# List of top-scoring protein chains for t04-100-30-str2 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 1j58A 385 8.50e-04 b.82.1.2 71531 8acn 754 5.96e-02 1amj c.8.2.1 30724 c.83.1.1 35400 1c96A 753 1.01e-01 1amj c.8.2.1 30727 c.83.1.1 35403 1ep0A 185 1.05e-01 1dzrA b.82.1.1 28080 1juhA 350 1.89e-01 b.82.1.5 71884 1jlyA 304 1.91e-01 1jlyA b.42.3.1 25587 b.42.3.1 25588 1iscA 192 3.22e-01 1avmA a.2.11.1 15733 d.44.1.1 38726 1fpzA 212 3.28e-01 1fpzA c.45.1.1 59976 1plzA 189 3.40e-01 b.82.1.7 88160 1nnjA 271 3.60e-01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1pjjA 271 3.75e-01 2pia 321 4.97e-01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1qxrA 189 5.03e-01 1bkb 136 5.50e-01 1bkb b.34.5.2 24609 b.40.4.5 25341 1j1tA 233 6.60e-01 1khiA 176 8.12e-01 b.34.5.2 77408 b.40.4.5 77409 1fw9A 164 1.04e+00 1fw9A d.190.1.1 60059 1miuA 738 1.10e+00 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 1itwA 741 1.50e+00 c.77.1.2 76793 1ofnA 205 1.58e+00 1oo2A 119 1.62e+00 1gpr 162 1.67e+00 1gpr b.84.3.1 28267 1c8uA 285 1.80e+00 1c8uA d.38.1.3 38547 d.38.1.3 38548 1dgwY 93 1.95e+00 1caxB 1oi6A 205 1.98e+00 1dyoA 160 1.98e+00 1dyoA b.18.1.7 23771 1bec 238 2.02e+00 1bec b.1.1.1 20627 b.1.1.2 21561 1j7xA 302 2.26e+00 c.14.1.2 66425 1rcy 151 2.28e+00 1rcy b.6.1.1 23018 1f2tB 148 2.28e+00 1f2tB 1e30A 155 2.58e+00 1rcy b.6.1.1 23016 2phlA 397 2.59e+00 1dgwA b.82.1.2 28082 b.82.1.2 28083 1nif 340 2.64e+00 1nif b.6.1.3 23048 b.6.1.3 23049 1m8uA 173 2.70e+00 1lox 662 2.73e+00 1lox a.119.1.2 19238 b.12.1.1 23638 1aun 208 2.87e+00 1thv b.25.1.1 23900 1m1zA 513 2.93e+00 c.26.2.1 78457 d.153.1.1 78458 1mngA 203 3.05e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1mu5A 471 3.25e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1ojqA 212 3.74e+00 1v04A 355 3.77e+00 1ogsA 497 3.87e+00 b.71.1.2 86997 c.1.8.3 86998 1quqA 129 4.10e+00 1quqA b.40.4.3 25303 1itg 166 4.30e+00 1b9dA c.55.3.2 33661 1aw8B 91 4.31e+00 1aw8B 1j9qA 341 4.33e+00 1nif b.6.1.3 62765 b.6.1.3 62766 1phm 310 4.41e+00 1phm b.121.1.2 59015 b.121.1.2 59016 1sdwA 314 4.46e+00 2eifA 136 4.53e+00 1bkb b.34.5.2 24607 b.40.4.5 25339 1hyvA 166 4.58e+00 1b9dA c.55.3.2 61424 1k07A 263 4.69e+00 d.157.1.1 77218 1kbvA 327 4.93e+00 b.6.1.3 68395 b.6.1.3 68396 1rqwA 207 4.97e+00 1c8zA 265 5.02e+00 1c8zA d.23.1.1 38375 1pjxA 314 5.06e+00 1e1aA 314 5.13e+00 1e1aA b.68.6.1 59155 1bl3A 160 5.24e+00 1b9dA c.55.3.2 33655 1rhfA 182 5.38e+00 1thv 207 5.49e+00 1thv b.25.1.1 23904 1kwnA 207 5.55e+00 b.25.1.1 77568 1qnnA 191 5.89e+00 1avmA a.2.11.1 15792 d.44.1.1 38755 1fi4A 416 5.95e+00 1fi4A d.14.1.5 59847 d.58.26.2 59848 1nxmA 197 5.98e+00 b.82.1.1 86385 1gv3A 248 6.10e+00 a.2.11.1 70585 d.44.1.1 70586 1jofA 365 6.11e+00 b.69.10.1 71775 1m6kA 251 6.51e+00 e.3.1.1 78695 1tvdA 116 6.72e+00 1tvdA b.1.1.1 20650 1bkzA 135 7.63e+00 1a3k b.29.1.3 24202 1aerA 205 7.73e+00 1aerA d.166.1.1 42249 3pvaA 335 7.96e+00 3pvaA d.153.1.3 