# 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 1trkA 680 2.22e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1pq1A 196 2.35e+00 f.1.4.1 -12055 1ca1 370 2.43e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1ekeA 230 2.48e+00 1ekeA c.55.3.1 33572 1foeA 377 2.64e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1noyA 388 3.00e+00 1clqA c.55.3.5 33713 1gpuA 680 3.26e+00 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1ithA 141 3.84e+00 1ithA a.1.1.2 15623 1lvwA 295 4.51e+00 c.68.1.6 84723 1hkhA 279 5.56e+00 c.69.1.12 -8342 1e3dB 542 7.79e+00 1h2rL e.18.1.1 59189 1m1eB 81 8.04e+00 a.161.1.1 78400 1g1eB 89 8.31e+00 1g1eB a.59.1.1 17931 1p6xA 334 9.48e+00 c.37.1.1 -6983 1lvfA 110 9.55e+00 a.47.2.1 74280 1i50A 1733 1.01e+01 e.29.1.2 61754 1pq1B 33 1.04e+01 1ehkC 33 1.06e+01 1ehkC f.23.9.1 43626 1b25A 619 1.10e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 2cblA 305 1.14e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1aj8A 371 1.15e+01 1aj8A a.103.1.1 18900 1lci 550 1.19e+01 1lci e.23.1.1 43349 1bgf 124 1.22e+01 1bgf a.90.1.1 18537 1afwA 393 1.23e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1s9aA 257 1.27e+01 1pufA 77 1.27e+01 a.4.1.1 -191 1v7oA 165 1.35e+01 unknown_sccs -10249 1jggA 60 1.39e+01 2hddA a.4.1.1 62950 1elkA 157 1.44e+01 1dvpA a.118.9.2 19217 1fcdA 401 1.47e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1af3 196 1.47e+01 1maz f.1.4.1 43397 1j1jA 240 1.52e+01 a.118.16.1 -1637 2liv 344 1.72e+01 2liv c.93.1.1 35708 1dtoA 221 1.72e+01 1dtoA b.91.1.1 28405 1fpoA 171 1.74e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487 2lhb 149 1.76e+01 2fal a.1.1.2 15597 1g8iA 190 1.81e+01 1rec a.39.1.5 60363 1gs5A 258 1.84e+01 c.73.1.2 70395 1fzoA 274 1.93e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1ee8A 266 1.98e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1ia9A 280 2.11e+01 1ia9A d.144.1.5 62113 1bjaA 95 2.12e+01 1bjaA a.4.5.9 16122 1hl9A 449 2.14e+01 unknown_sccs -4694 unknown_sccs -5365 1mun 225 2.15e+01 1mun a.96.1.2 18744 1r6xA 395 2.19e+01 b.122.1.3 -5125 c.26.1.5 -6620 1oivA 191 2.19e+01 c.37.1.8 -7074 1efyA 350 2.20e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1f3aA 222 2.31e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1uc2A 481 2.32e+01 unknown_sccs -11725 1ucpA 91 2.33e+01 unknown_sccs -1193 1lk2A 274 2.37e+01 b.1.1.2 -2610 d.19.1.1 -9365 1pc3A 350 2.43e+01 1fl1A 230 2.51e+01 1at3A b.57.1.1 27023 1top 162 2.51e+01 1ncx a.39.1.5 17223 1g4yR 148 2.52e+01 1cll a.39.1.5 60252 1o08A 221 2.57e+01 c.108.1.6 86525 1i39A 225 2.61e+01 1ekeA c.55.3.1 61585 1f3iA 481 2.61e+01 1b7eA 1g8fA 511 2.62e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1aisB 200 2.75e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1jcfA 344 2.77e+01 c.55.1.1 62878 c.55.1.1 62879 1ji1A 637 2.91e+01 b.1.18.2 71666 b.71.1.1 71667 c.1.8.1 71668 1t95A 240 2.96e+01 1jfzA 154 2.97e+01 a.149.1.1 66655 1ei9A 279 3.01e+01 1ei9A c.69.1.13 34713 1r4pA 297 3.07e+01 d.165.1.2 -11560 1sqgA 429 3.11e+01 1iujA 106 3.13e+01 unknown_sccs -9953 1t0gA 109 3.26e+01 unknown_sccs -10955 1j7gA 144 3.34e+01 c.110.1.1 84130 1ash 150 3.39e+01 1ash a.1.1.2 15622 1rec 201 3.72e+01 1rec a.39.1.5 17326 1pvyA 227 3.74e+01 d.115.1.2 -10937 1e5eA 404 3.84e+01 1ibjA c.67.1.3 59265 1s0yB 71 3.87e+01 d.80.1.1 -10442 1ly1A 181 3.90e+01 c.37.1.1 74334 1lnwA 147 3.91e+01 a.4.5.28 78104 1scfA 273 3.95e+01 1exzA a.26.1.2 16873 1jqeA 292 3.96e+01 c.66.1.19 71789 1snnA 227 3.97e+01 2occJ 59 3.98e+01 2occJ f.23.4.1 43524 1omrA 201 3.98e+01 a.39.1.5 -854