# List of top-scoring protein chains for t04-100-30-bys 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 1o8xA 146 8.18e-03 c.47.1.10 86681 1osdA 72 1.01e-02 1i5gA 144 1.05e-02 1ewxA c.47.1.10 61784 1qk8A 146 1.15e-02 1ewxA c.47.1.10 33061 1r26A 125 1.08e-01 c.47.1.1 -7389 1fb6A 105 1.43e-01 1thx c.47.1.1 32739 1v58A 241 1.72e-01 1lu4A 136 2.32e-01 c.47.1.10 -7509 1ccwB 483 3.39e-01 1cb7B c.1.19.2 29646 1a8l 226 4.42e-01 1a8l c.47.1.2 32777 c.47.1.2 32778 1kte 105 4.97e-01 1kte c.47.1.1 32771 1f7sA 139 9.72e-01 1cof d.109.1.2 40857 1rro 108 1.18e+00 1a75A a.39.1.4 17195 1o0pA 104 1.29e+00 d.58.7.1 86535 1hd2A 161 1.31e+00 c.47.1.10 60962 2acy 98 1.33e+00 2acy d.58.10.1 39298 1eejA 216 1.47e+00 1eejA c.47.1.9 33057 d.17.3.1 38071 1edqA 540 1.52e+00 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1v6fA 151 1.66e+00 1cl8A 276 1.74e+00 1ckqA c.52.1.1 33230 1josA 128 1.81e+00 d.52.7.1 84191 1e0bA 68 1.83e+00 1e0bA b.34.13.2 37476 1oz9A 150 1.86e+00 unknown_sccs -10588 1iloA 77 1.89e+00 c.47.1.1 66205 1ctn 540 1.89e+00 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1m4zA 238 1.98e+00 b.34.12.1 78630 1j1hA 144 2.24e+00 b.111.1.1 77056 1cc1S 283 2.25e+00 2frvA e.19.1.1 43313 1r53A 382 2.25e+00 unknown_sccs -11177 1gudA 288 2.48e+00 c.93.1.1 83326 1erv 105 2.57e+00 1erv c.47.1.1 32743 1f9mA 112 2.59e+00 1erv c.47.1.1 32736 1j08A 226 2.77e+00 c.47.1.2 83855 c.47.1.2 83856 1faaA 124 2.98e+00 1erv c.47.1.1 32738 1agqA 135 3.00e+00 1agqA g.17.1.2 44789 1e8gA 560 3.15e+00 1qltA d.58.32.1 39455 d.145.1.1 41718 1h8mA 140 3.18e+00 1h8mA d.110.4.1 60782 1aiu 105 3.50e+00 1erv c.47.1.1 32746 1e6pA 499 3.60e+00 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1ekeA 230 3.64e+00 1ekeA c.55.3.1 33572 1q9iA 571 3.85e+00 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1qlaB 239 4.16e+00 1qlaB a.1.2.1 15679 d.15.4.2 37707 1bia 321 4.25e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1g8kB 133 4.42e+00 1g8jB b.33.1.1 24435 1q08A 99 4.45e+00 a.6.1.3 -381 1kl1A 419 4.55e+00 c.67.1.4 72663 1bed 181 4.57e+00 1fvkA unknown_sccs -7444 1mwyA 73 4.68e+00 d.58.17.1 79616 1dmhA 311 5.37e+00 1dmhA b.3.6.1 22633 1rgxA 114 5.67e+00 1goiA 499 5.77e+00 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1eziA 228 5.89e+00 1eyrA c.68.1.13 34512 1udkA 51 5.99e+00 g.3.14.1 -12520 1fjnA 39 6.67e+00 1fjnA g.3.7.3 44171 1fvgA 199 6.71e+00 1fvaA d.58.28.1 39408 1k3sA 113 6.78e+00 d.198.1.1 68120 1h9sA 140 6.96e+00 1b9mA b.40.6.2 60843 b.40.6.2 60844 1j5pA 253 6.97e+00 c.2.1.3 