# List of top-scoring protein chains for t04-100-30-alpha 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 1rlhA 173 1.38e-28 unknown_sccs -10786 1uz5A 402 3.74e-01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1gp6A 356 5.79e-01 b.82.2.1 65441 1ttzA 87 6.31e-01 1j0aA 325 8.17e-01 c.79.1.1 83871 1m3uA 264 9.18e-01 c.1.12.8 84784 1vhmA 195 1.22e+00 d.110.2.1 -10828 1gt91 357 1.91e+00 1h6kZ 98 2.25e+00 d.58.7.1 60686 1d7yA 408 2.43e+00 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 2cmd 312 2.63e+00 2cmd c.2.1.5 30135 d.162.1.1 42102 1fc4A 401 3.08e+00 1bs0A c.67.1.4 59760 1qsoA 149 3.57e+00 1qsmA d.108.1.1 40812 1o88A 353 3.73e+00 b.80.1.1 81178 1oz9A 150 3.76e+00 unknown_sccs -10588 1l6wA 220 3.81e+00 c.1.10.1 73632 1air 353 3.87e+00 1air b.80.1.1 28018 1j97A 211 3.89e+00 1f5sA c.108.1.4 62753 1hgxA 183 4.04e+00 1tc1A c.61.1.1 34027 1gjwA 637 4.15e+00 b.71.1.1 60582 c.1.8.1 60583 1l7mA 211 4.54e+00 c.108.1.4 73664 1dvkA 173 4.91e+00 1dvkA a.72.1.1 18319 1k3pA 426 5.00e+00 a.103.1.1 77237 1pvdA 537 5.04e+00 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1neeA 138 6.11e+00 unknown_sccs -9002 g.59.1.1 -12824 1h7wA 1025 6.17e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1ej0A 180 6.60e+00 1ej0A c.66.1.2 34179 1bzyA 217 7.06e+00 1qk3A c.61.1.1 34071 1owcA 427 7.14e+00 1b35B 255 7.17e+00 1b35B b.121.4.1 23334 1s6yA 450 7.42e+00 1l6sA 323 7.70e+00 c.1.10.3 73627 1gteA 1025 8.03e+00 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1k3yA 221 8.06e+00 a.45.1.1 77245 c.47.1.5 77246 1un8A 552 8.57e+00 unknown_sccs -1942 c.32.1.2 -6792 d.79.2.2 -10401 1qsmA 152 8.57e+00 1qsmA d.108.1.1 40808 1q4rA 112 8.80e+00 d.58.4.4 -9943 1hyeA 313 8.87e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1o17A 345 9.56e+00 a.46.2.1 80765 c.27.1.1 80766 1sgoA 139 9.81e+00 unknown_sccs -10487 1j3vA 289 1.03e+01 a.100.1.1 -1303 c.2.1.6 -5947 1oe0A 230 1.06e+01 c.37.1.1 -6976 1e2uA 553 1.07e+01 1e1dA e.26.1.1 43362 1shuX 182 1.10e+01 c.62.1.1 -7982 1v1rA 400 1.14e+01 1skoA 143 1.18e+01 1gntA 553 1.20e+01 e.26.1.1 70290 1jv2A 957 1.20e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1kwaA 88 1.26e+01 1kwaA b.36.1.1 24772 1puiA 210 1.27e+01 c.37.1.8 88292 1lci 550 1.31e+01 1lci e.23.1.1 43349 1moq 368 1.40e+01 1moq c.80.1.1 35302 1j1hA 144 1.40e+01 b.111.1.1 77056 1p1xA 260 1.42e+01 1us8A 147 1.44e+01 c.37.1.12 -7194 1ky3A 182 1.44e+01 c.37.1.8 73193 1drw 273 1.51e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1k8kB 394 1.52e+01 c.55.1.1 68307 1nd4A 264 1.62e+01 d.144.1.6 -11381 1pa2A 306 1.64e+01 1bgp a.93.1.1 18693 1ht6A 405 1.65e+01 b.71.1.1 83629 c.1.8.1 83630 1pztA 286 1.67e+01 c.68.1.2 -8213 1pyfA 312 1.72e+01 c.1.7.1 -5251 1oi7A 288 1.73e+01 c.2.1.8 87049 c.23.4.1 87050 1i8jA 323 1.77e+01 1b4kA c.1.10.3 61968 1ex2A 189 1.79e+01 1ex2A c.51.4.2 33225 1jclA 260 1.80e+01 c.1.10.1 66501 1l0qA 391 1.82e+01 b.1.3.1 77644 b.69.2.3 77645 1q52A 314 1.83e+01 c.14.1.3 -6246 4ubpB 126 1.84e+01 1ubpB b.85.3.1 28345 1fxjA 331 1.85e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1kq6A 141 1.87e+01 d.189.1.1 -9926 1viuA 203 1.88e+01 d.113.1.1 -10889 1i0dA 332 