41854 1f39A 101 7.98e+00 1umuA b.87.1.1 28386 1evhA 112 8.13e+00 1evhA b.55.1.4 26997 1pm3A 78 8.35e+00 1e9gA 286 8.42e+00 1wgjA b.40.5.1 59393 1uesA 191 8.49e+00 1h4rA 314 8.86e+00 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1a7tA 232 8.87e+00 1a7tA d.157.1.1 42041 1jmcA 246 8.89e+00 1jmcA b.40.4.3 25300 b.40.4.3 25301 1exqA 154 8.92e+00 1b9dA c.55.3.2 33646 1aboA 62 9.04e+00 1bbzA b.34.2.1 24474 1bbzA 58 9.04e+00 1bbzA b.34.2.1 24477 1lrzA 426 9.07e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1tuc 63 9.13e+00 1tuc b.34.2.1 24492 1qqp2 218 9.28e+00 1qqp2 1bhdA 118 9.30e+00 1bkrA a.40.1.1 17398 1eg9A 449 9.62e+00 1ndoA b.33.1.2 24443 d.129.3.3 41322 1dgwA 178 9.74e+00 1dgwA b.82.1.2 28090 1jb0D 138 9.74e+00 1jb0D d.187.1.1 62823 1o7nA 449 9.78e+00 b.33.1.2 81162 d.129.3.3 81163 2pvaA 345 9.87e+00 3pvaA d.153.1.3 41850 1iz6A 138 9.89e+00 b.34.5.2 76976 b.40.4.5 76977 1ri6A 343 1.03e+01 1ygs 234 1.07e+01 1ygs b.26.1.1 23907 1ef1A 294 1.10e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1q1fA 151 1.11e+01 1e43A 483 1.16e+01 1bli b.71.1.1 59217 c.1.8.1 59218 1g1cA 99 1.17e+01 b.1.1.4 65078 1pqhA 143 1.17e+01 1rl2A 137 1.22e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1pbyB 337 1.22e+01 1fxkC 133 1.23e+01 1fxkC a.2.5.1 15702 1ibyA 112 1.23e+01 1ibzA b.6.1.4 62233 1ew0A 130 1.23e+01 1drmA d.110.3.2 40905 1ql0A 241 1.31e+01 1qaeA d.4.1.2 37139 1eybA 471 1.35e+01 1ey2A b.82.1.4 28115 1bdmA 327 1.42e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1bmdA 327 1.42e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1vheA 373 1.43e+01 1khbA 625 1.46e+01 c.91.1.1 68606 c.109.1.1 68607 1n26A 325 1.50e+01 b.1.1.4 79850 b.1.2.1 79851 b.1.2.1 79852 1crzA 403 1.51e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1gutA 68 1.55e+01 b.40.6.1 65576 1qksA 567 1.57e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1hdhA 536 1.58e+01 c.76.1.2 65805 1f7dA 136 1.59e+01 1dun b.85.4.1 28353 1hvbA 349 1.59e+01 3pte e.3.1.1 42686 5croA 66 1.60e+01 1orc a.35.1.2 17044 1mplA 349 1.62e+01 e.3.1.1 79387 3pte 349 1.62e+01 3pte e.3.1.1 42687 1l0lB 439 1.63e+01 d.185.1.1 84484 d.185.1.1 84485 1mwxA 646 1.66e+01 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1jyoA 130 1.68e+01 d.198.1.1 67483 1i50A 1733 1.68e+01 e.29.1.1 61754 1qwiA 143 1.71e+01 1jdlA 121 1.71e+01 a.3.1.1 66557 1zxq 192 1.75e+01 1zxq b.1.1.3 21657 b.1.1.4 21693 1tdtA 259 1.75e+01 3tdt b.81.1.2 28055 1f83A 425 1.87e+01 1f82A d.92.1.7 40306 1kb0A 677 1.93e+01 a.3.1.6 68378 b.70.1.1 68379 1krhA 338 1.99e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1yge 839 2.01e+01 1yge a.119.1.1 19234 b.12.1.1 23634 1fyeA 229 2.03e+01 1fyeA c.23.16.4 31477 1dabA 539 2.03e+01 1dabA b.80.1.7 28049 1qr0A 228 2.04e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1sy3A 184 2.05e+01 1od5A 492 2.06e+01 b.82.1.2 86832 b.82.1.2 86833 1prxA 224 2.07e+01 1prxA c.47.1.10 33076 1cskA 71 2.12e+01 1ckaA