# List of top-scoring protein chains for T0374.t06-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1yr0A 175 4.10e-19 2ge3A 170 1.07e-18 1yvoA 172 2.23e-18 2bl1A 172 2.29e-18 1vhsA 175 1.30e-17 d.108.1.1 100698 2ae6A 166 3.80e-16 2fe7A 166 8.07e-16 1tiqA 180 1.20e-15 d.108.1.1 107010 2cy2A 174 1.50e-15 1nslA 184 2.31e-15 d.108.1.1 86137 2beiA 170 1.88e-14 1z4eA 153 1.90e-14 1wwzA 159 2.85e-14 2b3uA 171 5.71e-14 2b5gB 171 5.89e-14 2g3tA 179 6.51e-14 2b5gA 171 6.53e-14 1z9uA 179 7.03e-14 1s7kA 182 7.04e-14 1s7fA 199 7.12e-14 2fxfA 170 1.04e-13 2euiA 153 2.37e-13 1u6mA 199 3.46e-13 1s3zA 165 4.38e-13 d.108.1.1 105250 2fckA 181 1.12e-12 1yreA 197 3.03e-12 1on0A 158 3.20e-12 d.108.1.1 87095 1ufhA 180 3.61e-12 d.108.1.1 88485 1y9kA 157 5.99e-12 1i12A 160 6.64e-12 1i21A d.108.1.1 61515 1i21A 159 6.66e-12 1i21A d.108.1.1 61549 1i1dA 161 6.69e-12 1i21A d.108.1.1 61526 1vkcA 158 7.41e-12 2fl4A 149 7.62e-12 1yx0A 159 1.02e-11 1gheA 177 1.44e-11 d.108.1.1 76222 1qsoA 149 1.75e-11 1qsmA d.108.1.1 40812 2fiwA 172 1.88e-11 1qsmA 152 2.31e-11 1qsmA d.108.1.1 40808 2aj6A 159 5.38e-11 1cjwA 166 5.96e-11 1cjwA d.108.1.1 40818 1b6bA 174 5.99e-11 1cjwA d.108.1.1 40819 1yvkA 163 6.24e-11 1qstA 160 6.62e-11 1yghA d.108.1.1 40804 1m1dA 163 6.62e-11 d.108.1.1 78397 1qsrA 162 6.63e-11 1yghA d.108.1.1 40805 5gcnA 166 6.67e-11 1yghA d.108.1.1 40807 1mk4A 157 7.51e-11 d.108.1.1 84979 1ib1E 200 1.00e-10 1cjwA d.108.1.1 62137 1kuxA 207 1.02e-10 d.108.1.1 73021 2fiaA 162 1.09e-10 2atrA 138 1.75e-10 2a4nA 182 1.77e-10 1b87A 181 1.78e-10 1b87A d.108.1.1 40797 1n71A 180 1.81e-10 d.108.1.1 85370 2fsrA 195 2.50e-10 1l0cA 207 2.64e-10 d.108.1.1 73393 2bswA 146 2.75e-10 1cm0A 168 4.94e-10 1yghA d.108.1.1 40800 1z4rA 168 6.12e-10 1bo4A 168 8.47e-10 1bo4A d.108.1.1 40798 1q2yA 140 1.07e-09 d.108.1.1 95655 1y9wA 140 1.47e-09 2ganA 190 4.14e-09 1xebA 150 5.79e-09 2c27A 315 6.56e-09 1p0hA 318 6.56e-09 d.108.1.1 93866 1y7rA 133 8.65e-09 2g3aA 152 1.16e-08 1yghA 164 2.07e-08 1yghA d.108.1.1 40802 1r57A 102 4.52e-05 d.108.1.1 97080 1sqhA 312 6.03e-05 d.108.1.5 98966 1m4iA 181 3.21e-04 d.108.1.1 74457 1yk3A 210 5.09e-04 1iykA 392 2.69e-02 d.108.1.2,d.108.1.2 76958,76959 2d4oA 141 7.19e-02 1yleA 342 7.29e-02 1mj9A 278 7.52e-02 d.108.1.1 79190 1mjbA 278 8.70e-02 d.108.1.1 79192 1fy7A 278 8.70e-02 1fy7A d.108.1.1 40817 2d4pA 141 9.06e-02 1mjaA 