# 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 2pfkA 320 7.86e-03 3pfk c.89.1.1 35577 4pfk 319 3.12e-02 3pfk c.89.1.1 35582 1jztA 246 5.15e-01 c.104.1.1 63319 1rcuA 195 5.76e-01 1qhoA 686 6.75e-01 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1eiwA 111 1.03e+00 1eiwA c.23.3.1 31130 1qhdA 398 1.12e+00 1qhdA a.115.1.2 63324 b.19.1.1 63325 1afwA 393 1.21e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1kq3A 376 1.61e+00 e.22.1.2 68790 1ju2A 536 1.69e+00 c.3.1.2 77169 d.16.1.1 77170 1jl3A 139 1.77e+00 c.44.1.1 66826 1t82A 155 1.85e+00 1l3iA 192 1.97e+00 c.66.1.22 77676 1qopB 396 1.98e+00 2tysB c.79.1.1 35270 1idk 359 2.47e+00 1qcxA b.80.1.2 28025 1j0aA 325 2.48e+00 c.79.1.1 83871 1v4vA 376 2.48e+00 1f6dA 376 2.57e+00 1f6dA c.87.1.3 35467 1ps9A 671 2.59e+00 1m0wA 491 2.73e+00 c.30.1.4 78363 d.142.1.6 78364 1kgsA 225 2.89e+00 a.4.6.1 68596 c.23.1.1 68597 1ni9A 338 2.90e+00 e.7.1.2 85739 1nofA 383 3.37e+00 1clxA 347 3.46e+00 1taxA c.1.8.3 28899 1n0lA 224 3.56e+00 b.1.11.1 79744 b.7.2.1 79745 1vjeA 166 3.61e+00 1ocxA 182 4.09e+00 b.81.1.3 86814 1bag 425 4.10e+00 1bag b.71.1.1 27720 c.1.8.1 28707 3pmgA 561 4.37e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1ui8A 638 4.49e+00 1frb 315 4.65e+00 1frb c.1.7.1 28665 1trb 320 4.71e+00 1trb c.3.1.5 30529 c.3.1.5 30530 1edzA 320 4.77e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1i1kA 309 4.77e+00 1daaA e.17.1.1 61533 1h0hB 214 4.95e+00 d.58.1.5 76437 1cl8A 276 5.42e+00 1ckqA c.52.1.1 33230 1o0wA 252 5.46e+00 a.149.1.1 80751 d.50.1.1 80752 1l0sA 90 6.06e+00 b.81.2.1 73408 1pkp 150 6.09e+00 1pkp d.14.1.1 37551 d.50.1.2 38787 1hv9A 456 6.23e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1pwhA 327 6.24e+00 1giqA 413 6.85e+00 d.166.1.1 76224 d.166.1.1 76225 1iqyA 638 7.24e+00 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1ou0A 207 7.57e+00 1cbs 137 7.63e+00 1hmt b.60.1.2 27201 1crb 134 7.92e+00 1hmt b.60.1.2 27220 1oz9A 150 7.95e+00 1b6rA 355 8.03e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1j1yA 136 8.56e+00 1vi1A 345 8.73e+00 1kmvA 186 8.76e+00 c.71.1.1 72757 1avk 638 8.78e+00 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1cuk 203 8.90e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1kdgA 546 8.96e+00 c.3.1.2 77337 d.16.1.1 77338 1innA 166 9.98e+00 1j98A d.185.1.2 62608 1iyeA 309 9.98e+00 e.17.1.1 83786 1a04A 215 1.01e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1poxA 585 1.04e+01 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1lv7A 257 1.05e+01 