HEADER HYDROLASE 03-MAR-06 2G8R TITLE THE CRYSTAL STRUCTURE OF THE RNASE A- 3-N-PIPERIDINE-4-CARBOXYL-3- TITLE 2 DEOXY-ARA-URIDINE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASE PANCREATIC; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: RNASE 1, RNASE A; COMPND 5 EC: 3.1.27.5 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913 KEYWDS HYDROLASE, RIBONUCLEASE, ENDONUCLEASE EXPDTA X-RAY DIFFRACTION AUTHOR D.D.LEONIDAS,S.E.ZOGRAPHOS,N.G.OIKONOMAKOS REVDAT 3 30-AUG-23 2G8R 1 REMARK REVDAT 2 24-FEB-09 2G8R 1 VERSN REVDAT 1 15-AUG-06 2G8R 0 JRNL AUTH D.D.LEONIDAS,T.K.MAITI,A.SAMANTA,S.DASGUPTA,T.PATHAK, JRNL AUTH 2 S.E.ZOGRAPHOS,N.G.OIKONOMAKOS JRNL TITL THE BINDING OF JRNL TITL 2 3'-N-PIPERIDINE-4-CARBOXYL-3'-DEOXY-ARA-URIDINE TO JRNL TITL 3 RIBONUCLEASE A IN THE CRYSTAL. JRNL REF BIOORG.MED.CHEM. V. 14 6055 2006 JRNL REFN ISSN 0968-0896 JRNL PMID 16730994 JRNL DOI 10.1016/J.BMC.2006.05.011 REMARK 2 REMARK 2 RESOLUTION. 1.70 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 24225 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) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1304 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1442 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2860 REMARK 3 BIN FREE R VALUE SET COUNT : 75 REMARK 3 BIN FREE R VALUE : 0.3370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1902 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 262 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.58 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.19000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : -0.19000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.22000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.127 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.122 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.483 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2008 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2723 ; 1.301 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 246 ; 6.297 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 90 ;36.712 ;25.222 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 339 ;11.194 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;12.518 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 302 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1510 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 975 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1370 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 229 ; 0.146 ; 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): 76 ; 0.171 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 30 ; 0.149 ; 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): 1272 ; 0.604 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2015 ; 0.955 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 819 ; 1.539 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 708 ; 2.401 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 16 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 16 REMARK 3 ORIGIN FOR THE GROUP (A): 30.3441 -8.2522 27.3282 REMARK 3 T TENSOR REMARK 3 T11: 0.0662 T22: 0.0043 REMARK 3 T33: 0.0101 T12: -0.0342 REMARK 3 T13: -0.0732 T23: 0.0543 REMARK 3 L TENSOR REMARK 3 L11: 1.6144 L22: 4.9463 REMARK 3 L33: 8.5475 L12: 0.3099 REMARK 3 L13: 0.2391 L23: 