# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1rec 201 1.24e-01 1rec a.39.1.5 17326 1llp 343 1.30e-01 1arv a.93.1.1 18578 2e2c 156 2.07e-01 1u9aA d.20.1.1 38336 1qpaA 345 2.75e-01 1arv a.93.1.1 18585 1dguA 183 2.90e-01 1dguA a.39.1.5 17333 2pth 193 3.27e-01 2pth c.56.3.1 33793 1i88A 389 3.72e-01 c.95.1.2 66070 c.95.1.2 66071 1esmA 316 5.02e-01 1esmA c.37.1.6 31953 1fchA 368 6.47e-01 1fchA a.118.8.1 19212 1kk1A 410 8.89e-01 1i86A 389 1.01e+00 c.95.1.2 66068 c.95.1.2 66069 1i1rB 181 1.08e+00 1i1rB a.26.1.1 61548 1aisA 182 1.20e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1gpuA 680 1.24e+00 c.36.1.2 65454 c.36.1.2 65455 c.48.1.1 65456 1sfe 180 1.63e+00 1sfe a.4.2.1 16073 c.55.7.1 33748 1cot 129 1.64e+00 1ycc a.3.1.1 15899 1qopB 396 1.90e+00 2tysB c.79.1.1 35270 1c7sA 858 2.16e+00 1qba b.1.1.5 21812 b.2.2.3 22408 c.1.8.6 29011 d.92.2.1 40410 1qba 858 2.20e+00 1qba b.1.1.5 21810 b.2.2.3 22406 c.1.8.6 29009 d.92.2.1 40408 4blmA 265 2.38e+00 1btl e.3.1.1 42721 1i7kA 179 2.45e+00 1u9aA d.20.1.1 61889 1bi5A 389 2.81e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1it2A 146 2.83e+00 a.1.1.2 66365 1jj2I 145 3.50e+00 1ffkG c.21.1.1 63094 1dkqA 410 4.05e+00 1dklA c.60.1.3 33998 1trkA 680 4.33e+00 1trkA c.36.1.2 31803 c.36.1.2 31804 c.48.1.1 33090 1bykA 255 4.34e+00 1bykA c.93.1.1 35706 1iba 101 4.35e+00 1iba d.95.1.1 40567 1bksB 397 4.55e+00 2tysB c.79.1.1 35285 1tkaA 678 4.56e+00 1trkA c.36.1.2 31815 c.36.1.2 31816 c.48.1.1 33096 6pfkA 319 4.60e+00 3pfk c.89.1.1 35583 2tysB 397 4.62e+00 2tysB c.79.1.1 35272 1ppo 216 4.66e+00 1cs8A d.3.1.1 37020 1qusA 322 5.29e+00 1ltm d.2.1.6 36991 1ltm 320 5.33e+00 1ltm d.2.1.6 36992 1aps 98 6.09e+00 2acy d.58.10.1 39299 1b71A 191 6.10e+00 1ryt a.25.1.1 16647 g.41.5.1 45246 1dvbA 191 6.28e+00 1ryt a.25.1.1 16645 g.41.5.1 45244 2wsyB 396 6.65e+00 2tysB c.79.1.1 35288 1b7fA 168 7.11e+00 1b7fA d.58.7.1 39169 d.58.7.1 39170 1sxl 97 7.35e+00 1b7fA d.58.7.1 39180 1dklA 410 7.41e+00 1dklA c.60.1.3 33996 1mai 131 7.67e+00 1mai b.55.1.1 26951 1gkuB 1054 7.98e+00 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1fukA 165 8.42e+00 1fukA c.37.1.13 32409 1bgp 309 8.60e+00 1bgp a.93.1.1 18690 1pvaA 110 8.74e+00 1a75A a.39.1.4 17207 1fa8A 135 8.80e+00 1qipA d.32.1.1 38486 1fxlA 167 8.86e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1hmpA 217 9.15e+00 1qk3A c.61.1.1 34075 1d6mA 653 9.25e+00 1d6mA e.10.1.1 43248 1jrjA 39 9.44e+00 j.6.1.1 67135 1qgeE 97 1.06e+01 1cvl 1qfxA 460 1.10e+01 1qfxA c.60.1.3 33994 1cy9A 264 1.12e+01 1ecl e.10.1.1 43236 1eikA 77 1.13e+01 1eikA d.78.1.1 39751 1qhhC 115 1.14e+01 1pjr 1e85A 127 1.21e+01 1bbhA a.24.3.2 16549 1mn1 357 1.22e+01 1arv a.93.1.1 18667 1f9zA 135 1.23e+01 1qipA d.32.1.1 38484 1fjcA 96 1.24e+01 1fjcA d.58.7.1 39212 1btkA 169 1.24e+01 1btkA b.55.1.1 26959 1ji8A 111 1.29e+01 d.203.1.1 66733 1kktA 511 1.30e+01 a.102.2.1 68687 1opd 85 1.37e+01 1ptf d.94.1.1 40560 1ecfB 504 1.47e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1ecfA 504 1.49e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1cll 148 1.49e+01 1cll a.39.1.5 17263 3pfk 319 1.49e+01 3pfk c.89.1.1 35581 1gc5A 467 1.54e+01 1gc5A c.72.1.3 60429 1i2sA 282 1.56e+01 1btkB 169 1.56e+01 1btkA b.55.1.1 26960 4pfk 319 1.57e+01 3pfk c.89.1.1 35582 3cln 148 1.59e+01 1cll a.39.1.5 17286 1jj2E 177 1.63e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1b3jA 274 1.66e+01 1agdA b.1.1.2 20855 d.19.1.1 38319 1ftrA 296 1.71e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1kqfB 294 1.80e+01 2leu 37 1.84e+01 2leu j.3.1.1 46068 