# List of top-scoring protein chains for T0236.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 1r5qA 102 6.06e-03 unknown_sccs -965 1mxsA 225 6.11e-01 c.1.10.1 -5485 1a76 326 7.72e-01 1a76 a.60.7.1 18091 c.120.1.2 33361 1q6aA 107 1.17e+00 unknown_sccs -960 1v2zA 111 1.23e+00 1iyjB 817 1.31e+00 a.170.1.1 76948 a.171.1.1 76949 b.40.4.3 76950 b.40.4.3 76951 b.40.4.3 76952 1l1qA 186 1.74e+00 c.61.1.1 77653 5csmA 256 1.91e+00 5csmA a.130.1.2 19494 1ed3A 275 2.49e+00 1agdA b.1.1.2 20847 d.19.1.1 38313 1kjmA 285 2.88e+00 b.1.1.2 77416 d.19.1.1 77417 1ewiA 114 3.02e+00 1ewiA b.40.4.3 25302 1jcmP 259 3.77e+00 c.1.2.4 71633 3csmA 256 3.91e+00 5csmA a.130.1.2 19500 1r8jA 289 3.95e+00 1lh0A 213 3.98e+00 c.61.1.1 73896 1sto 213 4.01e+00 1opr c.61.1.1 34092 1f5xA 208 4.40e+00 1f5xA a.87.1.1 18516 1fnjA 127 4.86e+00 2chsA d.79.1.2 39776 1ogyA 802 4.99e+00 b.52.2.2 -4327 c.81.1.1 -8537 1fnkA 127 5.04e+00 2chsA d.79.1.2 39777 1pu1A 94 5.08e+00 1icxA 155 5.09e+00 d.129.3.1 71191 1dbfA 127 5.11e+00 2chsA d.79.1.2 39761 1uvxA 121 7.20e+00 a.1.1.1 -2 1vj7A 393 7.38e+00 unknown_sccs -1265 unknown_sccs -9814 1owaA 156 7.48e+00 a.7.1.1 -388 1icm 131 7.88e+00 1hmt b.60.1.2 27174 1ifc 132 7.96e+00 b.60.1.2 27173 1dlyA 164 8.22e+00 1dlyA a.1.1.1 14983 1icn 131 8.22e+00 1hmt b.60.1.2 27175 1rxwA 336 8.28e+00 a.60.7.1 -1041 c.120.1.2 -6680 1pxeA 63 8.46e+00 unknown_sccs -12873 1ud9A 245 8.55e+00 1h9fA 57 8.62e+00 1h9fA a.140.1.1 60826 1aeiA 315 9.29e+00 1avc a.65.1.1 18180 1dm5A 315 9.32e+00 1avc a.65.1.1 18186 1bt0A 76 9.91e+00 1ubi d.15.1.1 37607 2ts1 419 1.05e+01 2ts1 c.26.1.1 31564 1qnxA 209 1.06e+01 1qnxA d.111.1.1 40914 1i13A 221 1.06e+01 c.61.1.1 71098 1j1uA 306 1.07e+01 c.26.1.1 83980 1kzxA 131 1.09e+01 b.60.1.2 84479 1kzwA 131 1.09e+01 b.60.1.2 84478 1sa8A 106 1.13e+01 1i0iA 221 1.14e+01 c.61.1.1 71094 1jj2F 119 1.14e+01 1ffkE d.79.3.1 63091 1i14A 221 1.16e+01 c.61.1.1 71100 1a57 116 1.18e+01 1hmt b.60.1.2 27181 1i0lA 221 1.19e+01 c.61.1.1 71096 1s72F 120 1.21e+01 1cvuA 552 1.25e+01 1cqeA a.93.1.2 18716 g.3.11.1 44259 3pghA 587 1.26e+01 1cqeA a.93.1.2 18726 g.3.11.1 44269 1p18A 221 1.27e+01 1tc1A 220 1.30e+01 1tc1A c.61.1.1 34083 1tc2A 221 1.30e+01 1tc1A c.61.1.1 34085 1b00A 127 1.31e+01 3chy c.23.1.1 31122 1i4aA 318 1.32e+01 1avc a.65.1.1 61681 1ann 318 1.32e+01 1avc a.65.1.1 18151 1pii 452 1.41e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1iruI 234 1.46e+01 d.153.1.4 71360 1aow 309 1.47e+01 1avc a.65.1.1 18152 1b3sD 90 1.51e+01 1ay7B c.9.1.1 30846 1h4rA 314 1.60e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1zagA 274 1.62e+01 1agdA b.1.1.2 20851 d.19.1.1 38315 1nltA 248 1.63e+01 b.4.1.1 -2931 b.4.1.1 -2932 g.54.1.1 -12867 1isnA 323 1.64e+01 a.11.2.1 71400 b.55.1.5 71401 d.15.1.4 71402 1kczA 413 1.69e+01 c.1.11.2 68451 d.54.1.1 68452 1isiA 265 1.72e+01 e.4.1.1 71394 1o5wA 534 1.87e+01 c.3.1.2 -6025 d.16.1.5 -9245 1pxwA 128 1.91e+01 d.79.3.1 -10406 1exjA 278 1.92e+01 1bowA a.6.1.3 16309 d.60.1.1 39530 1omwA 689 2.31e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1a19A 90 2.35e+01 1ay7B c.9.1.1 30831 1p2fA 220 2.41e+01 a.4.6.1 87720 c.23.1.1 87721 1bowA 159 2.41e+01 1bowA d.60.1.1 39528 1oe4A 247 2.43e+01 c.18.1.3 86895 1gjjA 168 2.49e+01 a.140.1.1 83291 a.140.1.1 83292 1b27D 90 2.52e+01 1ay7B c.9.1.1 30840 1ay7B 89 2.55e+01 1ay7B c.9.1.1 30836 1qmgA 524 2.58e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 2csmA 256 2.62e+01 5csmA a.130.1.2 19497 1brsD 89 2.66e+01 1ay7B c.9.1.1 30825 1j7qA 86 2.68e+01 1j7rA a.39.1.5 62700 1aazA 87 2.69e+01 1aba c.47.1.1 32761 1b2sD 90 2.73e+01 1ay7B c.9.1.1 30837 1c16A 260 2.82e+01 1agdA b.1.1.2 20856 d.19.1.1 38320 1fkw 349 2.89e+01 1a4mA c.1.9.1 29019 1fzkA 274 2.94e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1g9tA 182 2.99e+01 c.61.1.1 70166 1sdsA 117 3.01e+01 1fkx 349 3.01e+01 1a4mA c.1.9.1 29018 2mhaA 270 3.02e+01 1agdA b.1.1.2 20803 d.19.1.1 38291 1hv8A 367 3.02e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1mjeA 649 3.05e+01 a.170.1.1 79193 a.171.1.1 79194 b.40.4.3 79195 b.40.4.3 79196 b.40.4.3 79197 1lk2A 274 3.05e+01 b.1.1.2 -2610 d.19.1.1 -9365 1namH 275 3.05e+01 b.1.1.2 85490 d.19.1.1 85491 1fo0H 276 3.06e+01 1agdA b.1.1.2 20797 d.19.1.1 38288 1fzoA 274 3.06e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1n59A 276 3.06e+01 b.1.1.2 80008 d.19.1.1 80009 1kj2H 277 3.07e+01 b.1.1.2 72563 d.19.1.1 72564 1aj3 110 3.07e+01 1cunA a.7.1.1 16319 1nanH 278 3.07e+01 b.1.1.2 85493 d.19.1.1 85494 1kj3H 279 3.08e+01 b.1.1.2 72569 d.19.1.1 72570 5cpa 307 3.10e+01 1aye c.56.5.1 33811 1bavA 309 3.13e+01 1aye c.56.5.1 33806 1cbx 307 3.14e+01 1aye c.56.5.1 33813 1miuA 738 3.16e+01 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1d02A 202 3.19e+01 1d02A c.52.1.8 33313 1nddA 76 3.25e+01 1ubi d.15.1.1 37599 1h0oA 390 3.25e+01 a.25.1.2 70845 1bzyA 217 3.33e+01 1qk3A c.61.1.1 34071 1a4mA 349 3.34e+01 1a4mA c.1.9.1 29014 2ada 352 3.35e+01 1a4mA c.1.9.1 29027 1iicA 422 3.43e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1j2zA 270 3.43e+01 b.81.1.1 -4797 1mwaH 275 3.48e+01 b.1.1.2 79566 d.19.1.1 79567 1lekA 274 3.48e+01 b.1.1.2 73872 d.19.1.1 73873 1d6nA 214 3.51e+01 1qk3A c.61.1.1 34077 1s7qA 348 3.52e+01 b.1.1.2 -2613 d.19.1.1 -9368 1ifvA 155 3.69e+01 d.129.3.1 71204 1kw4A 89 3.96e+01 a.60.1.2 73077 1aj8A 371 3.99e+01 1aj8A a.103.1.1 18900