# List of top-scoring protein chains for T0378.t04-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 1gz0A 253 1.25e-24 c.116.1.1,d.79.3.3 76391,76392 1ipaA 274 4.07e-21 c.116.1.1,d.79.3.3 71254,71255 1x7oA 287 4.77e-21 1v2xA 194 5.54e-18 c.116.1.1 100274 1zjrA 211 9.90e-16 1mxiA 160 1.04e-13 c.116.1.1 79646 2cwlA 302 1.04e+00 2gfvA 427 5.97e+00 1pe1A 267 6.75e+00 c.1.10.4 94591 2gjxA 507 6.83e+00 1fbkA 248 7.36e+00 1c3wA f.13.1.1 43426 1lroA 267 7.68e+00 c.1.10.4 78161 1zhaA 267 8.11e+00 1qtwA 285 8.56e+00 1qumA c.1.15.1 29392 1c8rA 249 8.86e+00 1c3wA f.13.1.1 43407 1yzkA 184 9.29e+00 1s53A 227 1.01e+01 f.13.1.1 98521 1tn0A 249 1.07e+01 1p8iA 249 1.08e+01 f.13.1.1 87945 1z8rA 166 1.09e+01 1s54A 227 1.10e+01 f.13.1.1 98523 1s51A 227 1.10e+01 f.13.1.1 98517 1pxsA 249 1.11e+01 f.13.1.1 95299 1e0pA 228 1.11e+01 1c3wA f.13.1.1 43416 1kgbA 231 1.11e+01 f.13.1.1 68581 1r84A 232 1.11e+01 f.13.1.1 97218 1cwqA 248 1.12e+01 1c3wA f.13.1.1 43412 1brrA 247 1.13e+01 1c3wA f.13.1.1 43421 1p8hA 249 1.13e+01 f.13.1.1 87944 1qhjA 248 1.13e+01 1c3wA f.13.1.1 43409 1xjiA 247 1.13e+01 1m0kA 262 1.14e+01 f.13.1.1 78344 1tn5A 249 1.15e+01 1s52A 227 1.15e+01 f.13.1.1 98519 1z85A 234 1.15e+01 1pxrA 249 1.16e+01 f.13.1.1 95297 1l0mA 212 1.19e+01 f.13.1.1 73402 1p8uA 249 1.21e+01 f.13.1.1 87983 1jv6A 249 1.22e+01 f.13.1.1 67346 1an9A 340 1.25e+01 1an9A c.4.1.2,d.16.1.3 30617,37904 1mgyA 249 1.27e+01 f.13.1.1 84959 1ve9A 347 1.29e+01 c.4.1.2,d.16.1.3 100571,100572 1c3wA 222 1.31e+01 1c3wA f.13.1.1 43405 1zxxA 319 1.39e+01 2aqjA 538 1.41e+01 1f50A 227 1.41e+01 1c3wA f.13.1.1 43406 2b8nA 429 1.42e+01 2atvA 196 1.42e+01 1q5jA 249 1.45e+01 f.13.1.1 95898 1kas 412 1.51e+01 1dd8A c.95.1.1,c.95.1.1 35964,35965 2gfyA 427 1.59e+01 2gfwA 427 1.60e+01 1mzjA 339 1.89e+01 c.95.1.2,c.95.1.2 79700,79701 1c8sA 196 1.92e+01 1c3wA f.13.1.1 43410 1el6A 219 2.21e+01 1el6B d.182.1.1 42606 2ahxA 617 2.24e+01 1h1yA 228 2.35e+01 c.1.2.2 76506 1zosA 230 2.40e+01 1jpc 109 2.41e+01 1b2pA b.78.1.1 27986 1k3rA 268 2.44e+01 b.40.4.10,c.116.1.2 72018,72019 1wlsA 328 2.46e+01 1rqjA 299 2.58e+01 a.128.1.1 97744 1rqiA 300 2.59e+01 a.128.1.1 97742 1vbuA 328 2.59e+01 1szqA 483 2.63e+01 e.44.1.1 99045 1g5mA 166 2.67e+01 1maz f.1.4.1 60286 8dfr 189 2.67e+01 1aoeA c.71.1.1 34895 2forA 323 2.87e+01 2ar0A 541 2.89e+01 1tc5A 194 2.94e+01 c.110.1.1 106752 1zemA 262 3.00e+01 1uazA 254 3.08e+01 f.13.1.1 88392 1gjhA 166 3.18e+01 1maz f.1.4.1 60575 1yswA 164 3.19e+01 1op2A 234 3.23e+01 b.47.1.2 104020 1q9jA 422 3.32e+01 c.43.1.2,c.43.1.2 104590,104591 1oivA 191 3.32e+01 c.37.1.8 93076 1uufA 369 3.34e+01 b.35.1.2,c.2.1.1 100006,100007 1oixA 191 3.34e+01 1op0A 234 3.35e+01 b.47.1.2 104019 1puc 105 3.47e+01 1puc d.97.1.1 40675 1bct 69 3.51e+01 1bct j.35.1.1 46237 2aiqA 231 3.55e+01 1q5iA 249 3.76e+01 f.13.1.1 95896 1sceA 112 3.99e+01 1puc d.97.1.1 40676 1bmtA 246 4.02e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 1v5vA 401 4.05e+01 1m7xA 617 4.06e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1h5yA 253 4.09e+01 c.1.2.1 65638 1cg1A 431 