# List of top-scoring protein chains for T0237.t2k-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 1hn6A 110 5.78e-17 g.61.1.1 76721 1mmg 762 3.50e-01 1lvk b.34.3.1 24579 c.37.1.9 32176 1lvk 762 3.85e-01 1lvk b.34.3.1 24576 c.37.1.9 32173 1iqqA 200 5.69e-01 d.124.1.1 66274 1mmn 762 6.20e-01 1lvk b.34.3.1 24582 c.37.1.9 32179 1m6bA 621 7.95e-01 c.10.2.5 74521 c.10.2.5 74522 g.3.9.1 74523 g.3.9.1 74524 1vom 762 1.00e+00 1lvk b.34.3.1 24577 c.37.1.9 32174 1fmvA 761 1.13e+00 1lvk b.34.3.1 24580 c.37.1.9 32177 1mma 762 1.17e+00 1lvk b.34.3.1 24587 c.37.1.9 32184 1d0yA 761 1.18e+00 1lvk b.34.3.1 24581 c.37.1.9 32178 1g8xA 1010 1.34e+00 1lvk k.1.1.1 46378 1jx2A 776 2.03e+00 b.34.3.1 67402 c.37.1.9 67403 1kt6A 183 2.37e+00 b.60.1.1 84466 1hbq 183 2.40e+00 1aqb b.60.1.1 27078 1kt5A 175 2.70e+00 b.60.1.1 84465 1rbp 182 3.10e+00 1aqb b.60.1.1 27085 1jydA 183 3.10e+00 b.60.1.1 84255 1qabE 180 3.30e+00 1aqb b.60.1.1 27088 1rlbE 174 3.34e+00 1aqb b.60.1.1 27090 1aorA 605 4.20e+00 1b25A a.110.1.1 19042 d.152.1.1 41794 1aqb 183 5.79e+00 1aqb b.60.1.1 27084 1bik 147 5.96e+00 1bpi g.8.1.1 44549 g.8.1.1 44550 2recA 353 6.94e+00 2reb i.2.1.1 45879 2reb 352 6.94e+00 2reb c.37.1.11 32282 d.48.1.1 38767 1m72A 272 9.08e+00 c.17.1.1 -7927 1isiA 265 1.08e+01 e.4.1.1 71394 1nr6A 473 1.11e+01 a.104.1.1 -1464 1iiuA 174 1.18e+01 b.60.1.1 66151 1jj2Y 73 1.28e+01 1ffkW g.41.8.1 63110 1jyjA 183 1.29e+01 b.60.1.1 84256 1h9oA 112 1.30e+01 1qadA d.93.1.1 60837 1dceA 567 1.36e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1fiqA 219 1.41e+01 1qj2A a.56.1.1 17912 d.15.4.2 37697 1onxA 389 1.65e+01 b.92.1.7 87176 c.1.9.13 87177 1onwA 390 1.69e+01 b.92.1.7 87172 c.1.9.13 87173 1iso 416 1.70e+01 1iso c.77.1.1 35065 1lkxA 697 1.74e+01 c.37.1.9 73981 1tocR 120 1.76e+01 1tocR g.8.1.2 44558 g.8.1.2 44559 1ecfA 504 1.80e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1vazA 88 1.81e+01 unknown_sccs -9419 1uocA 289 1.87e+01 unknown_sccs -7671 1i5eA 209 1.98e+01 c.61.1.1 71116 1fnyA 237 1.99e+01 1led b.29.1.1 59920 1nb8A 353 2.00e+01 d.3.1.9 80385 1kk3A 410 2.03e+01 b.43.3.1 72640 b.44.1.1 72641 c.37.1.8 72642 1kk1A 410 2.06e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1dsfH 119 2.14e+01 1igtB b.1.1.1 20247 1e9tA 59 2.33e+01 2pspA g.16.1.1 44747 1p3wA 404 2.34e+01 c.67.1.3 87752 1vmoA 163 2.60e+01 1vmoA b.77.1.1 27974 1s78A 624 2.73e+01 c.10.2.5 -6197 c.10.2.5 -6198 g.3.9.1 -12476 g.3.9.1 -12477 1lt8A 406 2.77e+01 c.1.26.1 78186 1gr1A 303 2.86e+01 b.43.4.2 76319 c.25.1.1 76320 1m2oA 768 2.92e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1drw 273 3.00e+01 1drw c.2.1.3 30057 d.81.1.3 39972 3ldh 330 3.03e+01 3ldh i.12.1.1 46015 1b2rA 304 3.04e+01 1fnc b.43.4.2 25648 c.25.1.1 31538 1que 303 3.04e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1gjrA 304 3.04e+01 b.43.4.2 70197 c.25.1.1 70198 1ewyA 303 3.06e+01 1fnc b.43.4.2 25651 c.25.1.1 31541 1ogiA 303 3.07e+01 b.43.4.2 -4042 c.25.1.1 -6587 1e64A 304 3.10e+01 1fnc b.43.4.2 59289 c.25.1.1 59290 1quf 304 3.12e+01 1fnc b.43.4.2 25650 c.25.1.1 31540 1gmnA 183 3.13e+01 g.10.1.1 65315 g.14.1.1 65316 1gp9A 177 3.15e+01 g.10.1.1 65442 g.14.1.1 65443 1bhtA 176 3.15e+01 1bhtA g.10.1.1 44603 g.14.1.1 44663 1nk1A 183 3.18e+01 1bhtA g.10.1.1 44605 g.14.1.1 44665 1e63A 304 3.21e+01 1fnc b.43.4.2 59287 c.25.1.1 59288 1e62A 304 3.22e+01 1fnc b.43.4.2 59285 c.25.1.1 59286 1bqeA 295 3.22e+01 b.43.4.2 64760 c.25.1.1 64761 1go2A 304 3.23e+01 b.43.4.2 76243 c.25.1.1 76244 1bjk 295 3.31e+01 1fnc b.43.4.2 25649 c.25.1.1 31539 1e32A 458 3.34e+01 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1avv 151 3.35e+01 1efnB d.102.1.1 40703 1ogjA 303 3.36e+01 b.43.4.2 -4043 c.25.1.1 -6588 1h42A 304 3.39e+01 b.43.4.2 -4041 c.25.1.1 -6586 1qgyA 295 3.42e+01 b.43.4.2 -4044 c.25.1.1 -6589 1qgzA 295 3.50e+01 b.43.4.2 68889 c.25.1.1 68890 1efnB 152 3.55e+01 1efnB d.102.1.1 40699 1n7hA 381 3.66e+01 c.2.1.2 80250 1qh0A 295 3.70e+01 b.43.4.2 68891 c.25.1.1 68892 1j58A 385 3.81e+01 b.82.1.2 71531