1bkcA 255 1.84e+01 1bkcA d.92.1.10 40331 1jmsA 381 1.86e+01 a.60.6.1 66889 e.9.1.1 66890 1h6qA 168 1.89e+01 1h6qA b.88.1.2 60692 1aipE 405 1.90e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1ivyA 452 1.95e+01 1ivyA c.69.1.5 34654 1ifa 158 1.97e+01 1ifa a.26.1.3 16892 1ryt 190 1.99e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 6ldh 330 2.04e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1bcfA 158 2.04e+01 1bcfA a.25.1.1 16648 1ggzA 148 2.06e+01 1lrv 244 2.10e+01 1lrv a.118.1.5 19146 1e6iA 121 2.12e+01 1b91A a.29.2.1 16969 1go3F 107 2.14e+01 a.60.8.2 65407 2sas 185 2.20e+01 2sas a.39.1.5 17258 3pvaA 335 2.26e+01 3pvaA d.153.1.3 41854 1hd8A 363 2.28e+01 b.105.1.1 65803 e.3.1.1 65804 1bt3A 345 2.29e+01 1bt3A a.86.1.2 18507 1kte 105 2.29e+01 1kte c.47.1.1 32771 1spgA 144 2.29e+01 1abwA a.1.1.2 15409 2fmr 65 2.31e+01 2fmr d.51.1.1 38808 1qhoA 686 2.32e+01 1cxlA b.1.1.5 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 5pal 109 2.34e+01 1a75A a.39.1.4 17215 1vom 762 2.36e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1prxA 224 2.36e+01 1prxA c.47.1.10 33076 1g5aA 628 2.39e+01 b.71.1.1 65152 c.1.8.1 65153 1poh 85 2.39e+01 1ptf d.94.1.1 40553 1lvk 762 2.43e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1bkcE 256 2.43e+01 1bkcA d.92.1.10 40333 1qh8B 519 2.45e+01 1qguB c.92.2.3 35634 1pba 81 2.47e+01 1pytA d.58.3.1 39067 3minB 522 2.49e+01 1qguB c.92.2.3 35606 1gh9A 71 2.51e+01 1gh9A g.41.6.1 45266 1hr6B 443 2.54e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 2bpa1 426 2.56e+01 2bpa1 2minB 522 2.60e+01 1qguB c.92.2.3 35610 1eg3A 261 2.64e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1pioA 257 2.65e+01 1btl e.3.1.1 42719 1tlfA 301 2.69e+01 1tlfA c.93.1.1 35687 1qqgA 264 2.69e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1fqvA 336 2.76e+01 1fqvA a.122.1.1 19254 c.10.1.3 30856 1ffk1 177 2.81e+01 1ffk1 1epaA 164 2.84e+01 1epaA b.60.1.1 27128 1cfr 285 2.86e+01 1cfr c.52.1.7 33312 1cxc 124 2.87e+01 1ycc a.3.1.1 15890 1e5xA 486 2.89e+01 c.79.1.1 59283 1ekrA 161 2.90e+01 1ekrA d.58.21.1 39380 1bzyA 217 2.91e+01 1qk3A c.61.1.1 34071 1eh8A 207 2.93e+01 1sfe a.4.2.1 16077 c.55.7.1 33752 1epbA 164 2.98e+01 1epaA b.60.1.1 27126 1ii7A 333 3.04e+01 1ii7A d.159.1.4 62415 1lylA 504 3.04e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 2cxbA 124 3.14e+01 1ycc a.3.1.1 15891 1eh7A 207 3.15e+01 1sfe a.4.2.1 16075 c.55.7.1 33750 1srrA 124 3.15e+01 1dz3A c.23.1.1 31110 1mml 265 3.19e+01 1mml e.8.1.2 43015 1tag 324 3.20e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1qntA 176 3.25e+01 1sfe a.4.2.1 16074 c.55.7.1 33749 1lqvC 33 3.43e+01 1frvB 536 3.44e+01 1h2rL e.18.1.1 43296 1mnd 762 3.45e+01 1lvk b.34.3.1 24591 c.37.1.9 32188 1btn 106 3.49e+01 1btn b.55.1.1 26952 2gcc 70 3.53e+01 2gcc d.10.1.2 37484 1tadA 324 3.56e+01 1cipA a.66.1.1 18194 c.37.1.8 32077 1j9lA 247 3.56e+01 c.106.1.1 62762 1auiB 169 3.58e+01 1auiB a.39.1.5 17325 1i50B 1224 3.58e+01 e.29.1.2 61755 1j9jA 247 3.58e+01 c.106.1.1 62758 3chy 128 3.64e+01 3chy c.23.1.1 31038 1qguB 519 3.66e+01 1qguB c.92.2.3 35626 1hx0A 496 3.66e+01 b.71.1.1 61346 c.1.8.1 61347 1glm 470 3.66e+01 1ayx a.102.1.1 18821 1irdB 146 3.67e+01 a.1.1.2 66287 3blm 257 3.74e+01 1btl e.3.1.1 42709 1qapA 296 3.77e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 1ycqA 107 3.78e+01 1ycqA a.42.1.1 17419 1cznA 169 3.87e+01 1rcf c.23.5.1 31181 1qhhA 167 3.87e+01 1pjr c.37.1.13 32393 1alq 266 3.90e+01 1btl e.3.1.1 42707 1hgeB 175 3.91e+01 1hgeB h.3.1.1 45680 2oatA 439 3.97e+01 2dkb c.67.1.4 34452