# List of top-scoring protein chains for t2k-100-30-str 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 1i9zA 347 2.75e-51 1i9yA d.151.1.2 62102 1i9yA 347 2.79e-51 1i9yA d.151.1.2 62101 1ako 268 1.32e-07 1ako d.151.1.1 41779 1bix 287 1.22e-05 1bix d.151.1.1 41781 1hd7A 318 2.55e-05 1bix d.151.1.1 41780 3dni 260 3.43e-04 3dni d.151.1.1 41791 2dnjA 260 7.14e-04 3dni d.151.1.1 41790 1gnd 447 1.70e-02 1gnd c.3.1.3 30423 d.16.1.6 37987 1d5tA 433 1.71e-02 1gnd c.3.1.3 30422 d.16.1.6 37986 1bgj 394 3.57e-02 1pbe c.3.1.2 30352 d.16.1.2 37883 1pbe 394 4.19e-02 1pbe c.3.1.2 30338 d.16.1.2 37869 1k0iA 394 6.54e-02 c.3.1.2 67942 d.16.1.2 67943 1dpgA 485 1.54e-01 1dpgA c.2.1.3 30074 d.81.1.5 39989 2dpg 485 2.07e-01 1dpgA c.2.1.3 30076 d.81.1.5 39991 1g6aA 271 2.99e-01 1btl e.3.1.1 42704 2phh 394 3.46e-01 1pbe c.3.1.2 30353 d.16.1.2 37884 1jnyA 435 6.26e-01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1kk1A 410 9.71e-01 1eq6A 189 1.13e+00 1eq6A d.107.1.1 40796 1aipE 405 1.62e+00 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1efcA 393 2.04e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1d2eA 397 2.15e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 2hgsA 474 2.59e+00 2hgsA c.30.1.4 31722 d.142.1.6 41575 d.142.1.6 41576 1ii7A 333 2.85e+00 1ii7A d.159.1.4 62415 1d5rA 324 2.93e+00 1d5rA b.7.1.1 23181 c.45.1.1 32697 1jg1A 235 3.02e+00 c.66.1.7 66661 2fcr 173 3.11e+00 1rcf c.23.5.1 31151 1f60A 458 3.31e+00 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1gv9A 260 3.39e+00 1ha3A 405 3.99e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1kmoA 774 4.15e+00 1djxB 624 4.17e+00 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1fohA 664 4.31e+00 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1emsA 440 4.35e+00 1emsA d.13.1.1 37520 d.160.1.1 42086 1exmA 405 4.38e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1fqgA 263 4.87e+00 1btl e.3.1.1 42699 1btl 263 5.31e+00 1btl e.3.1.1 42691 1ermA 263 5.40e+00 1btl e.3.1.1 42690 1e54A 332 5.61e+00 1e54A f.4.3.1 59258 1aqzA 149 5.99e+00 1aqzA d.1.1.1 36238 1l7uA 263 6.15e+00 1m40A 263 6.15e+00 1bouB 302 6.34e+00 1bouB c.56.6.1 33859 1djxA 624 6.49e+00 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1hyeA 313 6.50e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1dg3A 592 6.77e+00 1dg3A a.114.1.1 19078 c.37.1.8 32153 1bolA 222 6.78e+00 1bolA d.124.1.1 41120 1vokA 200 6.96e+00 1ytbA d.129.1.1 41242 d.129.1.1 41243 1hnjA 317 7.07e+00 1hn9A c.95.1.1 35969 c.95.1.1 35970 2cb5A 453 7.35e+00 3gcb d.3.1.1 37035 1aqzB 149 7.55e+00 1aqzA d.1.1.1 36239 1bvyF 191 7.93e+00 1bvyF c.23.5.1 31207 1jw3A 140 8.20e+00 d.208.1.1 67373 1j9jA 247 8.37e+00 c.106.1.1 62758 1ppfE 218 8.43e+00 1a7s b.47.1.2 26234 1hn9A 317 8.57e+00 1hn9A c.95.1.1 35977 c.95.1.1 35978 1cb8A 678 8.94e+00 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.3.1 24422 1jk7A 323 9.37e+00 1auiA d.159.1.3 63144 1aozA 552 9.46e+00 