# 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 1osdA 72 2.11e-04 1o8xA 146 6.18e-03 c.47.1.10 86681 1i5gA 144 8.98e-03 1ewxA c.47.1.10 61784 1qk8A 146 9.90e-03 1ewxA c.47.1.10 33061 1a8l 226 2.13e-02 1a8l c.47.1.2 32777 c.47.1.2 32778 1r26A 125 2.21e-02 c.47.1.1 -7389 1j08A 226 2.84e-02 c.47.1.2 83855 c.47.1.2 83856 1v58A 241 3.21e-02 1lu4A 136 6.45e-02 c.47.1.10 -7509 1v6fA 151 9.08e-02 1mwyA 73 1.12e-01 d.58.17.1 79616 1ctn 540 1.12e-01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1edqA 540 1.25e-01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1f7sA 139 1.39e-01 1cof d.109.1.2 40857 1qlaB 239 1.48e-01 1qlaB a.1.2.1 15679 d.15.4.2 37707 1e0bA 68 1.71e-01 1e0bA b.34.13.2 37476 1oz9A 150 1.80e-01 unknown_sccs -10588 1ci3M 249 2.86e-01 1hcz b.2.6.1 22480 b.84.2.2 28266 1pa4A 116 3.72e-01 d.52.7.1 -9780 1agqA 135 4.40e-01 1agqA g.17.1.2 44789 1iloA 77 4.46e-01 c.47.1.1 66205 1rro 108 5.06e-01 1a75A a.39.1.4 17195 1h9sA 140 5.31e-01 1b9mA b.40.6.2 60843 b.40.6.2 60844 1eejA 216 5.70e-01 1eejA c.47.1.9 33057 d.17.3.1 38071 1e8gA 560 5.78e-01 1qltA d.58.32.1 39455 d.145.1.1 41718 1faaA 124 6.00e-01 1erv c.47.1.1 32738 1nw2A 105 6.30e-01 c.47.1.1 -7380 1erv 105 6.34e-01 1erv c.47.1.1 32743 1f9mA 112 6.56e-01 1erv c.47.1.1 32736 1tx4B 178 6.71e-01 1ctqA c.37.1.8 32045 1mo9A 523 6.76e-01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1j1hA 144 7.41e-01 b.111.1.1 77056 1fb6A 105 7.50e-01 1thx c.47.1.1 32739 1aiu 105 7.50e-01 1erv c.47.1.1 32746 1h8mA 140 7.79e-01 1h8mA d.110.4.1 60782 1psuA 140 7.93e-01 d.38.1.5 88285 1nbaA 264 8.69e-01 1nbaA unknown_sccs 31753 1hd2A 161 9.10e-01 c.47.1.10 60962 1kte 105 9.43e-01 1kte c.47.1.1 32771 1i1qB 192 9.74e-01 1qdlB c.23.16.1 61544 1kmqA 184 1.07e+00 c.37.1.8 84412 1bed 181 1.09e+00 1fvkA unknown_sccs -7444 1gudA 288 1.13e+00 c.93.1.1 83326 1ccwB 483 1.18e+00 1cb7B c.1.19.2 29646 1rpjA 288 1.21e+00 2dri c.93.1.1 35656 1cc8A 73 1.23e+00 1cc8A d.58.17.1 39343 1um0A 365 1.45e+00 1o0pA 104 1.77e+00 d.58.7.1 86535 1kl1A 419 1.95e+00 c.67.1.4 72663 1josA 128 2.07e+00 d.52.7.1 84191 1nbuA 119 2.08e+00 d.96.1.3 -10699 1hhsA 664 2.13e+00 1hi0P e.8.1.6 61045 1at3A 247 2.27e+00 1at3A b.57.1.1 27021 1uvjA 664 2.29e+00 e.8.1.6 -11964 1q0eA 152 2.45e+00 b.1.8.1 -2798 1fjnA 39 2.46e+00 1fjnA g.3.7.3 44171 1m4zA 238 3.01e+00 b.34.12.1 78630 1no4A 97 3.26e+00 h.1.24.1 85918 1ub0A 258 3.38e+00 c.72.1.2 88394 1tib 269 3.49e+00 3tgl c.69.1.17 34738 1rgxA 114 3.52e+00 1qysA 106 3.72e+00 unknown_sccs -13432 1gt6A 269 3.78e+00 c.69.1.17 76342 1ignA 246 4.20e+00 1ignA a.4.1.6 16048 a.4.1.6 16049 1mfmA 153 4.30e+00 1mfmA b.1.8.1 22246 1q08A 99 4.33e+00 a.6.1.3 -381 1l1sA 113 4.48e+00 c.114.1.1 73484 1sdjA 310 4.53e+00 d.21.1.2 -9420 d.21.1.2 -9421 1erp 38 4.54e+00 2erl a.10.1.1 16363 1cbjA 151 4.59e+00 1mfmA b.1.8.1 22213 1grx 85 4.62e+00 1kte c.47.1.1 32766 1sxjE 354 4.92e+00 1fp3A 402 