2G8R - Header Asymmetric Unit

HEADER HYDROLASE 03-MAR-06 2G8R

TITLE THE CRYSTAL STRUCTURE OF THE RNASE A- 3-N-PIPERIDINE-4- TITLE 2 CARBOXYL-3-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 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, JRNL AUTH 2 T.PATHAK,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 1

REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON 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 : 1913 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 SIDE-CHAIN BOND REFINED ATOMS (A**2): 819 ; 1.539 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 708 ; 2.401 ; 4.500 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 REMARK 3 RIDING POSITIONS

REMARK 4 REMARK 4 2G8R COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-MAR-06. REMARK 100 THE RCSB ID CODE IS RCSB036830.

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 : 19.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07100 REMARK 200 <I/SIGMA(I)> 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 <I/SIGMA(I)> 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% REMARK 280 PEG 4000, PH 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 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 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 253 DISTANCE = 8.17 ANGSTROMS

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 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