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1mmoD 512 9.58e+00 1mhyD a.25.1.2 16770 1qatB 622 9.67e+00 1djxB a.39.1.7 17355 b.7.1.1 23172 c.1.18.1 29600 1ton 235 9.98e+00 5ptp b.47.1.2 26307 1lml 478 1.03e+01 1lml d.92.1.3 40295 1brnL 110 1.04e+01 1b20A d.1.1.1 36143 1rnbA 110 1.07e+01 1b20A d.1.1.1 36196 1gpwB 201 1.13e+01 c.23.16.1 65461 1j9lA 247 1.15e+01 c.106.1.1 62762 1ewkA 490 1.18e+01 1ewkA c.93.1.1 35712 1i7qA 519 1.18e+01 1qdlA d.161.1.1 61901 1fepA 724 1.20e+01 1fepA f.4.3.3 43808 1a2pA 110 1.27e+01 1b20A d.1.1.1 36140 1drw 273 1.29e+01 1drw c.2.1.3 30057 d.81.1.3 39972 9ldtA 332 1.31e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1rds 105 1.32e+01 9rnt d.1.1.1 36236 1k9vF 201 1.35e+01 c.23.16.1 68365 1ofv 169 1.36e+01 1rcf c.23.5.1 31184 1f74A 293 1.40e+01 1nal3 c.1.10.1 29079 1gp6A 356 1.40e+01 b.82.2.1 65441 1eblA 317 1.41e+01 1hn9A c.95.1.1 35973 c.95.1.1 35974 1jenA 267 1.41e+01 1jenA 1cznA 169 1.50e+01 1rcf c.23.5.1 31181 1e5mA 416 1.53e+01 1dd8A c.95.1.1 58973 c.95.1.1 58974 1rms 105 1.54e+01 9rnt d.1.1.1 36235 1g38A 393 1.59e+01 2admA c.66.1.10 60235 1b20A 110 1.60e+01 1b20A d.1.1.1 36207 1dih 273 1.60e+01 1drw c.2.1.3 30056 d.81.1.3 39971 1bs9 207 1.62e+01 1bs9 c.23.9.1 31330 1hxkA 1015 1.62e+01 e.33.1.1 65951 1g66A 207 1.63e+01 1bs9 c.23.9.1 31329 1htyA 1015 1.65e+01 e.33.1.1 65948 1qapA 296 1.67e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 1ej6A 1289 1.68e+01 i.7.1.1 45967 1ush 550 1.72e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1eblB 317 1.73e+01 1hn9A c.95.1.1 35975 c.95.1.1 35976 1g1tA 157 1.76e+01 d.169.1.1 65104 g.3.11.1 65105 1hwwA 1015 1.79e+01 e.33.1.1 65949 1fus 106 1.82e+01 9rnt d.1.1.1 36050 1gp4A 356 1.85e+01 b.82.2.1 65439 1ej2A 181 1.88e+01 1f9aA c.26.1.3 59414 1korA 400 1.90e+01 1ju3A 583 1.91e+01 b.18.1.13 67300 c.69.1.21 67301 1fjmA 330 1.92e+01 1auiA d.159.1.3 42082 1aogA 485 1.95e+01 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1eguA 731 1.99e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.3.1 24423 1f5nA 592 2.00e+01 1dg3A a.114.1.1 19077 c.37.1.8 32152 1qfcA 306 2.03e+01 1uteA d.159.1.1 42077 1wpoA 256 2.05e+01 1lay b.57.1.1 27012 1kas 412 2.07e+01 1dd8A c.95.1.1 35964 c.95.1.1 35965 1amj 754 2.09e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1b3nA 412 2.12e+01 1dd8A c.95.1.1 35966 c.95.1.1 35967 1dp4A 435 2.14e+01 1dp4A c.93.1.1 35710 1ebuA 358 2.15e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1qnaA 200 2.17e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1cgt 684 2.18e+01 1cxlA b.1.1.5 21815 b.3.1.1 22484 b.71.1.1 27722 c.1.8.1 28709 1qpsA 261 2.19e+01 1ckqA c.52.1.1 33234 1apa 266 2.19e+01 1qi7A d.165.1.1 42205 1eriA 276 2.20e+01 1ckqA c.52.1.1 33231 1hfuA 503 2.21e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1cseE 274 2.22e+01 1gci c.41.1.1 32481 8acn 754 2.24e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1gjwA 637 2.25e+01 b.71.1.1 60582 c.1.8.1 