIS A -18 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH HIS A -17 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH HIS A -16 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH HIS A -15 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH SER A -14 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH SER A -13 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH GLY A -12 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH VAL A -11 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH ASP A -10 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH LEU A -9 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH GLY A -8 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH THR A -7 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH GLU A -6 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH ASN A -5 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH LEU A -4 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH TYR A -3 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH PHE A -2 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH GLN A -1 UNP Q5E046 EXPRESSION TAG SEQADV 4MCH 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 4MCH MSE A 1 MET SELENOMETHIONINE MODRES 4MCH MSE A 34 MET SELENOMETHIONINE MODRES 4MCH MSE A 70 MET SELENOMETHIONINE MODRES 4MCH MSE A 94 MET SELENOMETHIONINE MODRES 4MCH MSE A 180 MET SELENOMETHIONINE MODRES 4MCH MSE A 224 MET SELENOMETHIONINE MODRES 4MCH 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 500 5 HET 61N A 501 14 HET DMS A 502 4 HET DMS A 503 4 HET DMS A 504 4 HET DMS A 505 4 HET DMS A 506 4 HET DMS A 507 4 HET DMS A 508 4 HET DMS A 509 4 HET DMS A 510 4 HET DMS A 511 4 HET DMS A 512 4 HET DMS A 513 4 HET DMS A 514 4 HET DMS A 515 4 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM 61N 6-HYDROXYNAPHTHALENE-1-CARBOXYLIC ACID HETNAM DMS DIMETHYL SULFOXIDE HETSYN 61N 6-HYDROXY-1-NAPHTHOIC ACID FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 2 SO4 O4 S 2- FORMUL 3 61N C11 H8 O3 FORMUL 4 DMS 14(C2 H6 O S) FORMUL 18 HOH *156(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 ILE A 120 1 8 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 CYS A 61 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 CYS A 61 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 ILE A 199 N ARG A 87 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 1.33 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 1.33 LINK C SER A 69 N MSE A 70 1555 1555 1.34 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 1.34 LINK C ASP A 179 N MSE A 180 1555 1555 1.34 LINK C MSE A 180 N GLU A 181 1555 1555 1.34 LINK C ALA A 223 N MSE A 224 1555 1555 1.33 LINK C MSE A 224 N MSE A 225 1555 1555 1.33 LINK C MSE A 225 N ASN A 226 1555 1555 1.34 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 622 HOH A 650 SITE 1 AC2 4 ARG A 29 LEU A 33 GLU A 228 ARG A 229 SITE 1 AC3 3 TYR A 147 TYR A 148 PHE A 149 SITE 1 AC4 5 LEU A 33 VAL A 52 TYR A 53 LYS A 54 SITE 2 AC4 5 HOH A 647 SITE 1 AC5 3 GLN A 143 SER A 144 VAL A 145 SITE 1 AC6 3 LYS A 117 ALA A 118 ILE A 120 SITE 1 AC7 3 ASN A 28 GLU A 42 ARG A 47 SITE 1 AC8 5 SER A 15 TYR A 17 THR A 56 THR A 57 SITE 2 AC8 5 DMS A 508 SITE 1 AC9 5 GLN A 13 VAL A 14 SER A 15 ASN A 50 SITE 2 AC9 5 DMS A 507 SITE 1 BC1 4 LYS A 173 ARG A 190 LEU A 191 HOH A 638 SITE 1 BC2 4 ASN A 12 GLY A 213 ASN A 215 GLN A 216 SITE 1 BC3 2 GLN A 95 TYR A 148 SITE 1 BC4 2 ASN A 36 ASN A 215 SITE 1 BC5 2 HIS A 6 ARG A 44 SITE 1 BC6 2 LEU A 166 TYR A 169 SITE 1 BC7 4 ALA A 91 VAL A 203 HOH A 624 HOH A 645 CRYST1 163.975 163.975 58.355 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 0.006099 0.003521 0.000000 0.00000 SCALE2 0.000000 0.007042 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017137 0.00000