0.7892 REMARK 3 S TENSOR REMARK 3 S11: 0.3321 S12: -0.2165 S13: -0.2632 REMARK 3 S21: 0.1255 S22: -0.0666 S23: -0.3691 REMARK 3 S31: 0.6995 S32: -0.0896 S33: -0.2655 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 17 A 23 REMARK 3 ORIGIN FOR THE GROUP (A): 24.5210 5.7057 38.1208 REMARK 3 T TENSOR REMARK 3 T11: 0.1084 T22: 0.1410 REMARK 3 T33: 0.1030 T12: 0.0743 REMARK 3 T13: 0.0113 T23: 0.0207 REMARK 3 L TENSOR REMARK 3 L11: 26.1894 L22: 77.4730 REMARK 3 L33: 25.4543 L12: 31.3225 REMARK 3 L13: 18.5605 L23: 0.0137 REMARK 3 S TENSOR REMARK 3 S11: -2.3931 S12: -0.3249 S13: -0.1934 REMARK 3 S21: -3.3589 S22: 0.7295 S23: -1.6919 REMARK 3 S31: -0.5092 S32: -0.0296 S33: 1.6636 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 24 A 39 REMARK 3 ORIGIN FOR THE GROUP (A): 36.6303 -2.6917 36.8413 REMARK 3 T TENSOR REMARK 3 T11: 0.0933 T22: 0.0281 REMARK 3 T33: -0.0269 T12: -0.0486 REMARK 3 T13: -0.1383 T23: 0.0488 REMARK 3 L TENSOR REMARK 3 L11: 7.4673 L22: 6.5162 REMARK 3 L33: 5.8105 L12: -0.6921 REMARK 3 L13: 1.6751 L23: 2.2971 REMARK 3 S TENSOR REMARK 3 S11: 0.4344 S12: -0.6102 S13: -0.3036 REMARK 3 S21: 0.5626 S22: -0.0113 S23: -0.7040 REMARK 3 S31: 0.5259 S32: -0.0982 S33: -0.4231 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 40 A 61 REMARK 3 ORIGIN FOR THE GROUP (A): 26.4686 -0.3756 24.0339 REMARK 3 T TENSOR REMARK 3 T11: 0.0039 T22: 0.0537 REMARK 3 T33: 0.0079 T12: -0.0042 REMARK 3 T13: 0.0057 T23: 0.0175 REMARK 3 L TENSOR REMARK 3 L11: 2.1015 L22: 1.7373 REMARK 3 L33: 3.8045 L12: 0.1138 REMARK 3 L13: 1.8344 L23: -0.1488 REMARK 3 S TENSOR REMARK 3 S11: 0.0773 S12: -0.2127 S13: -0.0285 REMARK 3 S21: 0.1524 S22: 0.0415 S23: -0.0683 REMARK 3 S31: 0.1053 S32: -0.2554 S33: -0.1188 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 : A 62 A 76 REMARK 3 ORIGIN FOR THE GROUP (A): 30.2346 1.8864 11.6927 REMARK 3 T TENSOR REMARK 3 T11: 0.0191 T22: -0.0049 REMARK 3 T33: 0.0316 T12: 0.0012 REMARK 3 T13: 0.0144 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 5.1416 L22: 1.9494 REMARK 3 L33: 2.2908 L12: 0.2906 REMARK 3 L13: -0.3547 L23: -0.1009 REMARK 3 S TENSOR REMARK 3 S11: -0.0726 S12: 0.1786 S13: -0.0952 REMARK 3 S21: -0.1260 S22: 0.0189 S23: -0.2108 REMARK 3 S31: 0.0352 S32: -0.1429 S33: 0.0536 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 : A 77 A 95 REMARK 3 ORIGIN FOR THE GROUP (A): 37.2958 4.8294 33.8032 REMARK 3 T TENSOR REMARK 3 T11: 0.0248 T22: -0.0019 REMARK 3 T33: 0.0103 T12: -0.0011 REMARK 3 T13: -0.0598 T23: -0.0576 REMARK 3 L TENSOR REMARK 3 L11: 12.0992 L22: 1.4590 REMARK 3 L33: 6.9798 L12: -1.9177 REMARK 3 L13: 6.5946 L23: -1.0644 REMARK 3 S TENSOR REMARK 3 S11: -0.3394 S12: -0.3636 S13: 0.2103 REMARK 3 S21: 0.3868 S22: 0.2139 S23: -0.3965 REMARK 3 S31: -0.5264 S32: 0.1474 S33: 0.1255 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 : A 96 A 107 REMARK 3 ORIGIN FOR THE GROUP (A): 29.9579 8.0741 29.1278 REMARK 3 T TENSOR REMARK 3 T11: 0.0365 T22: -0.0025 REMARK 3 T33: -0.0256 T12: 0.0277 REMARK 3 T13: -0.0105 T23: -0.0300 REMARK 3 L TENSOR REMARK 3 L11: 2.2119 L22: 0.5314 REMARK 3 L33: 7.2631 L12: -0.7034 REMARK 3 L13: 2.5758 L23: -0.2459 REMARK 3 S TENSOR REMARK 3 S11: -0.0902 S12: -0.4015 S13: 0.2642 REMARK 3 S21: 0.1860 S22: 0.0344 S23: -0.2235 REMARK 3 S31: -0.6839 S32: -0.5260 S33: 0.0558 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 : A 108 A 124 REMARK 3 ORIGIN FOR THE GROUP (A): 29.5231 -3.9418 17.1096 REMARK 3 T TENSOR REMARK 3 T11: 0.0251 T22: -0.0029 REMARK 3 T33: 0.0306 T12: -0.0035 REMARK 3 T13: -0.0031 T23: 0.0219 REMARK 3 L TENSOR REMARK 3 L11: 3.3649 L22: 5.6268 REMARK 3 L33: 3.1920 L12: 1.6811 REMARK 3 L13: 0.2610 L23: 1.9380 REMARK 3 S TENSOR REMARK 3 S11: 0.0593 S12: -0.0878 S13: -0.0972 REMARK 3 S21: 0.0307 S22: -0.0278 S23: -0.0820 REMARK 3 S31: 0.0782 S32: -0.2185 S33: -0.0315 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 14 REMARK 3 ORIGIN FOR THE GROUP (A): 16.3881 5.6695 5.7969 REMARK 3 T TENSOR REMARK 3 T11: 0.0053 T22: 0.0232 REMARK 3 T33: 0.0255 T12: 0.0065 REMARK 3 T13: -0.0027 T23: -0.0262 REMARK 3 L TENSOR REMARK 3 L11: 4.1171 L22: 1.5264 REMARK 3 L33: 7.5036 L12: -0.2457 REMARK 3 L13: -0.0310 L23: 0.3231 REMARK 3 S TENSOR REMARK 3 S11: -0.1659 S12: -0.2896 S13: 0.2450 REMARK 3 S21: -0.0118 S22: 0.2884 S23: -0.0308 REMARK 3 S31: -0.3227 S32: 0.2573 S33: -0.1225 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 15 B 23 REMARK 3 ORIGIN FOR THE GROUP (A): 11.9294 -10.1961 13.5038 REMARK 3 T TENSOR REMARK 3 T11: 0.1939 T22: 0.1178 REMARK 3 T33: 0.0852 T12: -0.0109 REMARK 3 T13: -0.0291 T23: 0.1037 REMARK 3 L TENSOR REMARK 3 L11: 72.4660 L22: 11.9246 REMARK 3 L33: 11.4627 L12: 11.1529 REMARK 3 L13: -23.3096 L23: -9.9494 REMARK 3 S TENSOR REMARK 3 S11: 0.7862 S12: -1.2721 S13: -4.1817 REMARK 3 S21: 1.2902 S22: -1.3672 S23: -0.0736 REMARK 3 S31: 0.1415 S32: 1.0622 S33: 0.5810 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 24 B 30 REMARK 3 ORIGIN FOR THE GROUP (A): 8.2680 -2.4957 17.4846 REMARK 3 T TENSOR REMARK 3 T11: 0.0992 T22: 0.0955 REMARK 3 T33: -0.0956 T12: 0.0769 REMARK 3 T13: 0.0334 T23: 0.0951 REMARK 3 L TENSOR REMARK 3 L11: 8.5487 L22: 13.8256 REMARK 3 L33: 0.5927 L12: 0.2033 REMARK 3 L13: -0.0039 L23: 2.8620 REMARK 3 S TENSOR REMARK 3 S11: -0.1069 S12: -0.8501 S13: -0.4709 REMARK 3 S21: 1.0636 S22: -0.0296 S23: -0.0319 REMARK 3 S31: 0.2959 S32: 0.3626 S33: 0.1364 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 31 B 39 REMARK 3 ORIGIN FOR THE GROUP (A): 10.0815 7.8423 16.1626 REMARK 3 T TENSOR REMARK 3 T11: -0.0005 T22: 0.0531 REMARK 3 T33: -0.0167 T12: -0.0040 REMARK 3 T13: -0.0409 T23: -0.0484 REMARK 3 L TENSOR REMARK 3 L11: 19.0399 L22: 8.3534 REMARK 3 L33: 6.0001 L12: -7.0454 REMARK 3 L13: -8.2992 L23: 5.5388 REMARK 3 S TENSOR REMARK 3 S11: 0.0214 S12: -0.5336 S13: 1.1239 REMARK 3 S21: 0.3982 S22: -0.0864 S23: -0.0922 REMARK 3 S31: -0.2369 S32: 0.1565 S33: 0.0649 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 40 B 60 REMARK 3 ORIGIN FOR THE GROUP (A): 12.9958 -2.5518 2.2525 REMARK 3 T TENSOR REMARK 3 T11: 0.0089 T22: -0.0115 REMARK 3 T33: 0.0585 T12: 0.0157 REMARK 3 T13: -0.0088 T23: 0.0122 REMARK 3 L TENSOR REMARK 3 L11: 1.6226 L22: 1.2878 REMARK 3 L33: 1.6355 L12: -0.3721 REMARK 3 L13: -0.8383 L23: 1.1975 REMARK 3 S TENSOR REMARK 3 S11: -0.0517 S12: -0.1447 S13: -0.0927 REMARK 3 S21: 0.1556 S22: 0.0296 S23: -0.0304 REMARK 3 S31: 0.1131 S32: 0.0338 S33: 0.0221 REMARK 3 REMARK 3 TLS GROUP : 14 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 61 B 70 REMARK 3 ORIGIN FOR THE GROUP (A): 6.6382 4.5465 -10.6900 REMARK 3 T TENSOR REMARK 3 T11: 0.0014 T22: 0.0159 REMARK 3 T33: 0.0935 T12: 0.0167 REMARK 3 T13: -0.0276 T23: 0.0402 REMARK 