83092 d.81.1.3 71577 1lq9A 112 7.17e+00 d.58.4.3 78129 1iyrA 111 7.64e+00 a.164.1.1 76973 1d3gA 367 8.07e+00 1d3gA c.1.4.1 28600 1mfmA 153 8.33e+00 1mfmA b.1.8.1 22246 1gpmA 525 8.52e+00 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 2trxA 108 8.76e+00 1thx c.47.1.1 32719 1nbaA 264 8.88e+00 1nbaA unknown_sccs 31753 1um0A 365 9.55e+00 1iupA 282 1.05e+01 c.69.1.10 76815 1ca1 370 1.06e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1ll7A 392 1.07e+01 c.1.8.5 78085 d.26.3.1 78086 1ep0A 185 1.11e+01 1dzrA b.82.1.1 28080 1f00I 282 1.14e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1psuA 140 1.14e+01 d.38.1.5 88285 1a8rA 221 1.17e+01 1a8rA d.96.1.1 40587 1nw2A 105 1.19e+01 c.47.1.1 -7380 1ignA 246 1.20e+01 1ignA a.4.1.6 16048 a.4.1.6 16049 3rubS 123 1.20e+01 1rboC d.73.1.1 39616 1erp 38 1.27e+01 2erl a.10.1.1 16363 1dvoA 152 1.29e+01 1dvoA a.136.1.1 19623 1ew4A 106 1.30e+01 1ew4A d.82.2.1 40023 1i1qB 192 1.30e+01 1qdlB c.23.16.1 61544 1thx 115 1.33e+01 1thx c.47.1.1 32732 1gt6A 269 1.37e+01 c.69.1.17 76342 1ef8A 261 1.38e+01 1ef8A c.14.1.3 30921 1eemA 241 1.42e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1ofdA 1520 1.42e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1mo9A 523 1.43e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ly1A 181 1.49e+01 c.37.1.1 74334 1no4A 97 1.50e+01 h.1.24.1 85918 1hhsA 664 1.54e+01 1hi0P e.8.1.6 61045 1danT 80 1.59e+01 1boy b.1.2.1 21953 1g2oA 268 1.62e+01 1b8oA c.56.2.1 60228 2hpaA 342 1.63e+01 1cviA c.60.1.2 33985 1uvjA 664 1.65e+01 e.8.1.6 -11964 1rpjA 288 1.67e+01 2dri c.93.1.1 35656 1sxjE 354 1.67e+01 1dzoA 123 1.72e+01 1dzoA d.24.1.1 38378 1d2kA 392 1.75e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1fvkA 189 1.78e+01 1fvkA unknown_sccs -7419 1b5tA 275 1.80e+01 1b5tA c.1.23.1 29676 1qysA 106 1.81e+01 unknown_sccs -13432 1odzA 386 1.82e+01 c.1.8.3 86889 1k3eA 156 1.84e+01 d.198.1.1 68103 1ej6D 418 1.89e+01 i.7.1.1 45970 1acvA 189 1.91e+01 1fvkA unknown_sccs -7428 1tib 269 1.93e+01 3tgl c.69.1.17 34738 1bh9B 89 1.94e+01 1bh9B a.22.1.3 16485 1i88A 389 2.00e+01 c.95.1.2 66070 c.95.1.2 66071 1nd6A 354 2.08e+01 c.60.1.2 80407 1nwaA 203 2.10e+01 d.58.28.1 86295 1tx4B 178 2.10e+01 1ctqA c.37.1.8 32045 1d4aA 273 2.11e+01 1d4aA c.23.5.3 31219 1skoA 143 2.13e+01 1bi5A 389 2.15e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1em2A 229 2.19e+01 1em2A d.129.3.2 41321 1mwpA 96 2.19e+01 1mwpA d.170.2.1 42453 1jy2P 48 2.21e+01 h.1.8.1 67442 1uc2A 481 2.28e+01 unknown_sccs -11725 1uc8A 280 2.29e+01 