PDB Short entry for 3DJQ HEADER HYDROLASE 24-JUN-08 3DJQ TITLE BOVINE SEMINAL RIBONUCLEASE- URIDINE 5' DIPHOSPHATE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: SEMINAL RIBONUCLEASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SEMINAL RNASE, S-RNASE, RIBONUCLEASE BS-1; COMPND 5 EC: 3.1.27.5 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE; SOURCE 4 ORGANISM_TAXID: 9913 KEYWDS RIBONUCLEASE, HYDROLASE, ALLOSTERIC ENZYME, ENDONUCLEASE, NUCLEASE, KEYWDS 2 SECRETED EXPDTA X-RAY DIFFRACTION AUTHOR K.DOSSI,D.D.LEONIDAS,S.E.ZOGRAPHOS,N.G.OIKONOMAKOS REVDAT 5 01-NOV-23 3DJQ 1 REMARK REVDAT 4 25-OCT-17 3DJQ 1 REMARK REVDAT 3 13-JUL-11 3DJQ 1 VERSN REVDAT 2 20-OCT-09 3DJQ 1 JRNL REVDAT 1 30-JUN-09 3DJQ 0 JRNL AUTH K.DOSSI,V.G.TSIRKONE,J.M.HAYES,J.MATOUSEK,P.POUCKOVA, JRNL AUTH 2 J.SOUCEK,M.ZADINOVA,S.E.ZOGRAPHOS,D.D.LEONIDAS JRNL TITL MAPPING THE RIBONUCLEOLYTIC ACTIVE SITE OF BOVINE SEMINAL JRNL TITL 2 RIBONUCLEASE. THE BINDING OF PYRIMIDINYL PHOSPHONUCLEOTIDE JRNL TITL 3 INHIBITORS JRNL REF EUR.J.MED.CHEM. V. 44 4496 2009 JRNL REFN ISSN 0223-5234 JRNL PMID 19643512 JRNL DOI 10.1016/J.EJMECH.2009.06.039 REMARK 2 REMARK 2 RESOLUTION. 1.53 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.53 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 33874 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1785 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) : 1.53 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2317 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 121 REMARK 3 BIN FREE R VALUE : 0.2390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1882 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 313 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 20.29 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.095 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.094 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.060 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1974 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2666 ; 1.125 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 246 ; 5.498 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 74 ;34.051 ;24.865 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 362 ;13.233 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;16.376 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1420 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 961 ; 0.185 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1355 ; 0.291 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 231 ; 0.119 ; 0.200 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): 52 ; 0.157 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 33 ; 0.119 ; 0.200 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 8 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 17 REMARK 3 ORIGIN FOR THE GROUP (A): 9.6039 20.4649 19.1993 REMARK 3 T TENSOR REMARK 3 T11: 0.0310 T22: 0.0616 REMARK 3 T33: 0.0321 T12: -0.0069 REMARK 3 T13: -0.0010 T23: -0.0097 REMARK 3 L TENSOR REMARK 3 L11: 2.8589 L22: 3.1232 REMARK 3 L33: 5.9216 L12: 0.7204 REMARK 3 L13: -0.8993 L23: -1.1689 REMARK 3 S TENSOR REMARK 3 S11: 0.0756 S12: -0.2529 S13: 0.0719 REMARK 3 S21: 0.0846 S22: -0.1427 