278 9.49e-02 d.108.1.1 79191 1bob 320 1.34e-01 1bob d.108.1.1 40816 2givA 295 1.65e-01 1rxtA 496 2.59e-01 1iicA 422 7.20e-01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1i94H 138 1.93e+00 1seiA d.140.1.1 61999 1mifA 115 2.01e+00 1dptA d.80.1.3 39852 1xmtA 103 3.24e+00 2gdbA 103 3.25e+00 1y4tA 322 3.34e+00 1an7A 136 3.44e+00 1seiA d.140.1.1 41465 1fjgH 138 3.47e+00 1seiA d.140.1.1 41468 1lvwA 295 4.22e+00 c.68.1.6 84723 1wxrA 1048 4.42e+00 1gifA 115 5.43e+00 1dptA d.80.1.3 39837 1cgqA 115 5.51e+00 1dptA d.80.1.3 39843 2bp7B 339 5.62e+00 1ljtA 114 5.66e+00 d.80.1.3 78053 1qs0B 338 5.70e+00 1qs0B c.36.1.7,c.48.1.2 31830,33103 1gd0A 122 5.70e+00 1dptA d.80.1.3 39834 1p1gA 114 5.80e+00 1dptA d.80.1.3 39849 1ml4A 308 6.55e+00 c.78.1.1,c.78.1.1 79255,79256 1svjA 156 7.40e+00 d.220.1.1 106049 2aclB 244 9.49e+00 1vr6A 350 1.39e+01 1tuoA 464 1.53e+01 2essA 248 1.59e+01 1rzmA 338 1.59e+01 c.1.10.4 105137 1rypI 222 1.60e+01 d.153.1.4 41877 1o50A 157 1.60e+01 d.37.1.1,d.37.1.1 92478,92479 1xnzA 264 1.70e+01 1uhlB 242 1.72e+01 a.123.1.1 107850 1yg9A 330 1.83e+01 1fntI 232 1.84e+01 1dtyA 429 1.94e+01 1dtyA c.67.1.4 34495 1s06A 429 1.99e+01 c.67.1.4 98255 2ggcA 263 2.16e+01 2etnA 157 2.17e+01 1nfiE 213 2.29e+01 1iknD d.211.1.1 19172 1mgvA 429 2.30e+01 c.67.1.4 79107 1s0aA 429 2.36e+01 c.67.1.4 98263 1qj5A 429 2.36e+01 1dtyA c.67.1.4 34493 1s07A 429 2.67e+01 c.67.1.4 98257 2eulA 156 2.80e+01 1j0sA 157 2.84e+01 b.42.1.2 90747 2f23A 156 2.91e+01 1mt6A 280 2.93e+01 b.76.2.1,b.85.7.1 79446,79447 1iknD 236 2.93e+01 1iknD d.211.1.1 19171 1n11A 437 2.94e+01 d.211.1.1 79778 1s08A 429 2.95e+01 c.67.1.4 98259 1yvmA 264 3.01e+01 1s09A 429 3.02e+01 c.67.1.4 98261 3matA 265 3.20e+01 1c24A d.127.1.1 41149 1y81A 138 3.25e+01 2fmnA 304 3.28e+01 1h3iA 293 3.33e+01 b.76.2.1,b.85.7.1 76635,76636 1cx4A 305 3.36e+01 b.82.3.2,b.82.3.2 59099,59100 1rniA 216 3.54e+01 d.264.1.2 97663 2bx6A 350 3.58e+01 1pq9A 253 3.81e+01 a.123.1.1 95004 1c24A 263 3.85e+01 1c24A d.127.1.1 41148 1xttA 216 3.85e+01 1zp3A 304 3.86e+01 1p8dA 250 3.88e+01 a.123.1.1 87941 1g5gA 481 3.89e+01 f.12.1.1,h.3.2.1 65155,65156 1upvA 257 3.89e+01 1b5tA 275 3.97e+01 1b5tA c.1.23.1 29676 1y1nA 291 3.98e+01 1zp4A 304 3.99e+01 1jwhC 215 4.18e+01 g.41.4.1 71915 1kyzA 365 4.21e+01 a.4.5.29,c.66.1.12 73312,73313 4matA 278 4.40e+01 1c24A d.127.1.1 41150 1mufA 257 