# List of top-scoring protein chains for T0268.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 1m6yA 301 5.61e-39 a.60.13.1 78716 c.66.1.23 78717 1sqgA 429 1.27e-02 1ixkA 315 1.28e-01 unknown_sccs -8099 1qe0A 420 1.69e-01 1adjA c.51.1.1 33186 d.104.1.1 40735 1l3iA 192 2.47e-01 c.66.1.22 77676 1bn7A 294 4.77e-01 1bn6A c.69.1.8 34677 1cqwA 295 5.08e-01 1b6g c.69.1.8 34679 1ko6A 187 1.38e+00 b.119.1.1 77471 1uwvA 433 1.64e+00 unknown_sccs -3950 unknown_sccs -8107 1p91A 269 2.05e+00 unknown_sccs -8054 1l9kA 305 2.45e+00 c.66.1.25 84569 1qyrA 252 2.92e+00 1g38A 393 3.22e+00 2admA c.66.1.27 60235 1svuA 327 3.25e+00 6mhtA 327 3.35e+00 6mhtA c.66.1.26 34226 1fjxA 327 3.47e+00 6mhtA c.66.1.26 34228 1aqjA 421 3.64e+00 2admA c.66.1.27 34242 2admA 421 3.66e+00 2admA c.66.1.27 34238 1gtmA 419 4.89e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 1yub 245 5.55e+00 2ercA c.66.1.24 34219 1b8zA 90 5.64e+00 1huuA a.55.1.1 17902 1nfgA 457 6.81e+00 b.92.1.3 85632 c.1.9.6 85633 1oahA 519 6.98e+00 a.138.1.3 86736 1xvaA 292 7.52e+00 1xvaA c.66.1.5 34183 1fp1D 372 7.58e+00 1fpqA a.4.5.29 59939 c.66.1.12 59940 1d2gA 292 7.83e+00 1xvaA c.66.1.5 34187 1qpbA 563 7.84e+00 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 1h9uA 224 7.88e+00 a.123.1.1 70923 1uhlA 236 8.06e+00 1dkuA 317 8.57e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1ht0A 374 8.71e+00 2ohxA b.35.1.2 24709 c.2.1.1 29725 1qzzA 374 8.84e+00 a.4.5.29 -277 c.66.1.12 -8045 1r8hA 87 9.08e+00 d.58.8.1 -10041 1qzgA 187 9.39e+00 b.40.4.3 -3920 1t43A 277 9.55e+00 2pbg 468 9.64e+00 1e70M c.1.8.4 28948 1hk3A 585 9.99e+00 a.126.1.1 83530 a.126.1.1 83531 a.126.1.1 83532 1hk5A 585 9.99e+00 a.126.1.1 83536 a.126.1.1 83537 a.126.1.1 83538 1n5uA 585 1.01e+01 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1iy9A 275 1.02e+01 c.66.1.17 76943 1pvdA 555 1.07e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1pydA 556 1.08e+01 1zpdA c.31.1.3 31735 c.36.1.5 31773 c.36.1.9 31774 1bed 181 1.08e+01 1fvkA unknown_sccs -7444 1mgtA 174 1.10e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1htbA 374 1.11e+01 2ohxA b.35.1.2 24715 c.2.1.1 29731 1am5 324 1.11e+01 1smrA b.50.1.2 26855 1hdyA 374 1.12e+01 2ohxA b.35.1.2 24723 c.2.1.1 29739 1dehA 374 1.12e+01 2ohxA b.35.1.2 24713 c.2.1.1 29729 1hdzA 374 1.13e+01 2ohxA b.35.1.2 24725 c.2.1.1 29741 1hsoA 374 1.16e+01 2ohxA b.35.1.2 24731 c.2.1.1 29747 1dmhA 311 1.20e+01 1dmhA b.3.6.1 22633 1toh 343 1.28e+01 4pah d.178.1.1 42573 2tohA 343 1.28e+01 4pah d.178.1.1 42574 1kevA 351 1.32e+01 1pedA b.35.1.2 24749 c.2.1.1 29765 1jqbA 351 1.33e+01 b.35.1.2 77151 c.2.1.1 77152 1bke 581 1.37e+01 1bj5 a.126.1.1 19387 a.126.1.1 19388 a.126.1.1 19389 1g5bA 221 1.37e+01 1g5bA d.159.1.3 60261 1yvnA 375 1.47e+01 1yagA c.55.1.1 33451 c.55.1.1 33452 1b9gA 57 1.55e+01 2gf1 g.1.1.1 43991 1st9A 143 