# List of top-scoring protein chains for T0336.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 1uklA 876 2.61e-34 a.118.1.1 99493 1qgrA 876 4.12e-34 1qgrA a.118.1.1 19119 2bptA 861 8.32e-28 1m5nS 485 3.07e-27 a.118.1.1 78653 1ibrB 462 1.53e-24 1qgrA a.118.1.1 19120 1gcjA 460 1.70e-22 1qgrA a.118.1.1 19125 1f59A 442 4.62e-22 1qgrA a.118.1.1 19123 1qbkB 890 3.76e-19 1qbkB a.118.1.1 19127 2c1mA 424 1.14e-06 1y2aC 428 1.14e-06 1ialA 453 1.15e-06 1bk5A a.118.1.1 19116 1pjmB 460 1.22e-06 a.118.1.1 94764 1q1sC 466 1.22e-06 a.118.1.1 95606 1bk5A 422 4.25e-05 1bk5A a.118.1.1 19130 1bk6A 422 4.26e-05 1bk5A a.118.1.1 19133 1ee4A 423 4.43e-05 1ee4A a.118.1.1 19128 1ee5A 424 4.44e-05 1ee4A a.118.1.1 19132 1un0A 443 4.44e-05 a.118.1.1 99641 2c1tA 454 4.46e-05 1wa5B 530 1.02e-04 1w63B 584 5.51e-03 i.23.1.1 109193 1gw5B 591 2.39e-02 a.118.1.10 70630 1oyzA 280 7.77e-02 a.118.1.16 93775 1te4A 131 2.30e-01 a.118.1.16 106794 1b3uA 588 3.47e-01 1b3uA a.118.1.2 19135 1u6gC 1230 8.53e-01 2a19B 284 2.54e+00 1jeyB 565 3.93e+00 1jeqB b.131.1.2,c.62.1.4 90372,90373 2cv4A 250 4.24e+00 1fp2A 352 4.41e+00 1fpxA a.4.5.29,c.66.1.12 59941,59942 1y4uA 559 4.91e+00 1lrv 244 5.02e+00 1lrv a.118.1.5 19146 1zakA 222 7.20e+00 1zin c.37.1.1,g.41.2.1 31913,45202 1k7kA 221 8.97e+00 c.51.4.1 72104 1x0rA 249 8.99e+00 3bct 470 1.07e+01 3bct a.118.1.1 19112 1lujA 514 1.07e+01 a.118.1.1 78225 1jdhA 529 1.07e+01 a.118.1.1 66549 1t08A 519 1.07e+01 1g3jA 532 1.07e+01 3bct a.118.1.1 19114 2bct 516 1.07e+01 3bct a.118.1.1 19113 1qz7A 533 1.07e+01 a.118.1.1 96618 1jpwA 540 1.07e+01 a.118.1.1 67059 1i7wA 538 1.07e+01 3bct a.118.1.1 61909 1xqsA 280 1.16e+01 1vp2A 208 1.22e+01 1xqrA 296 1.23e+01 1chuA 540 1.91e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1h7eA 245 2.06e+01 c.68.1.13 60717 1bkpA 278 2.42e+01 1bkpA d.117.1.1 41029 1b02A 279 2.43e+01 1bkpA d.117.1.1 41035 1wosA 364 2.44e+01 b.44.2.1,d.250.1.1 109468,109469 1thg 544 3.14e+01 1thg c.69.1.17 34763 5pnt 157 3.14e+01 1dg9A c.44.1.1 32641 1h4pA 408 3.41e+01 c.1.8.3 90617 1vqsA 116 3.60e+01 2gqrA 237 3.62e+01 2ap6A 112 3.79e+01 1knrA 540 4.60e+01 a.7.3.1,c.3.1.4,d.168.1.1 72788,72789,72790 1sly 618 4.63e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1qsaA 618 4.68e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 2b3jA 159 4.87e+01 1c72A 219 4.89e+01 1b8xA a.45.1.1,c.47.1.5 17663,32957 2c2vC 142 5.01e+01 1ge9A 184 5.02e+01 1dd5A d.67.3.1 60463 1x6mA 196 5.04e+01 1gsuA 219 5.08e+01 1b8xA a.45.1.1,c.47.1.5 17661,32955 2b5fA 303 5.15e+01 1cw4A 416 5.18e+01 1iso c.77.1.1 35068 1nkwH 174 5.37e+01 i.1.1.2 80593 2fpoA 202 5.47e+01 1zcdA 388 5.50e+01 1unlA 292 5.58e+01 1gw5A 621 5.86e+01 a.118.1.10 70629 1yp1A 202 5.87e+01 1hj6A 416 5.96e+01 1iso c.77.1.1 35070 1bl5 414 6.00e+01 1iso c.77.1.1 35083 6icd 416 6.03e+01 1iso c.77.1.1 35081 1pb1A 416 6.04e+01 c.77.1.1 88014 1cw7A 416 6.08e+01 1iso c.77.1.1 35087 1vl0A 292 6.49e+01 c.2.1.2 108704 1tt5B 434 6.49e+01 c.111.1.2 107292 1upkA 341 6.61e+01 a.118.1.15 99758 1yovB 444 6.69e+01 1v8bA 479 6.80e+01 2evtA 209 6.99e+01 1h0aA 158 7.15e+01 a.118.9.1 76434 1xqzA 300 7.18e+01 1xwsA 313 7.22e+01 1ide 416 7.31e+01 1iso c.77.1.1 35082 1pvgA 418 7.33e+01 d.14.1.3,d.122.1.2 95161,95162 1y7eA 458 7.35e+01 1d9xA 658 7.39e+01 1d2mA c.37.1.19,c.37.1.19 32419,32420 2g15A 318 7.53e+01 1vdwA 254 7.66e+01 e.7.1.1 100569 1grp 416 7.68e+01 1iso c.77.1.1 35077 2ba0D 258 7.68e+01 2bikB 313 7.78e+01 1d2zA 108 7.79e+01 1d2zA a.77.1.2 18437 1ygoA 110 7.80e+01 1d9zA 657 7.85e+01 1d2mA c.37.1.19,c.37.1.19 32421,32422 2ffhA 425 7.86e+01 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 1fxiA 96 8.07e+01 1awd d.15.4.1 37664 2fdcA 658 8.08e+01 1t5lA 658 8.15e+01 c.37.1.19,c.37.1.19 106455,106456 2a4dA 160 8.22e+01 1swxA 209 8.39e+01 a.224.1.1 106075 2d1yA 256 8.40e+01 1r0pA 312 8.49e+01 d.144.1.7 96734 1gro 416 8.53e+01 1iso c.77.1.1 35079 1eduA 149 8.54e+01 1eduA a.118.9.1 19215 1yxtA 293 8.71e+01 1tfjA 219 8.81e+01 2aexA 346 8.88e+01