S23: -0.0135 REMARK 3 S31: -0.0382 S32: 0.2340 S33: 0.0672 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 18 A 63 REMARK 3 ORIGIN FOR THE GROUP (A): 28.2259 31.0047 4.7705 REMARK 3 T TENSOR REMARK 3 T11: 0.0749 T22: 0.0249 REMARK 3 T33: 0.0576 T12: 0.0195 REMARK 3 T13: -0.0180 T23: -0.0070 REMARK 3 L TENSOR REMARK 3 L11: 4.1390 L22: 1.3966 REMARK 3 L33: 1.2404 L12: 1.3146 REMARK 3 L13: -0.5313 L23: -0.1664 REMARK 3 S TENSOR REMARK 3 S11: 0.0597 S12: -0.1845 S13: 0.0404 REMARK 3 S21: -0.0198 S22: -0.0558 S23: 0.0773 REMARK 3 S31: -0.0934 S32: -0.0179 S33: -0.0039 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 64 A 87 REMARK 3 ORIGIN FOR THE GROUP (A): 34.6112 39.1262 1.2568 REMARK 3 T TENSOR REMARK 3 T11: 0.1140 T22: 0.0031 REMARK 3 T33: 0.0219 T12: 0.0152 REMARK 3 T13: -0.0191 T23: 0.0268 REMARK 3 L TENSOR REMARK 3 L11: 2.3150 L22: 2.2950 REMARK 3 L33: 1.2023 L12: 1.0822 REMARK 3 L13: 0.5155 L23: 0.9056 REMARK 3 S TENSOR REMARK 3 S11: 0.0397 S12: 0.0880 S13: 0.1076 REMARK 3 S21: -0.1837 S22: -0.0020 S23: 0.1323 REMARK 3 S31: -0.1683 S32: 0.0802 S33: -0.0377 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 88 A 124 REMARK 3 ORIGIN FOR THE GROUP (A): 29.5000 36.0976 4.9129 REMARK 3 T TENSOR REMARK 3 T11: 0.0732 T22: 0.0226 REMARK 3 T33: 0.0605 T12: 0.0281 REMARK 3 T13: -0.0161 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 2.3387 L22: 1.7754 REMARK 3 L33: 1.0541 L12: 0.4959 REMARK 3 L13: 0.8632 L23: 0.0485 REMARK 3 S TENSOR REMARK 3 S11: -0.0786 S12: -0.1603 S13: 0.2074 REMARK 3 S21: 0.0144 S22: -0.0079 S23: 0.2745 REMARK 3 S31: -0.1289 S32: -0.1028 S33: 0.0865 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 32 REMARK 3 ORIGIN FOR THE GROUP (A): 27.2896 24.6022 7.2108 REMARK 3 T TENSOR REMARK 3 T11: 0.0593 T22: 0.0308 REMARK 3 T33: 0.0616 T12: 0.0189 REMARK 3 T13: 0.0120 T23: 0.0203 REMARK 3 L TENSOR REMARK 3 L11: 3.5523 L22: 1.3168 REMARK 3 L33: 0.6745 L12: 2.0478 REMARK 3 L13: -0.4489 L23: -0.1708 REMARK 3 S TENSOR REMARK 3 S11: -0.1198 S12: -0.1003 S13: -0.0852 REMARK 3 S21: -0.0048 S22: 0.0017 S23: -0.0170 REMARK 3 S31: 0.0296 S32: 0.0088 S33: 0.1181 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 33 B 65 REMARK 3 ORIGIN FOR THE GROUP (A): 6.9050 15.0867 15.9404 REMARK 3 T TENSOR REMARK 3 T11: 0.0554 T22: 0.0641 REMARK 3 T33: 0.0229 T12: 0.0052 REMARK 3 T13: -0.0070 T23: -0.0009 REMARK 3 L TENSOR REMARK 3 L11: 2.2057 L22: 2.1298 REMARK 3 L33: 2.5048 L12: 0.0884 REMARK 3 L13: -0.1744 L23: -1.1460 REMARK 3 S TENSOR REMARK 3 S11: -0.0055 S12: -0.2372 S13: -0.0556 REMARK 3 S21: -0.0919 S22: -0.0216 S23: -0.0394 REMARK 3 S31: 0.1775 S32: 0.0078 S33: 0.0271 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 66 B 85 REMARK 3 ORIGIN FOR THE GROUP (A): 2.0666 10.1284 14.4227 REMARK 3 T TENSOR REMARK 3 T11: 0.1055 T22: 0.0339 REMARK 3 T33: -0.0019 T12: -0.0332 REMARK 3 T13: -0.0223 T23: -0.0135 REMARK 3 L TENSOR REMARK 3 L11: 1.3274 L22: 2.3634 REMARK 3 L33: 2.3529 L12: 0.7387 REMARK 3 L13: 0.0432 L23: -2.0524 REMARK 3 S TENSOR REMARK 3 S11: -0.0492 S12: -0.0921 S13: -0.0084 REMARK 3 S21: -0.3124 S22: 0.1489 S23: 0.0538 REMARK 3 S31: 0.3586 S32: -0.2821 S33: -0.0996 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 