1.59e+01 c.47.1.10 -7503 1php 394 1.69e+01 16pk c.86.1.1 35452 1axgA 374 1.70e+01 2ohxA b.35.1.2 24691 c.2.1.1 29707 1a71A 374 1.70e+01 2ohxA b.35.1.2 24673 c.2.1.1 29689 4pbgA 468 1.70e+01 1e70M c.1.8.4 28949 1pbgA 468 1.82e+01 1e70M c.1.8.4 28946 1lo0H 220 1.83e+01 b.1.1.1 74115 b.1.1.2 74116 1g43A 160 1.91e+01 1nbcA b.2.2.2 22392 1gox 370 1.95e+01 1gox c.1.4.1 28607 1gylA 369 1.96e+01 1gox c.1.4.1 28610 1ku5A 70 2.04e+01 a.22.1.2 -563 1yagA 375 2.07e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1s4bP 674 2.11e+01 1svy 114 2.12e+01 1svy d.109.1.1 40831 1d3yA 301 2.14e+01 1d3yA e.12.1.1 43252 1ju9A 374 2.22e+01 b.35.1.2 63293 c.2.1.1 63294 1mgoA 374 2.25e+01 b.35.1.2 79094 c.2.1.1 79095 1heuA 374 2.28e+01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1n8kA 374 2.30e+01 b.35.1.2 80298 c.2.1.1 80299 1axeA 374 2.31e+01 2ohxA b.35.1.2 24681 c.2.1.1 29697 1qamA 244 2.33e+01 2ercA c.66.1.24 34220 1bg6 359 2.34e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1xo1A 291 2.34e+01 1exnA a.60.7.1 18086 c.120.1.2 33356 1exnA 290 2.36e+01 1exnA a.60.7.1 18088 c.120.1.2 33358 1ut8A 291 2.36e+01 a.60.7.1 -1036 c.120.1.2 -6675 1qv6A 374 2.42e+01 b.35.1.2 -3665 c.2.1.1 -5689 1p71A 94 2.42e+01 a.55.1.1 87840 1al8 359 2.45e+01 1gox c.1.4.1 28608 1o9zA 177 2.47e+01 b.2.3.5 86717 1o9wA 177 2.48e+01 b.2.3.5 86713 1oen 540 2.48e+01 1ayl c.91.1.1 64750 c.109.1.1 64751 1mjfA 281 2.52e+01 c.66.1.17 79198 1aa3 63 2.54e+01 2reb d.48.1.1 38769 1oscA 126 2.54e+01 d.58.5.2 -9997 1f3lA 321 2.59e+01 1g6q2 c.66.1.6 59630 1os1A 540 2.63e+01 c.91.1.1 -8625 c.109.1.1 -8628 1ayl 541 2.64e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1q5hA 147 2.64e+01 b.85.4.1 -5047 1v54E 109 2.69e+01 a.118.11.1 -1652 1qlhA 374 2.72e+01 2ohxA b.35.1.2 24685 c.2.1.1 29701 1m6hA 373 2.73e+01 b.35.1.2 74529 c.2.1.1 74530 1ne9A 335 2.73e+01 d.108.1.4 -10805 d.108.1.4 -10806 1mc5A 374 2.73e+01 b.35.1.2 84929 c.2.1.1 84930 1mxgA 435 2.85e+01 b.71.1.1 85193 c.1.8.1 85194 1a8uA 277 2.88e+01 1brt c.69.1.12 34703 1oioA 178 2.95e+01 b.2.3.5 -2884 1i9gA 280 3.03e+01 c.66.1.13 62090 1k8qA 377 3.19e+01 c.69.1.6 72177 1q4xA 253 3.20e+01 a.123.1.1 -1677 1naxA 252 3.21e+01 a.123.1.1 85501 1n46A 258 3.28e+01 a.123.1.1 85315 1bsxA 260 3.31e+01 2lbd a.123.1.1 19330 1nq0A 263 3.33e+01 a.123.1.1 86005 1ee2A 373 3.36e+01 2ohxA b.35.1.2 24663 c.2.1.1 29679 1nv8A 284 3.43e+01 c.66.1.30 86224 1h1dA 221 3.55e+01 c.66.1.1 83452 1nuoA 261 3.55e+01 a.123.1.1 86198 1nq1A 263 3.58e+01 a.123.1.1 86006 1ej0A 180 3.64e+01 1ej0A c.66.1.2 34179 1c4xA 285 3.68e+01 1c4xA c.69.1.10 34684 1a8q 274 3.72e+01 1brt c.69.1.12 34702 1broA 277 3.75e+01 1brt c.69.1.12 34700 1ufkA 254 3.80e+01 unknown_sccs -8103 8jdwA 386 3.91e+01 1jdw d.126.1.2 41132 1nzdA 351 3.96e+01 c.87.1.1 -8573 2reb 352 3.98e+01 2reb c.37.1.11 32282 d.48.1.1 38767