3 L TENSOR REMARK 3 L11: 7.7185 L22: 10.4342 REMARK 3 L33: 3.6210 L12: -4.7696 REMARK 3 L13: -1.2242 L23: 1.8256 REMARK 3 S TENSOR REMARK 3 S11: 0.0144 S12: 0.2262 S13: 0.3735 REMARK 3 S21: -0.0520 S22: -0.1637 S23: 0.0933 REMARK 3 S31: -0.1154 S32: -0.0905 S33: 0.1493 REMARK 3 REMARK 3 TLS GROUP : 15 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 71 B 89 REMARK 3 ORIGIN FOR THE GROUP (A): 6.0099 -3.4794 2.0285 REMARK 3 T TENSOR REMARK 3 T11: 0.0255 T22: -0.0187 REMARK 3 T33: 0.0589 T12: 0.0082 REMARK 3 T13: 0.0258 T23: 0.0136 REMARK 3 L TENSOR REMARK 3 L11: 1.0024 L22: 1.0373 REMARK 3 L33: 0.6883 L12: -0.2645 REMARK 3 L13: 0.0420 L23: 0.6850 REMARK 3 S TENSOR REMARK 3 S11: -0.1213 S12: -0.0757 S13: -0.1433 REMARK 3 S21: 0.1524 S22: -0.0399 S23: 0.0557 REMARK 3 S31: 0.1696 S32: -0.0972 S33: 0.1612 REMARK 3 REMARK 3 TLS GROUP : 16 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 90 B 124 REMARK 3 ORIGIN FOR THE GROUP (A): 8.0899 0.9618 4.1402 REMARK 3 T TENSOR REMARK 3 T11: 0.0434 T22: 0.0129 REMARK 3 T33: 0.0676 T12: 0.0045 REMARK 3 T13: 0.0148 T23: 0.0028 REMARK 3 L TENSOR REMARK 3 L11: 1.8000 L22: 0.5103 REMARK 3 L33: 2.0355 L12: 0.0519 REMARK 3 L13: -0.8801 L23: -0.0790 REMARK 3 S TENSOR REMARK 3 S11: 0.0013 S12: -0.2057 S13: 0.0010 REMARK 3 S21: 0.1856 S22: -0.0355 S23: 0.0644 REMARK 3 S31: 0.0138 S32: -0.0828 S33: 0.0341 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2G8R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000036830. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-NOV-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 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 : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8068 REMARK 200 MONOCHROMATOR : CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24227 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 19.50 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07100 REMARK 200 FOR THE DATA SET : 4.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.45000 REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2G8Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20MM SODIUM CITRATE BUFFER AND 20% PEG REMARK 280 4000, PH 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 279K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 50.08700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 16.26500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 50.08700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 16.26500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: THE BIOLOGICALLY SIGNIFICANT ASSEMBLY IS A MONOMER 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 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 B 133 O HOH B 249 2.03 REMARK 500 O HOH A 1029 O HOH A 1122 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 23 CB SER A 23 OG 0.103 REMARK 500 SER B 23 C SER B 23 O 0.142 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 19 -77.23 -104.73 REMARK 500 GLN A 60 -139.58 -96.61 REMARK 500 ASN A 71 35.17 -94.28 REMARK 500 HIS B 48 64.07 -103.99 REMARK 500 GLN B 60 -130.96 -105.04 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 N3E A 998 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE N3E A 999 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2G8Q RELATED DB: PDB DBREF 2G8R A 1 124 UNP P61823 RNAS1_BOVIN 27 150 