1.95e+01 1pscA c.1.9.3 61487 1hv9A 456 1.96e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 2hhmA 276 2.03e+01 1imbA e.7.1.1 42955 1jbeA 128 2.06e+01 3chy c.23.1.1 62845 1rkqA 282 2.06e+01 c.108.1.10 -6847 1o0uA 429 2.07e+01 c.118.1.1 80743 1ur3M 319 2.07e+01 c.1.7.1 -5248 1rj9A 304 2.09e+01 a.24.13.1 -631 c.37.1.10 -7129 1o8bA 219 2.10e+01 unknown_sccs 81180 d.58.40.1 81181 1vjeA 166 2.12e+01 d.185.1.2 -10261 1qhxA 178 2.14e+01 1qhsA c.37.1.3 31936 1i1qA 520 2.16e+01 1qdlA d.161.1.1 61543 1pixA 587 2.18e+01 c.14.1.4 -6282 1oeyJ 107 2.18e+01 d.15.2.2 -9168 1innA 166 2.19e+01 1j98A d.185.1.2 62608 1ceo 343 2.22e+01 1ceo c.1.8.3 28808 1cvrA 435 2.29e+01 1cvrA b.1.18.12 21949 c.17.1.2 31006 2bc2A 227 2.30e+01 1a7tA d.157.1.1 42031 1k92A 455 2.30e+01 c.26.2.1 68325 d.210.1.1 68326 1uc7A 125 2.35e+01 c.47.1.1 -7414 1scuA 288 2.36e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1kr7A 110 2.37e+01 a.1.1.4 72890 1mzhA 225 2.39e+01 c.1.10.1 79698 1v7cA 351 2.39e+01 c.79.1.1 -8512 1imbA 277 2.49e+01 1imbA e.7.1.1 42957 1lucA 355 2.50e+01 1lucA c.1.16.1 29547 1ff4A 65 2.51e+01 g.7.1.1 83251 1g8fA 511 2.52e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1nmmB 286 2.56e+01 c.68.1.2 80662 3pmgA 561 2.56e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1nfkA 325 2.59e+01 1a3qA b.1.18.1 21929 b.2.5.3 22444 1uumA 372 2.60e+01 c.1.4.1 -5193 1efvA 315 2.60e+01 1efvA c.26.2.3 31633 c.31.1.2 31728 1pv5A 264 2.62e+01 unknown_sccs -10182 1jf9A 408 2.66e+01 1c0nA c.67.1.3 62931 1e2kA 331 2.73e+01 1qhiA c.37.1.1 31854 1kwmA 402 2.74e+01 c.56.5.1 73079 d.58.3.1 73080 1vk6A 269 2.76e+01 unknown_sccs -10923 unknown_sccs -10924 1vig 71 2.81e+01 1vih d.51.1.1 38806 1qorA 327 2.82e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1j5uA 136 2.92e+01 d.208.1.1 71584 1qqeA 292 2.94e+01 1qqeA a.118.8.1 19210 2ng1 293 2.98e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1f2tB 148 2.99e+01 1f2tB 1ls1A 295 3.05e+01 a.24.13.1 78170 c.37.1.10 78171 1nv8A 284 3.05e+01 c.66.1.30 86224 1tq8A 163 3.07e+01 1gpuA 680 3.09e+01 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1ugmA 125 3.11e+01 1dbwA 126 3.13e+01 1dbwA c.23.1.1 31095 1ujnA 348 3.13e+01 e.22.1.1 -11998 1lngA 87 3.15e+01 d.201.1.1 74045 1qhiA 366 3.21e+01 1qhiA c.37.1.1 31860 1lrwA 600 3.28e+01 b.70.1.1 -4629 1kinA 366 3.30e+01 1vjfA 180 3.34e+01 d.116.1.1 -10941 1hzyA 332 3.40e+01 1pscA c.1.9.3 61468 1f5mA 180 3.44e+01 1f5mB d.110.2.1 40895 1epuA 591 3.45e+01 1dn1A e.25.1.1 43358 1k7jA 206 3.56e+01 d.115.1.1 72103 1tfr 305 3.56e+01 1tfr a.60.7.1 18081 c.120.1.2 33351 3chy 128 3.57e+01 3chy c.23.1.1 31038 1js3A 486 3.57e+01 c.67.1.6 67215 1hl9A 449 3.58e+01 unknown_sccs -4694 unknown_sccs -5365 1fp2A 352 3.60e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1ghhA 81 3.61e+01 1ghhA d.57.1.1 38940 1v33A 366 3.73e+01 unknown_sccs -11384 1k07A 263 3.74e+01 d.157.1.1 77218 1dhs 344 3.76e+01 1dhs c.31.1.1 31727 1o9wA 177 3.82e+01 b.2.3.5 86713 1hdoA 206 3.82e+01 1he2A c.2.1.2 60965 1r44A 202 3.82e+01 1fgxA 288 3.85e+01 1fgxA c.68.1.2 34508 1f2tA 149 3.92e+01 1f2tA c.37.1.12 32373 1m1hA 248 3.99e+01 b.114.1.1 78415 d.58.42.1 78416