# 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 1dnlA 199 2.88e-20 1ci0A b.45.1.1 25753 1nrgA 261 1.91e-17 b.45.1.1 80694 1flmA 122 7.88e-09 1axj b.45.1.1 25747 1ejeA 192 6.25e-03 1ejeA b.45.1.2 25757 1obpA 159 3.59e-02 1obpA b.60.1.1 27092 1pvtA 238 9.86e-02 c.74.1.1 -8444 1lbvA 252 1.88e-01 e.7.1.1 73813 1ko3A 230 2.87e-01 d.157.1.1 -11454 1oa4A 222 3.06e-01 b.29.1.11 86731 1plq 258 3.26e-01 1plq d.131.1.2 41388 d.131.1.2 41389 1t5yA 190 5.19e-01 1cr5A 189 9.61e-01 1cr5A b.52.2.3 26931 d.31.1.1 38465 2nlrA 234 1.11e+00 2nlrA b.29.1.11 24344 1qrrA 394 1.27e+00 1qrrA c.2.1.2 29824 1epfA 191 1.28e+00 2ncm b.1.1.4 21694 b.1.1.4 21695 1i24A 404 1.29e+00 c.2.1.2 83663 1hn2A 159 1.47e+00 b.60.1.1 65890 1gt1A 159 1.47e+00 b.60.1.1 -4436 1vk8A 106 2.33e+00 1f52A 468 2.55e+00 1lgr d.15.9.1 37839 d.128.1.1 41169 3seb 238 2.70e+00 3seb b.40.2.2 25184 d.15.6.1 37773 1gpeA 587 2.72e+00 1gpeA c.3.1.2 30387 d.16.1.1 37951 1kutA 230 2.76e+00 d.143.1.1 73017 1kbvA 327 2.82e+00 b.6.1.3 68395 b.6.1.3 68396 1eluA 390 2.86e+00 1elqA c.67.1.3 34434 1jenA 267 2.88e+00 1jenA 1elqA 390 3.13e+00 1elqA c.67.1.3 34436 1kr4A 125 3.27e+00 d.58.5.2 72889 1nar 290 4.25e+00 1nar c.1.8.5 28988 1ng4A 390 4.31e+00 c.3.1.2 85666 d.16.1.3 85667 1i05A 180 4.34e+00 1mup b.60.1.1 27130 1k8kD 300 4.45e+00 d.198.2.1 68309 d.198.2.1 68310 1jv4A 162 4.50e+00 b.60.1.1 67343 1rz1A 161 5.05e+00 b.45.1.2 -4088 1mup 166 5.30e+00 1mup b.60.1.1 27133 1pvxA 194 5.51e+00 1axkA b.29.1.11 24341 1ekrA 161 5.51e+00 1ekrA d.58.21.1 39380 1b7yA 350 5.77e+00 1pysA d.104.1.1 40776 1i06A 180 5.94e+00 1mup b.60.1.1 27131 1gnd 447 6.17e+00 1gnd c.3.1.3 30423 d.16.1.6 37987 1qy1A 174 6.28e+00 b.60.1.1 -4445 1jkxA 212 6.28e+00 c.65.1.1 66813 1gal 583 6.31e+00 1gpeA c.3.1.2 30386 d.16.1.1 37950 1yna 194 6.87e+00 1axkA b.29.1.11 24335 1dzkA 157 7.00e+00 1obpA b.60.1.1 27096 1meoA 209 7.05e+00 c.65.1.1 79035 1v0wA 506 7.05e+00 1j58A 385 7.41e+00 b.82.1.2 71531 1i9zA 347 7.43e+00 1i9yA d.151.1.2 62102 1f0iA 504 7.45e+00 1f0iA d.136.1.2 59566 d.136.1.2 59567 1aszB 490 7.65e+00 1b8aA b.40.4.1 25241 d.104.1.1 40762 1efyA 350 8.40e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1i50K 120 8.76e+00 d.74.3.2 61765 1pysA 350 8.93e+00 1pysA d.104.1.1 40775 1aisA 182 9.02e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1rypK 198 9.13e+00 d.153.1.4 41879 1agqA 135 9.52e+00 1agqA g.17.1.2 44789 1nif 340 9.65e+00 1nif b.6.1.3 23048 b.6.1.3 23049 1go3E 187 9.70e+00 b.40.4.5 83054 d.230.1.1 83055 1pg4A 652 9.78e+00 e.23.1.1 88067 1f5jA 199 9.82e+00 1axkA b.29.1.11 24342 1rypJ 204 1.02e+01 d.153.1.4 41878 1hfoA 113 1.03e+01 d.80.1.3 61006 1kcbA 340 1.04e+01 b.6.1.3 -2950 b.6.1.3 -2951 1cruA 454 1.13e+01 1c9uA b.68.2.1 27617 1lxnA 99 1.14e+01 d.58.48.1 84737 1d2eA 397 1.22e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1vgyA 393 1.23e+01 c.56.5.4 -7882 d.58.19.1 -10106 1g1cA 99 1.24e+01 b.1.1.4 65078 1plc 99 1.29e+01 1plc b.6.1.1 22846 1kpf 126 1.33e+01 1kpf d.13.1.1 37507 1ri6A 343 1.40e+01 unknown_sccs -4621 1n13B 113 1.40e+01 1garA 212 1.42e+01 2gar c.65.1.1 34162 1bj7 156 1.43e+01 1bj7 b.60.1.1 27113 1a34A 159 1.43e+01 1a34A b.121.7.1 23286 