DBREF 2G8R B 1 124 UNP P61823 RNAS1_BOVIN 27 150 SEQRES 1 A 124 LYS GLU THR ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 A 124 ASP SER SER THR SER ALA ALA SER SER SER ASN TYR CYS SEQRES 3 A 124 ASN GLN MET MET LYS SER ARG ASN LEU THR LYS ASP ARG SEQRES 4 A 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 A 124 ASP VAL GLN ALA VAL CYS SER GLN LYS ASN VAL ALA CYS SEQRES 6 A 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER TYR SER THR SEQRES 7 A 124 MET SER 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 ALA ASN LYS SEQRES 9 A 124 HIS ILE ILE VAL ALA CYS GLU GLY ASN PRO TYR VAL PRO SEQRES 10 A 124 VAL HIS PHE ASP ALA SER VAL SEQRES 1 B 124 LYS GLU THR ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 B 124 ASP SER SER THR SER ALA ALA SER SER SER ASN TYR CYS SEQRES 3 B 124 ASN GLN MET MET LYS SER ARG ASN LEU THR LYS ASP ARG SEQRES 4 B 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 B 124 ASP VAL GLN ALA VAL CYS SER GLN LYS ASN VAL ALA CYS SEQRES 6 B 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER TYR SER THR SEQRES 7 B 124 MET SER 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 ALA ASN LYS SEQRES 9 B 124 HIS ILE ILE VAL ALA CYS GLU GLY ASN PRO TYR VAL PRO SEQRES 10 B 124 VAL HIS PHE ASP ALA SER VAL HET N3E A 998 25 HET N3E A 999 25 HETNAM N3E 1-[3-(4-CARBOXYPIPERIDIN-1-YL)-3-DEOXY-BETA-D- HETNAM 2 N3E ARABINOFURANOSYL]PYRIMIDINE-2,4(1H,3H)-DIONE HETSYN N3E 3-N-PIPERIDINE-4-CARBOXYL-3-DEOXY-ARA-URIDINE FORMUL 3 N3E 2(C15 H21 N3 O7) FORMUL 5 HOH *262(H2 O) HELIX 1 1 THR A 3 MET A 13 1 11 HELIX 2 2 ASN A 24 ARG A 33 1 10 HELIX 3 3 SER A 50 ALA A 56 1 7 HELIX 4 4 VAL A 57 GLN A 60 5 4 HELIX 5 5 THR B 3 MET B 13 1 11 HELIX 6 6 ASN B 24 ARG B 33 1 10 HELIX 7 7 SER B 50 ALA B 56 1 7 HELIX 8 8 VAL B 57 GLN B 60 5 4 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 GLU A 111 -1 O THR A 100 N ASP A 83 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 GLU A 111 -1 O THR A 100 N ASP A 83 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 CYS B 84 N ASN B 44 SHEET 3 C 5 TYR B 97 GLU B 111 -1 O THR B 100 N ASP B 83 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 CYS B 84 N ASN B 44 SHEET 3 D 4 TYR B 97 GLU B 111 -1 O THR B 100 N ASP B 83 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 2.04 SSBOND 2 CYS A 40 CYS A 95 1555 1555 2.03 SSBOND 3 CYS A 58 CYS A 110 1555 1555 2.04 SSBOND 4 CYS A 65 CYS A 72 1555 1555 2.04 SSBOND 5 CYS B 26 CYS B 84 1555 1555 2.05 SSBOND 6 CYS B 40 CYS B 95 1555 1555 2.04 SSBOND 7 CYS B 58 CYS B 110 1555 1555 2.04 SSBOND 8 CYS B 65 CYS B 72 1555 1555 2.03 CISPEP 1 ALA A 19 ALA A 20 0 -21.01 CISPEP 2 TYR A 92 PRO A 93 0 4.28 CISPEP 3 ASN A 113 PRO A 114 0 5.57 CISPEP 4 TYR B 92 PRO B 93 0 6.63 CISPEP 5 ASN B 113 PRO B 114 0 6.92 SITE 1 AC1 15 ALA A 4 ASN A 67 ASN A 71 ALA A 109 SITE 2 AC1 15 GLU A 111 VAL A 118 HIS A 119 HOH A1009 SITE 3 AC1 15 HOH A1049 HOH A1123 HOH A1124 ASN B 62 SITE 4 AC1 15 THR B 70 TYR B 73 HOH B 218 SITE 1 AC2 11 HIS A 12 ASN A 44 THR A 45 LYS A 66 SITE 2 AC2 11 ASN A 67 HIS A 119 PHE A 120 ASP A 121 SITE 3 AC2 11 HOH A1016 HOH A1049 HOH A1054 CRYST1 100.174 32.530 72.512 90.00 90.46 90.00 C 1 2 1 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 0.009983 0.000000 0.000079 0.00000 SCALE2 0.000000 0.030741 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013791 0.00000