60583 1hp1A 516 2.26e+01 1cdwA 179 2.27e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1a65A 504 2.29e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1qexA 288 2.30e+01 1qexA b.32.1.1 24425 3rnt 104 2.31e+01 9rnt d.1.1.1 36069 1kfiA 572 2.32e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1hw6A 278 2.32e+01 1frb c.1.7.1 61296 1esl 162 2.32e+01 1esl d.169.1.1 42353 g.3.11.1 44225 9rnt 104 2.36e+01 9rnt d.1.1.1 36055 2admA 421 2.42e+01 2admA c.66.1.10 34238 4gr1 478 2.43e+01 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 1i0vA 104 2.44e+01 9rnt d.1.1.1 36054 1qc9A 276 2.52e+01 1ckqA c.52.1.1 33235 1c0nA 406 2.53e+01 1c0nA c.67.1.3 34433 3grs 478 2.54e+01 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1sup 275 2.55e+01 1gci c.41.1.1 32510 1vdrA 162 2.58e+01 1vdrA c.71.1.1 34893 1qhoA 686 2.58e+01 1cxlA b.1.1.5 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1ebfA 358 2.65e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1cknA 330 2.68e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1g5bA 221 2.77e+01 1g5bA d.159.1.3 60261 1cbs 137 2.80e+01 1hmt b.60.1.2 27201 1bvh 157 2.80e+01 1dg9A c.44.1.1 32640 1gjuA 637 2.84e+01 b.71.1.1 60580 c.1.8.1 60581 1i50B 1224 2.86e+01 e.29.1.2 61755 1mtyD 512 2.87e+01 1mhyD a.25.1.2 16742 1gsoA 431 2.93e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1qh4A 380 2.94e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 1amoA 615 2.96e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1jl0A 334 2.99e+01 1jenA d.156.1.1 63155 1wab 232 3.02e+01 1wab c.23.10.3 31341 1lxtA 561 3.10e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1uteA 313 3.16e+01 1uteA d.159.1.1 42078 1es9A 232 3.18e+01 1wab c.23.10.3 31340 1ktbA 405 3.21e+01 1ckiA 317 3.27e+01 1csn d.144.1.1 41660 1qfxA 460 3.34e+01 1qfxA c.60.1.3 33994 1ifqA 138 3.37e+01 1ifqA d.110.4.1 62350 1gkuB 1054 3.37e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1bueA 265 3.41e+01 1btl e.3.1.1 42727 1arzC 273 3.44e+01 1drw c.2.1.3 30061 d.81.1.3 39976 1c96A 753 3.46e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1cl8A 276 3.46e+01 1ckqA c.52.1.1 33230 1a8s 273 3.46e+01 1brt c.69.1.12 34710 1f3lA 321 3.50e+01 1g6q2 c.66.1.6 59630 1qrdA 273 3.54e+01 1d4aA c.23.5.3 31217 1amk 251 3.55e+01 1amk c.1.1.1 28503 1uok 558 3.57e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1i1qA 520 3.60e+01 1qdlA d.161.1.1 61543 1g9mG 321 3.67e+01 1gc1G d.172.1.1 42492 1bkpA 278 3.67e+01 1bkpA d.117.1.1 41029 1ja1A 622 3.68e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 2ebn 289 3.87e+01 2ebn c.1.8.5 28990 1ckqA 276 3.91e+01 1ckqA c.52.1.1 33229 1czsA 160 3.91e+01 1cztA b.18.1.2 23714 1cztA 160 3.91e+01 1cztA b.18.1.2 23715 3sil 379 3.95e+01 3sil b.68.1.1 27542 1fecA 490 3.98e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1f13A 731 3.99e+01 1f13A b.1.1.5 21877 b.1.5.1 22163 b.1.5.1 22164 d.3.1.4 37107 1al0F 426 3.99e+01 2bpa1 b.10.1.1 23274