4.22e+01 1adeA c.37.1.10 32223 1u08A 386 4.23e+01 c.67.1.1 107543 1cg4A 431 4.26e+01 1adeA c.37.1.10 32228 1xdmA 365 4.27e+01 1qf5A 431 4.32e+01 1adeA c.37.1.10 32212 1v6zA 228 4.39e+01 1kkbA 432 4.41e+01 c.37.1.10 72643 1vhkA 268 4.42e+01 b.122.1.2,c.116.1.5 100680,100681 1fdjA 363 4.48e+01 1fbaA c.1.10.1 59772 2fjrA 189 4.48e+01 1qnrA 344 4.93e+01 1qnoA c.1.8.3 28834 1ch7A 154 5.01e+01 1a6m a.1.1.2 15083 1ch5A 154 5.04e+01 1a6m a.1.1.2 15127 1bqyA 234 5.29e+01 5ptp b.47.1.2 26332 1rwhA 757 5.32e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1rw9A 757 5.39e+01 a.102.3.2,b.24.1.1,b.30.5.2 97964,97965,97966 1wdkC 390 5.44e+01 c.95.1.1,c.95.1.1 109258,109259 1ot7A 229 5.50e+01 a.123.1.1 93505 1zy9A 564 5.52e+01 1qo5A 363 5.53e+01 1fbaA c.1.10.1 29102 1osvA 230 5.55e+01 a.123.1.1 93500 1ek6A 348 5.62e+01 1xel c.2.1.2 29800 1hzjA 348 5.62e+01 1xel c.2.1.2 61450 1dxrH 258 5.77e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1prcH 259 5.77e+01 6prcH b.41.1.1,f.23.10.1 25460,43445 1i3kA 348 5.99e+01 1xel c.2.1.2 61595 1o6dA 163 6.01e+01 c.116.1.3 92567 1dlpA 236 6.02e+01 1b2pA b.78.1.1,b.78.1.1 28000,28001 1ngnA 155 6.07e+01 a.96.1.2 85697 1k7yA 577 6.07e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 1nu5A 370 6.12e+01 c.1.11.2,d.54.1.1 92183,92184 1x94A 191 6.14e+01 c.80.1.3 109522 1vgoA 253 6.24e+01 1ka1A 357 6.33e+01 e.7.1.1 68369 1nnhA 294 6.47e+01 d.104.1.1 92005 1rw7A 243 6.49e+01 c.23.16.2 97963 1ryaA 160 6.50e+01 d.113.1.5 105122 1kktA 511 6.67e+01 a.102.2.1 68687 1ys4A 354 6.67e+01 2spo 154 6.81e+01 1a6m a.1.1.2 15053 1f9cA 372 6.83e+01 1mucA c.1.11.2,d.54.1.1 59728,59729 1vjiA 372 7.13e+01 c.1.4.1 100813 1ujpA 271 7.15e+01 c.1.2.4 99462 1jztA 246 7.16e+01 c.104.1.1 63319 1qvvA 237 7.28e+01 c.23.16.2 96442 1h1xA 154 7.30e+01 a.1.1.2 90542 3mucA 369 7.52e+01 1mucA c.1.11.2,d.54.1.1 29243,38887 1xwdC 252 7.54e+01 2aeeA 211 7.55e+01 1cjbA 231 7.64e+01 1qk3A c.61.1.1 34079 1v8kA 410 7.66e+01 c.37.1.9 100510 1fiqC 763 7.68e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1bkhA 369 7.69e+01 1mucA c.1.11.2,d.54.1.1 29238,38882 1j8yF 297 7.81e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 2mucA 373 7.82e+01 1mucA c.1.11.2,d.54.1.1 29241,38885 1mucA 373 7.95e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1hfq 186 8.11e+01 1aoeA c.71.1.1 34903 2a9fA 398 8.15e+01 1zba1 212 8.16e+01 1u71A 186 8.21e+01 1dls 186 8.21e+01 1aoeA c.71.1.1 34906 1hfp 186 8.22e+01 1aoeA c.71.1.1 34904 1zhoA 228 8.26e+01 1rniA 216 8.29e+01 d.264.1.2 97663 2ac3A 316 8.30e+01 1eg0N 229 8.32e+01 1ad2 i.1.1.1 45820 1e6bA 221 8.38e+01 1e6bA a.45.1.1,c.47.1.5 59294,59295 1dlr 186 8.40e+01 1aoeA c.71.1.1 34909 1kmvA 186 8.47e+01 c.71.1.1 72757 1mvtA 187 8.56e+01 c.71.1.1 85157 1mgn 154 8.61e+01 1a6m a.1.1.2 15097 1e5tA 710 8.64e+01 1qfmA b.69.7.1,c.69.1.4 27676,34644 1fcs 154 8.68e+01 1a6m a.1.1.2 15055 1s03G 129 8.79e+01 d.140.1.1 105144 2ac5A 316 8.81e+01 2b4cH 235 8.83e+01 1rhhB 239 8.87e+01 b.1.1.1,b.1.1.2 97475,97476 2fkdA 110 8.91e+01 1hyeA 313 8.94e+01 2cmd c.2.1.5,d.162.1.1 61400,61401