2gar 212 1.45e+01 2gar c.65.1.1 34161 1l0qA 391 1.47e+01 b.1.3.1 77644 b.69.2.3 77645 1j5wA 298 1.48e+01 d.104.1.1 71589 1jyoA 130 1.49e+01 d.198.1.1 67483 1b8aA 438 1.49e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1nqeA 594 1.49e+01 f.4.3.3 86027 1ufyA 122 1.50e+01 d.79.1.2 88489 1ub9A 100 1.59e+01 a.4.5.28 -231 1lci 550 1.60e+01 1lci e.23.1.1 43349 1viaA 175 1.64e+01 c.37.1.2 -7021 1uf2C 421 1.68e+01 unknown_sccs -1522 b.19.1.1 -3155 1igwA 434 1.74e+01 c.1.12.7 62370 1kpeA 126 1.74e+01 1kpf d.13.1.1 37508 1ry6A 360 1.76e+01 c.37.1.9 -7111 1g291 372 1.86e+01 1g291 1k3eA 156 1.86e+01 d.198.1.1 68103 1d5tA 433 1.86e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1l3iA 192 1.87e+01 c.66.1.22 77676 1aqcA 172 1.88e+01 1x11A b.55.1.2 26983 1o98A 511 1.89e+01 c.105.1.1 86684 c.76.1.3 86685 1ni9A 338 2.03e+01 e.7.1.2 85739 1nulA 152 2.08e+01 1nulA c.61.1.1 34011 1eqjA 511 2.11e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1mkmA 249 2.13e+01 a.4.5.33 79242 d.110.2.2 79243 1hyhA 309 2.17e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1eur 365 2.19e+01 1eut b.68.1.1 27607 1r0wA 286 2.21e+01 c.37.1.12 -7158 1lq9A 112 2.21e+01 d.58.4.3 78129 1k07A 263 2.27e+01 d.157.1.1 77218 1nnxA 109 2.27e+01 unknown_sccs -3899 1mhnA 59 2.27e+01 b.34.9.1 84964 1cqkA 101 2.29e+01 1cqkA b.1.1.2 21547 1fhgA 154 2.36e+01 1tlk b.1.1.4 21706 1ut7A 171 2.37e+01 unknown_sccs -4724 1apmE 350 2.46e+01 1cdkA d.144.1.7 41628 1h2wA 710 2.47e+01 b.69.7.1 76596 c.69.1.4 76597 1k32A 1045 2.48e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1fcdA 401 2.53e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1ct9A 553 2.54e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1gvp 87 2.62e+01 1gvp b.40.4.7 25369 1vqb 87 2.62e+01 1gvp b.40.4.7 25370 1kkcA 221 2.63e+01 a.2.11.1 68660 d.44.1.1 68661 1psdA 409 2.71e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1p4uA 153 2.72e+01 b.1.10.2 87780 1n8jA 186 2.73e+01 c.47.1.10 85401 1j9lA 247 2.76e+01 c.106.1.1 62762 1quqB 121 2.77e+01 1quqB b.40.4.3 25305 1h7zA 194 2.80e+01 1qhvA b.21.1.1 60733 1pda 315 2.82e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1jb0D 138 2.87e+01 1jb0D d.187.1.1 62823 1ntvA 152 2.92e+01 b.55.1.2 86168 1b4bA 71 2.94e+01 1b4aA d.74.2.1 39718 1us5A 314 2.95e+01 c.94.1.1 -8686 1lf7A 182 3.02e+01 b.60.1.1 73878 1g7sA 594 3.03e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1bjt 793 3.10e+01 1bjt e.11.1.1 43249 1fsz 372 3.11e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1v2dA 381 3.13e+01 1ue1A 164 3.14e+01 b.40.4.3 -3905 1g5cA 170 3.14e+01 1g5cA c.53.2.1 60264 1iu8A 206 3.19e+01 c.56.4.1 71436 1lnwA 147 3.23e+01 a.4.5.28 78104 1ag6 99 3.23e+01 1plc b.6.1.1 22857 1uwcA 261 3.23e+01 c.69.1.17 -8352 1fc1A 224 3.24e+01 1igtB b.1.1.2 21520 b.1.1.2 21521 1at0 145 3.29e+01 1at0 b.86.1.1 28374 1rwzA 245 3.33e+01 d.131.1.2 -11106 d.131.1.2 -11107 1p57B 255 3.36e+01 b.47.1.2 -4248 1qyaA 307 3.37e+01 1kwgA 645 3.53e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1vhh 162 3.53e+01 1vhh d.65.1.2 39550 1pne 140 3.67e+01 1pne d.110.1.1 40866 1f2aA 215 3.82e+01 1cs8A d.3.1.1 37040 1vhzA 198 3.91e+01 d.113.1.1 -10897