86 B 124 REMARK 3 ORIGIN FOR THE GROUP (A): 10.5491 11.7727 13.1320 REMARK 3 T TENSOR REMARK 3 T11: 0.1079 T22: 0.0161 REMARK 3 T33: 0.0279 T12: 0.0309 REMARK 3 T13: 0.0451 T23: -0.0026 REMARK 3 L TENSOR REMARK 3 L11: 0.8913 L22: 1.4759 REMARK 3 L33: 2.2398 L12: 0.3519 REMARK 3 L13: -0.4160 L23: -0.9493 REMARK 3 S TENSOR REMARK 3 S11: -0.0529 S12: -0.0300 S13: -0.0504 REMARK 3 S21: -0.2636 S22: -0.0550 S23: -0.2490 REMARK 3 S31: 0.3931 S32: 0.1256 S33: 0.1079 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3DJQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000048123. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-07 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 : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8040 REMARK 200 MONOCHROMATOR : CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35662 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.530 REMARK 200 RESOLUTION RANGE LOW (A) : 25.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.53 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.31700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: PDB ENTRY 1R5D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG4000, 0.1M SODIUM ACETATE, 0.1 REMARK 280 M TRIS/HCL, PH8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 24.04000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.36150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.60300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.36150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.04000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.60300 REMARK 290 SMTRY3 4 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 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: 3920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.6 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 GLN A 60 -137.69 -105.26 REMARK 500 GLN B 60 -142.12 -103.97 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 UDP A 125 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UDP B 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DJO RELATED DB: PDB REMARK 900 BS-RNASE URIDINE 2' PHOSPHATE COMPLEX REMARK 900 RELATED ID: 3DJP RELATED DB: PDB REMARK 900 BS-RNASE URIDINE 3' PHOSPHATE COMPLEX REMARK 900 RELATED ID: 3DJV RELATED DB: PDB REMARK 900 BS-RNASE CYTIDINE 3' PHOSPHATE COMPLEX REMARK 900 RELATED ID: 3DJX RELATED DB: PDB REMARK 900 BS-RNASE CYTIDINE 5' PHOSPHATE COMPLEX DBREF 3DJQ A 1 124 UNP P00669 RNS_BOVIN 27 150 DBREF 3DJQ B 1 124 UNP P00669 RNS_BOVIN 27 150 SEQRES 1 A 124 LYS GLU SER ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 A 124 ASP SER GLY ASN SER PRO SER SER SER SER ASN TYR CYS SEQRES 3 A 124 ASN LEU MET MET CYS CYS ARG LYS MET THR GLN GLY LYS SEQRES 4 A 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 A 124 ASP VAL LYS ALA VAL CYS SER GLN LYS LYS VAL THR CYS SEQRES 6 A 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER LYS SER THR SEQRES 7 A 124 MET ARG ILE THR ASP CYS ARG GLU THR GLY SER SER LYS SEQRES 8 A 124 TYR PRO ASN CYS ALA TYR LYS THR THR GLN VAL GLU LYS SEQRES 9 A 124 HIS ILE ILE VAL ALA CYS GLY GLY LYS PRO SER VAL PRO SEQRES 10 A 124 VAL HIS PHE ASP ALA SER VAL SEQRES 1 B 124 LYS GLU