unknown_sccs -6718 unknown_sccs -11230 1bgp 309 2.30e+01 1bgp a.93.1.1 18690 1i36A 264 2.31e+01 a.100.1.8 71108 c.2.1.6 71109 1euvB 86 2.32e+01 1a5r d.15.1.1 37598 1owfA 99 2.33e+01 a.55.1.1 87487 1vfyA 73 2.37e+01 1vfyA g.50.1.1 45357 1q45A 391 2.42e+01 c.1.4.1 -5199 1rhcA 330 2.42e+01 c.1.16.3 -5606 1hh8A 213 2.48e+01 1e96B a.118.8.1 61042 1j9yA 385 2.50e+01 1j9yA c.1.8.3 62791 1h6kA 757 2.53e+01 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1icxA 155 2.55e+01 d.129.3.1 71191 1i45A 248 2.56e+01 1amk c.1.1.1 61665 1f0iA 504 2.56e+01 1f0iA d.136.1.2 59566 d.136.1.2 59567 1b8aA 438 2.58e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1b9mA 265 2.58e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1grx 85 2.61e+01 1kte c.47.1.1 32766 1dkuA 317 2.66e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1q4uA 151 2.66e+01 d.38.1.5 -9701 1lehA 364 2.67e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1v0wA 506 2.68e+01 1kafA 108 2.68e+01 d.199.1.1 68372 1neyA 247 2.70e+01 c.1.1.1 80449 1l3iA 192 2.71e+01 c.66.1.22 77676 1enp 312 2.77e+01 1enp c.2.1.2 29906 1ci3M 249 2.86e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1qhxA 178 2.86e+01 1qhsA c.37.1.3 31936 1rpa 342 2.88e+01 1cviA c.60.1.2 33983 1rwiA 270 2.94e+01 unknown_sccs -4603 1ubkS 267 3.05e+01 e.19.1.1 88423 1kl7A 514 3.12e+01 c.79.1.1 72678 1xsoA 150 3.19e+01 1mfmA b.1.8.1 22273 1ngr 85 3.22e+01 1ngr a.77.1.2 18422 1h8lA 380 3.29e+01 b.3.2.1 65737 c.56.5.1 65738 1dzfA 215 3.31e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 1uwwA 191 3.33e+01 1o7eA 276 3.37e+01 e.3.1.1 -11766 1h7eA 245 3.37e+01 c.68.1.13 60717 1dfoA 417 3.38e+01 1bj4A c.67.1.4 34480 1kgyA 181 3.38e+01 b.18.1.4 72449 1nukA 183 3.46e+01 1nukA b.18.1.4 23721 1repC 251 3.52e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1c3pA 375 3.53e+01 1c3pA c.42.1.2 32606 1f83A 425 3.56e+01 1f82A d.92.1.7 40306 1o0yA 260 3.57e+01 c.1.10.1 80756 1frb 315 3.58e+01 1frb c.1.7.1 28665 1qwkA 317 3.61e+01 c.1.7.1 -5237 1seiA 130 3.67e+01 1seiA d.140.1.1 41463 1mkaA 171 3.72e+01 1mkaA d.38.1.2 38543 1udxA 416 3.72e+01 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1qj5A 429 3.74e+01 1dtyA c.67.1.4 34493 1gwuA 309 3.76e+01 a.93.1.1 83351 1sh0A 510 3.82e+01 e.8.1.4 -11949 7atjA 308 3.85e+01 1bgp a.93.1.1 18673 1oapA 109 3.86e+01 unknown_sccs -10428 1k0mA 241 3.87e+01 a.45.1.1 67949 c.47.1.5 67950 1jy2O 56 3.88e+01 h.1.8.1 67441 1jae 471 3.91e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1nu0A 138 3.94e+01 unknown_sccs -7658