4.45e+01 b.76.2.1,b.85.7.1 79483,79484 1vyvA 359 4.72e+01 b.34.2.1,c.37.1.1 108918,108919 2fgyA 542 4.76e+01 1te2A 226 4.99e+01 c.108.1.6 106792 1wrdA 103 4.99e+01 1o99A 511 5.02e+01 c.105.1.1,c.76.1.3 81235,81236 1o98A 511 5.12e+01 c.105.1.1,c.76.1.3 86684,86685 1udrA 129 5.20e+01 3chy c.23.1.1 31041 1zq1A 438 5.27e+01 1d3yA 301 5.27e+01 1d3yA e.12.1.1 43252 1za0A 275 5.42e+01 1ro2A 216 5.55e+01 d.264.1.2 97665 2a2fX 325 5.84e+01 1xtoA 311 5.86e+01 1bucA 383 6.04e+01 3mdeA a.29.3.1,e.6.1.1 16590,42851 1z2lA 423 6.05e+01 2gjmA 583 6.06e+01 1i8kA 107 6.08e+01 b.1.1.1 71130 1l9zH 438 6.12e+01 i.8.1.1 73771 1s1hE 149 6.15e+01 i.1.1.1 105158 2gj1A 583 6.20e+01 1rkgA 292 6.34e+01 a.123.1.1 97611 1hjoA 380 6.35e+01 1ba1 c.55.1.1,c.55.1.1 33425,33426 1qvbA 481 6.43e+01 1qvbA c.1.8.4 28983 1pu1A 94 6.46e+01 d.266.1.1 104307 1qvrA 854 6.64e+01 a.174.1.1,c.37.1.20,c.37.1.20 96432,96433,96434 1qf8A 182 6.73e+01 1qf8A g.41.4.1 45212 1n6cA 297 6.82e+01 b.76.2.1,b.85.7.1 80123,80124 1jtdB 273 6.99e+01 b.69.5.2 67265 1j0jA 588 7.02e+01 b.1.18.2,b.71.1.1,c.1.8.1 77039,77040,77041 1s3xA 382 7.11e+01 c.55.1.1,c.55.1.1 98467,98468 1pvmA 184 7.14e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1i6uA 130 7.25e+01 d.140.1.1 61850 2bhmA 164 7.28e+01 1e7pG 655 7.45e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 59359,59360,59361 1j0hA 588 7.48e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1sto 213 7.53e+01 1opr c.61.1.1 34092 2bs3A 656 7.53e+01 1y4cA 494 7.55e+01 1sy6A 204 7.61e+01 b.1.1.4,b.1.1.4 106111,106112 2a6hF 423 7.75e+01 1r8oA 96 7.79e+01 b.42.4.1 104852 1qlaA 656 7.82e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1fhuA 320 7.92e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1fhvA 323 7.93e+01 1fhuA c.1.11.2,d.54.1.1 29235,38879 1ohpA 125 7.96e+01 1vicA 262 7.97e+01 c.68.1.13 100756 1ohsA 125 7.98e+01 1o17A 345 8.04e+01 a.46.2.1,c.27.1.1 80765,80766 1lh0A 213 8.08e+01 c.61.1.1 73896 1r6wA 322 8.09e+01 c.1.11.2,d.54.1.1 97165,97166 2f69A 261 8.10e+01 2cpeA 113 8.12e+01 2cqpA 98 8.16e+01 2g5dA 422 8.21e+01 1ak6 174 8.21e+01 1cof d.109.1.2 40865 2gpjA 252 8.31e+01 1mnaA 298 8.33e+01 c.69.1.22 79322 2d29A 387 8.33e+01 1pbjA 125 8.51e+01 d.37.1.1,d.37.1.1 94414,94415 1t77A 414 8.61e+01 1ou6A 392 8.78e+01 c.95.1.1,c.95.1.1 104025,104026 1dluA 389 8.93e+01 1afwA c.95.1.1,c.95.1.1 35916,35917