SER ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 B 124 ASP SER GLY ASN SER PRO SER SER SER SER ASN TYR CYS SEQRES 3 B 124 ASN LEU MET MET CYS CYS ARG LYS MET THR GLN GLY LYS SEQRES 4 B 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 B 124 ASP VAL LYS ALA VAL CYS SER GLN LYS LYS VAL THR CYS SEQRES 6 B 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER LYS SER THR SEQRES 7 B 124 MET ARG ILE THR ASP CYS ARG GLU THR GLY SER SER LYS SEQRES 8 B 124 TYR PRO ASN CYS ALA TYR LYS THR THR GLN VAL GLU LYS SEQRES 9 B 124 HIS ILE ILE VAL ALA CYS GLY GLY LYS PRO SER VAL PRO SEQRES 10 B 124 VAL HIS PHE ASP ALA SER VAL HET UDP A 125 25 HET UDP B 201 25 HETNAM UDP URIDINE-5'-DIPHOSPHATE FORMUL 3 UDP 2(C9 H14 N2 O12 P2) FORMUL 5 HOH *313(H2 O) HELIX 1 1 SER A 3 MET A 13 1 11 HELIX 2 2 SER A 21 SER A 23 5 3 HELIX 3 3 ASN A 24 ARG A 33 1 10 HELIX 4 4 SER A 50 VAL A 57 1 8 HELIX 5 5 CYS A 58 GLN A 60 5 3 HELIX 6 6 SER B 3 MET B 13 1 11 HELIX 7 7 SER B 21 SER B 23 5 3 HELIX 8 8 ASN B 24 ARG B 33 1 10 HELIX 9 9 SER B 50 VAL B 57 1 8 HELIX 10 10 CYS B 58 GLN B 60 5 3 SHEET 1 A 5 VAL A 43 VAL A 47 0 SHEET 2 A 5 MET A 79 GLU A 86 -1 O THR A 82 N PHE A 46 SHEET 3 A 5 TYR A 97 GLY A 111 -1 O LYS A 98 N ARG A 85 SHEET 4 A 5 CYS A 72 GLN A 74 -1 N TYR A 73 O VAL A 108 SHEET 5 A 5 LYS A 61 VAL A 63 -1 N LYS A 61 O GLN A 74 SHEET 1 B 4 VAL A 43 VAL A 47 0 SHEET 2 B 4 MET A 79 GLU A 86 -1 O THR A 82 N PHE A 46 SHEET 3 B 4 TYR A 97 GLY A 111 -1 O LYS A 98 N ARG A 85 SHEET 4 B 4 VAL A 116 VAL A 124 -1 O VAL A 118 N ALA A 109 SHEET 1 C 5 VAL B 43 VAL B 47 0 SHEET 2 C 5 MET B 79 GLU B 86 -1 O THR B 82 N PHE B 46 SHEET 3 C 5 TYR B 97 GLY B 111 -1 O LYS B 98 N ARG B 85 SHEET 4 C 5 CYS B 72 GLN B 74 -1 N TYR B 73 O VAL B 108 SHEET 5 C 5 LYS B 61 VAL B 63 -1 N LYS B 61 O GLN B 74 SHEET 1 D 4 VAL B 43 VAL B 47 0 SHEET 2 D 4 MET B 79 GLU B 86 -1 O THR B 82 N PHE B 46 SHEET 3 D 4 TYR B 97 GLY B 111 -1 O LYS B 98 N ARG B 85 SHEET 4 D 4 VAL B 116 VAL B 124 -1 O VAL B 118 N ALA B 109 SSBOND 1 CYS A 26 CYS A 84 1555 1555 2.03 SSBOND 2 CYS A 31 CYS B 32 1555 1555 2.03 SSBOND 3 CYS A 32 CYS B 31 1555 1555 2.05 SSBOND 4 CYS A 40 CYS A 95 1555 1555 2.03 SSBOND 5 CYS A 58 CYS A 110 1555 1555 2.03 SSBOND 6 CYS A 65 CYS A 72 1555 1555 2.03 SSBOND 7 CYS B 26 CYS B 84 1555 1555 2.04 SSBOND 8 CYS B 40 CYS B 95 1555 1555 2.03 SSBOND 9 CYS B 58 CYS B 110 1555 1555 2.03 SSBOND 10 CYS B 65 CYS B 72 1555 1555 2.01 CISPEP 1 TYR A 92 PRO A 93 0 0.93 CISPEP 2 LYS A 113 PRO A 114 0 -1.42 CISPEP 3 TYR B 92 PRO B 93 0 5.63 CISPEP 4 LYS B 113 PRO B 114 0 5.80 SITE 1 AC1 15 LYS A 1 LYS A 41 VAL A 43 ASN A 44 SITE 2 AC1 15 THR A 45 LYS A 66 HIS A 119 PHE A 120 SITE 3 AC1 15 HOH A 171 HOH A 176 HOH A 178 HOH A 180 SITE 4 AC1 15 HOH A 189 HIS B 12 HOH B 318 SITE 1 AC2 15 HIS A 12 LYS B 1 LYS B 41 VAL B 43 SITE 2 AC2 15 ASN B 44 THR B 45 HIS B 119 PHE B 120 SITE 3 AC2 15 HOH B 272 HOH B 274 HOH B 378 HOH B 379 SITE 4 AC2 15 HOH B 381 HOH B 382 HOH B 420 CRYST1 48.080 59.206 82.723 90.00 90.00 90.00 P 21 21 21 8 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 0.020799 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016890 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012089 0.00000