4.94e+00 1fp3A a.102.1.3 18842 1l3iA 192 4.97e+00 c.66.1.22 77676 2trxA 108 5.12e+00 1thx c.47.1.1 32719 1fcdA 401 5.40e+00 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1ua4A 455 5.77e+00 c.72.1.3 -8416 1f97A 212 6.13e+00 1f97A b.1.1.1 19763 b.1.1.4 21764 1g2oA 268 6.22e+00 1b8oA c.56.2.1 60228 1b9mA 265 6.48e+00 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1dzfA 215 6.80e+00 1dzfA c.52.3.1 33344 d.78.1.1 39753 1h7eA 245 6.97e+00 c.68.1.13 60717 2dri 271 7.21e+00 2dri c.93.1.1 35637 1amuA 563 7.26e+00 1amuA e.23.1.1 43351 1o5zA 442 7.32e+00 c.59.1.2 -7939 c.72.2.2 -8418 1bgp 309 7.46e+00 1bgp a.93.1.1 18690 1g8kB 133 7.63e+00 1g8jB b.33.1.1 24435 1i36A 264 7.82e+00 a.100.1.8 71108 c.2.1.6 71109 1e6pA 499 8.05e+00 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1i52A 236 8.34e+00 1i52A c.68.1.13 61767 1ca1 370 8.53e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1gtkA 313 8.66e+00 c.94.1.1 76346 d.50.2.1 76347 1cl8A 276 8.75e+00 1ckqA c.52.1.1 33230 1lokA 291 9.21e+00 c.56.5.4 78122 1ew4A 106 9.66e+00 1ew4A d.82.2.1 40023 1thx 115 1.01e+01 1thx c.47.1.1 32732 1acvA 189 1.03e+01 1fvkA unknown_sccs -7428 1sqlA 146 1.05e+01 1rwiA 270 1.08e+01 unknown_sccs -4603 1oo0B 110 1.09e+01 d.58.7.1 87183 1q9uA 130 1.09e+01 unknown_sccs -11025 1goiA 499 1.15e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1pda 315 1.15e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1a8rA 221 1.15e+01 1a8rA d.96.1.1 40587 1efvA 315 1.15e+01 1efvA c.26.2.3 31633 c.31.1.2 31728 1t95A 240 1.19e+01 1i1wA 303 1.20e+01 c.1.8.3 76732 1n82A 331 1.21e+01 c.1.8.3 -5306 1uc8A 280 1.22e+01 unknown_sccs -6718 unknown_sccs -11230 1h6kA 757 1.27e+01 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1o54A 277 1.28e+01 c.66.1.13 -8095 1dvoA 152 1.32e+01 1dvoA a.136.1.1 19623 1edzA 320 1.43e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1lq9A 112 1.48e+01 d.58.4.3 78129 1rl2A 137 1.50e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1dpe 507 1.50e+01 1dpe c.94.1.1 35799 3rubS 123 1.51e+01 1rboC d.73.1.1 39616 1i45A 248 1.56e+01 1amk c.1.1.1 61665 1kqfA 1015 1.61e+01 b.52.2.2 72871 c.81.1.1 72872 1gegA 256 1.64e+01 1ybvA c.2.1.2 29888 1qqsA 174 1.65e+01 1nglA b.60.1.1 27143 1pz7A 204 1.68e+01 b.29.1.4 -3439 1ii7A 333 1.71e+01 1ii7A d.159.1.4 62415 1o0yA 260 1.72e+01 c.1.10.1 80756 1j5pA 253 1.75e+01 c.2.1.3 83092 d.81.1.3 71577 1f6bA 198 1.79e+01 c.37.1.8 64986 2gsaA 432 1.79e+01 2gsaA c.67.1.4 34446 1rtqA 299 1.79e+01 c.56.5.4 -7864 1neyA 247 1.80e+01 c.1.1.1 80449 1n8jA 186 1.80e+01 c.47.1.10 85401 1ef8A 261 1.84e+01 1ef8A c.14.1.3 30921 1sefA 274 1.87e+01 1ekeA 230 1.89e+01 1ekeA c.55.3.1 33572 1mxiA 160 1.92e+01 c.116.1.1 79646 1kzyC 259 1.98e+01 c.15.1.4 73383 c.15.1.4 73384 1cb0A 283 1.99e+01 1cb0A c.56.2.1 33790 1ep0A 185 2.02e+01 1dzrA b.82.1.1 28080 1khyA 148 2.03e+01 a.174.1.1 77410 1amp 291 2.08e+01 1amp c.56.5.4 33837 