c.37.1.20 78232 1pamA 686 1.05e+01 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1xbrA 184 1.06e+01 1xbrA b.2.5.4 22458 1kshB 152 1.07e+01 b.1.18.8 72915 1gt91 357 1.08e+01 1uqxA 113 1.14e+01 1g97A 459 1.21e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1vjjA 692 1.33e+01 1p5jA 372 1.34e+01 1qpxA 218 1.36e+01 1qpxA b.1.11.1 22318 b.7.2.1 23200 1ig3A 263 1.41e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1gal 583 1.44e+01 1gpeA c.3.1.2 30386 d.16.1.1 37950 1i24A 404 1.45e+01 c.2.1.2 83663 1ofuA 320 1.47e+01 c.32.1.1 86972 d.79.2.1 86973 1nvpD 108 1.49e+01 1m2dA 110 1.49e+01 c.47.1.11 78476 3psg 370 1.49e+01 1smrA b.50.1.2 26841 1ktjA 129 1.54e+01 b.1.18.7 72974 1mr7A 209 1.54e+01 1ngvA 534 1.55e+01 c.111.1.2 85698 1jo0A 98 1.56e+01 d.68.4.1 77140 1oi7A 288 1.56e+01 c.2.1.8 87049 c.23.4.1 87050 1lk5A 229 1.63e+01 c.35.1.2 73960 d.58.40.1 73961 1inlA 296 1.69e+01 c.66.1.17 66220 1kafA 108 1.70e+01 d.199.1.1 68372 1fs5A 266 1.70e+01 c.35.1.1 65044 1mkaA 171 1.71e+01 1mkaA d.38.1.2 38543 1vddA 228 1.71e+01 1hm9A 468 1.76e+01 b.81.1.4 65866 c.68.1.5 65867 1j5yA 187 1.77e+01 a.4.5.1 71592 d.94.2.1 71593 1dcfA 136 1.78e+01 1dcfA c.23.1.2 31124 1oxcA 114 1.80e+01 1js8A 394 1.81e+01 a.86.1.1 67219 b.112.1.1 67220 1qrrA 394 1.82e+01 1qrrA c.2.1.2 29824 1ul7A 102 1.83e+01 1o6aA 96 1.83e+01 1i7qB 193 1.85e+01 1qdlB c.23.16.1 61902 1oivA 191 1.87e+01 3il8 72 1.87e+01 1tvxA d.9.1.1 37356 1v7rA 186 1.87e+01 1es7B 89 1.88e+01 1es7B g.7.1.3 44465 1ri5A 298 1.88e+01 1kk1A 410 1.88e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1p77A 272 1.89e+01 1ujnA 348 1.89e+01 2cuaA 135 1.94e+01 2cuaA b.6.1.2 23039 1dgyA 363 1.97e+01 1bx4A 1je6A 275 1.98e+01 b.1.1.2 71638 d.19.1.1 71639 1liiA 363 1.98e+01 c.72.1.1 73921 1ooeA 236 1.99e+01 c.2.1.2 87196 1sfp 114 2.01e+01 1sfp b.23.1.1 23895 1uvqB 198 2.01e+01 1qyaA 307 2.02e+01 1pswA 348 2.06e+01 c.87.1.7 88287 1i1nA 226 2.12e+01 c.66.1.7 71102 1thjA 214 2.13e+01 1qreA b.81.1.5 28072 1aqm 453 2.14e+01 1smd b.71.1.1 27717 c.1.8.1 28704 1n82A 331 2.15e+01 1ru8A 232 2.20e+01 1hmt 132 2.20e+01 1hmt b.60.1.2 27169 1r3eA 309 2.22e+01 1qw2A 102 2.25e+01 1lcl 142 2.25e+01 1lcl b.29.1.3 24216 1g94A 448 2.27e+01 b.71.1.1 65169 c.1.8.1 65170 1rewC 135 2.29e+01 1fqtA 112 2.30e+01 1fqtA b.33.1.1 24441 1g291 372 2.32e+01 1g291 1f37A 110 2.37e+01 1f37A c.47.1.11 33088 1iirA 415 2.40e+01 1iirA c.87.1.5 62453 1at3A 247 2.43e+01 1at3A b.57.1.1 27021 1of8A 370 2.48e+01 1g24A 211 2.50e+01 1g24A d.166.1.1 42270 1plzA 189 2.52e+01 