b.34.2.1 24513 1ju3A 583 2.12e+01 b.18.1.13 67300 c.69.1.21 67301 1ng4A 390 2.13e+01 c.3.1.2 85666 d.16.1.3 85667 1h10A 125 2.18e+01 b.55.1.1 83446 3tdt 274 2.20e+01 3tdt b.81.1.2 28053 1dixA 208 2.21e+01 1bk7A d.124.1.1 41122 1ld8B 437 2.21e+01 a.102.4.3 73839 1avmA 201 2.23e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1q33A 292 2.26e+01 1jc9A 269 2.28e+01 d.171.1.1 66490 1i50F 155 2.28e+01 d.78.1.2 61760 1dp0A 1023 2.31e+01 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1ten 90 2.37e+01 1ten b.1.2.1 21990 1jz8A 1023 2.40e+01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1n0nA 199 2.42e+01 a.2.11.1 79750 d.44.1.1 79751 1ap6A 198 2.43e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1pl4A 198 2.46e+01 1q1aA 289 2.48e+01 1f86A 115 2.49e+01 1etb1 b.3.4.1 59689 1g6gA 127 2.50e+01 1g6gA b.26.1.2 23916 1rdo1 113 2.52e+01 1rtm1 1koiA 184 2.52e+01 b.60.1.1 68725 1ugxA 133 2.53e+01 1f3mA 80 2.58e+01 1f3mA j.66.1.1 46358 1jjeA 222 2.63e+01 1a7tA d.157.1.1 63117 1n9eA 787 2.64e+01 1n27A 96 2.66e+01 1bsmA 201 2.67e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1pmmA 466 2.67e+01 1i1nA 226 2.70e+01 c.66.1.7 71102 1n6aA 259 2.74e+01 b.76.2.1 80121 b.85.7.1 80122 1j1jA 240 2.84e+01 1wdcC 156 2.85e+01 1wdcC a.39.1.5 17317 1v3wA 173 2.86e+01 1oj6A 151 2.87e+01 1fna 93 2.88e+01 1fnf b.1.2.1 21971 1gheA 177 2.88e+01 d.108.1.1 76222 1q02A 52 2.89e+01 1ckmA 330 2.89e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1g4mA 393 2.93e+01 b.1.18.11 65143 b.1.18.11 65144 1b9mA 265 2.94e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1fo0B 112 2.94e+01 1kb5B b.1.1.1 20631 1kcbA 340 3.00e+01 1jl0A 334 3.16e+01 1jenA d.156.1.1 63155 1jenA 267 3.19e+01 1jenA 1pgl1 185 3.24e+01 1erxA 184 3.25e+01 1np1A b.60.1.1 27164 1gyvA 120 3.27e+01 b.1.10.2 70790 1lvoA 302 3.30e+01 b.47.1.4 74284 1c3gA 170 3.30e+01 1c3gA b.4.1.1 22831 b.4.1.1 22832 1rdj1 113 3.32e+01 1rtm1 1bag 425 3.36e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1fltX 95 3.36e+01 1fltX b.1.1.4 21765 1my6A 199 3.41e+01 a.2.11.1 85232 d.44.1.1 85233 2gar 212 3.41e+01 2gar c.65.1.1 34161 1uisA 231 3.43e+01 1svpA 161 3.54e+01 1svpA b.47.1.3 26384 1bu8A 452 3.58e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1oe8A 211 3.64e+01 a.45.1.1 86905 c.47.1.5 86906 1bjt 793 3.66e+01 1bjt e.11.1.1 43249 1gcyA 527 3.67e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1bmv1 198 3.69e+01 1bmv1 1hlgA 371 3.72e+01 1hlgA c.69.1.6 34656 1uufA 369 3.72e+01 1gw0A 559 3.73e+01 b.6.1.3 70623 b.6.1.3 70624 b.6.1.3 70625 1jdc 429 3.78e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1e5pA 151 3.78e+01 1bj7 b.60.1.1 59272 1ei5A 520 3.79e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1a68 95 3.79e+01 1t1dA d.42.1.2 38639 1hx0A 496 3.84e+01 b.71.1.1 61346 c.1.8.1 61347 1afb1 154 3.91e+01 1rtm1 1e1hA 287 3.92e+01 d.92.1.7 83167 1umuA 116 3.95e+01 1umuA b.87.1.1 28382 1lr5A 163 3.99e+01 b.82.1.2 74215