1o7sA 127 2.08e+01 b.1.1.1 86644 1a7tA 232 2.14e+01 1a7tA d.157.1.1 42041 1louA 101 2.15e+01 1ris d.58.14.1 39323 1fhgA 154 2.15e+01 1tlk b.1.1.4 21706 2bopA 85 2.15e+01 2bopA d.58.8.1 39217 2fcr 173 2.16e+01 1rcf c.23.5.1 31151 1ihrA 76 2.20e+01 1ihrA d.212.1.2 62392 2masA 314 2.29e+01 2masA c.70.1.1 34810 1fxmA 302 2.30e+01 1taxA 1kl7A 514 2.32e+01 c.79.1.1 72678 1gnlA 544 2.35e+01 e.26.1.1 70287 1q48A 134 2.37e+01 unknown_sccs -9776 1gk8I 140 2.41e+01 d.73.1.1 65242 1bg4 302 2.44e+01 1taxA c.1.8.3 28806 1itxA 419 2.49e+01 c.1.8.5 71425 d.26.3.1 71426 1kxvC 121 2.50e+01 b.1.1.1 73190 1xyzA 347 2.52e+01 1taxA c.1.8.3 28804 1fe0A 68 2.53e+01 1cc8A d.58.17.1 39345 1nd6A 354 2.55e+01 c.60.1.2 80407 1lki 180 2.59e+01 1lki a.26.1.1 16829 1llp 343 2.59e+01 1arv a.93.1.1 18578 1kgyA 181 2.63e+01 b.18.1.4 72449 1kjnA 157 2.65e+01 c.115.1.1 72614 1id0A 152 2.67e+01 d.122.1.3 66111 1oapA 109 2.69e+01 unknown_sccs -10428 1nkoA 132 2.71e+01 b.1.1.1 85829 2bbkH 355 2.76e+01 2bbkH b.69.2.1 27634 1qyaA 307 2.82e+01 1quqA 129 2.83e+01 1quqA b.40.4.3 25303 1fvkA 189 2.89e+01 1fvkA unknown_sccs -7419 1o7zA 77 2.89e+01 d.9.1.1 86660 1edg 380 2.91e+01 1edg c.1.8.3 28807 1kid 203 2.93e+01 1derA c.8.5.1 30771 1iooA 196 2.93e+01 d.124.1.1 71250 1uxoA 192 2.96e+01 1nu4A 97 3.04e+01 d.58.7.1 80731 1jqlB 140 3.04e+01 c.37.1.20 63234 1h8lA 380 3.06e+01 b.3.2.1 65737 c.56.5.1 65738 1ngr 85 3.13e+01 1ngr a.77.1.2 18422 1q9iA 571 3.18e+01 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1tlk 154 3.20e+01 1tlk b.1.1.4 21707 1ir6A 424 3.23e+01 c.107.1.2 71342 1g71A 347 3.24e+01 1g71A unknown_sccs 43268 1rpa 342 3.32e+01 1cviA c.60.1.2 33983 1fjgK 129 3.37e+01 1fjfK c.55.4.1 33733 2acy 98 3.37e+01 2acy d.58.10.1 39298 1v84A 253 3.37e+01 7atjA 308 3.42e+01 1bgp a.93.1.1 18673 1bhi 38 3.45e+01 1bhi g.37.1.1 45052 2hpaA 342 3.49e+01 1cviA c.60.1.2 33985 1kw4A 89 3.50e+01 a.60.1.2 73077 1hh8A 213 3.55e+01 1e96B a.118.8.1 61042 1seiA 130 3.55e+01 1seiA d.140.1.1 41463 1clxA 347 3.57e+01 1taxA c.1.8.3 28899 1fxrA 64 3.60e+01 1fxd d.58.1.4 38993 1dgyA 363 3.60e+01 1bx4A 1dkuA 317 3.60e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1dozA 309 3.62e+01 1ak1 c.92.1.1 35592 1gwuA 309 3.63e+01 a.93.1.1 83351 1liiA 363 3.64e+01 c.72.1.1 73921 7a3hA 303 3.65e+01 7a3hA c.1.8.3 28817 1ofuA 320 3.67e+01 c.32.1.1 86972 d.79.2.1 86973 1tq8A 163 3.67e+01 1a4iA 301 3.69e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1d4oA 184 3.70e+01 1d4oA c.31.1.4 31748 1j2gA 319 3.72e+01 1jy2P 48 3.78e+01 h.1.8.1 67442 1shwB 181 3.84e+01 1i2aA 219 3.87e+01 e.24.1.1 -12012 1dcoA 104 3.88e+01 1dcpA d.74.1.1 39680 1ml8A 134 3.88e+01 d.227.1.2 85013 1nr0A 611 3.89e+01 b.69.4.1 86078 b.69.4.1 86079 1erjA 393 3.91e+01 1erjA b.69.4.1 27660 1v33A 366 3.93e+01 unknown_sccs -11384 1k4zA 159 3.94e+01 b.80.5.1 72070 1hdoA 206 3.96e+01 1he2A c.2.1.2 60965 1up8A 598 3.98e+01 a.111.1.2 -1480