b.82.1.7 88160 1ilr1 152 2.58e+01 1irp 1v1aA 309 2.60e+01 1g2iA 166 2.61e+01 1g2iA c.23.16.2 31438 1d3gA 367 2.63e+01 1d3gA c.1.4.1 28600 1hdkA 141 2.63e+01 b.29.1.3 65807 1pg6A 243 2.63e+01 1rj8A 164 2.64e+01 1wab 232 2.66e+01 1wab c.23.10.3 31341 1jae 471 2.67e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1lwjA 441 2.72e+01 b.71.1.1 74303 c.1.8.1 74304 1ypcI 64 2.72e+01 2sniI d.40.1.1 38570 2hgsA 474 2.73e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1o20A 427 2.78e+01 c.82.1.1 86556 1khdA 345 2.80e+01 a.46.2.1 77400 c.27.1.1 77401 1gp1A 198 2.80e+01 1gp1A c.47.1.10 33059 1eq9A 222 2.80e+01 5ptp b.47.1.2 26068 1dqwA 267 2.83e+01 1dqwA c.1.2.3 28551 1a9xA 1058 2.84e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1srrA 124 2.85e+01 1dz3A c.23.1.1 31110 2polA 366 2.85e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1jf8A 131 2.86e+01 c.44.1.1 66621 1kpgA 287 2.88e+01 c.66.1.18 68735 1ogpA 393 2.91e+01 1fyeA 229 2.91e+01 1fyeA c.23.16.4 31477 1o88A 353 2.91e+01 b.80.1.1 81178 1ddjA 247 2.94e+01 5ptp b.47.1.2 26362 2plc 274 2.95e+01 2plc c.1.18.2 29614 1ivnA 190 2.96e+01 c.23.10.5 83719 1qxrA 189 3.00e+01 1mdbA 539 3.01e+01 e.23.1.1 79008 1s0uA 408 3.01e+01 1qzzA 374 3.02e+01 1fc1A 224 3.02e+01 1igtB b.1.1.2 21520 b.1.1.2 21521 1uirA 314 3.04e+01 1nh0A 99 3.08e+01 1iy8A 267 3.13e+01 c.2.1.2 83774 1lfkA 398 3.16e+01 a.104.1.1 77926 1hdmB 193 3.19e+01 1hdmB b.1.1.2 21584 d.19.1.1 38158 1iz0A 302 3.20e+01 b.35.1.2 83821 c.2.1.1 83822 1lw6I 64 3.20e+01 d.40.1.1 74294 1lqvA 193 3.29e+01 d.19.1.1 74206 1gsoA 431 3.37e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1qcxA 359 3.38e+01 1qcxA b.80.1.2 28028 1jenA 267 3.40e+01 1jenA 1uhvA 500 3.41e+01 1b5tA 275 3.44e+01 1b5tA c.1.23.1 29676 1sdjA 310 3.45e+01 1o7iA 119 3.48e+01 b.40.4.3 86642 1es9A 232 3.49e+01 1wab c.23.10.3 31340 1qreA 247 3.49e+01 1qreA b.81.1.5 28066 1php 394 3.58e+01 16pk c.86.1.1 35452 1chuA 540 3.58e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1ihoA 283 3.59e+01 1ihoA c.26.1.4 62390 1c8uA 285 3.61e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1air 353 3.63e+01 1air b.80.1.1 28018 1bywA 110 3.65e+01 1bywA d.110.3.6 40912 1mc0A 368 3.66e+01 d.110.2.1 78937 d.110.2.1 78938 1f2vA 219 3.76e+01 1f2vA c.23.17.1 59627 1jayA 212 3.82e+01 c.2.1.6 66478 1gdeA 389 3.84e+01 c.67.1.1 60456 1gg6C 97 3.87e+01 5ptp 1bec 238 3.90e+01 1bec b.1.1.1 20627 b.1.1.2 21561 1o5iA 249 3.91e+01 1k7iA 479 3.93e+01 b.79.1.1 77281 d.92.1.6 77282 1ef8A 261 3.99e+01 1ef8A c.14.1.3 30921