# List of top-scoring protein chains for t2k-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 1asu 162 1.04e-13 1cxqA c.55.3.2 33626 1vsd 152 1.44e-13 1cxqA c.55.3.2 33625 1cxqA 162 3.06e-13 1cxqA c.55.3.2 33621 2itg 163 1.76e-09 1b9dA c.55.3.2 33669 1b9dA 163 2.66e-08 1b9dA c.55.3.2 33649 1hyvA 166 2.74e-08 1b9dA c.55.3.2 61424 1exqA 154 4.48e-08 1b9dA c.55.3.2 33646 1bl3A 160 6.06e-08 1b9dA c.55.3.2 33655 1itg 166 2.46e-07 1b9dA c.55.3.2 33661 1hvc 203 2.81e-03 1hvc b.50.1.1 26614 1fivA 113 6.54e-03 1fmb b.50.1.1 26764 4fiv 113 7.27e-03 1fmb b.50.1.1 26762 1difA 99 1.34e-02 1fmb b.50.1.1 26503 2fivA 116 1.79e-02 1fmb b.50.1.1 26766 5hvpA 99 1.86e-02 1fmb b.50.1.1 26605 1kzkA 99 1.99e-02 b.50.1.1 73371 1bveA 99 2.06e-02 1hvc b.50.1.1 26713 1mfs 55 2.25e-02 1mfs g.40.1.1 45167 3fivA 116 2.70e-02 1fmb b.50.1.1 26768 1f6uA 55 2.92e-02 1a1tA g.40.1.1 45164 1k1tA 99 3.79e-02 b.50.1.1 71995 1a1tA 55 4.49e-02 1a1tA g.40.1.1 45165 1dazC 99 4.52e-02 1hvc b.50.1.1 26501 1idaA 99 4.60e-02 1fmb b.50.1.1 26715 1aoqA 567 5.20e-02 1qksA a.3.1.2 15934 b.70.2.1 27692 1qksA 567 6.66e-02 1qksA a.3.1.2 15951 b.70.2.1 27710 1aaf 55 8.80e-02 1aaf g.40.1.1 45166 1dlc 584 1.19e-01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1nc8 29 2.09e-01 g.40.1.1 45170 1fmb 104 4.33e-01 1fmb b.50.1.1 26777 1djxB 624 5.50e-01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1dsqA 21 6.18e-01 g.40.1.1 45173 1a6bB 40 6.69e-01 1a6bB g.40.1.1 45172 1dc1A 323 7.24e-01 1dc1A c.52.1.11 33321 1qasA 622 1.23e+00 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1gmyA 261 1.49e+00 d.3.1.1 76236 1gnlA 544 1.56e+00 e.26.1.1 70287 2rspB 124 1.85e+00 2rspB b.50.1.1 26772 1bg1A 722 1.86e+00 1bg1A a.47.1.1 17767 b.2.5.5 22461 d.93.1.1 40527 1ciy 590 2.02e+00 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 2rspA 124 2.13e+00 2rspB b.50.1.1 26771 1qmyA 167 2.57e+00 1qmyA d.3.1.2 37094 1djxA 624 2.68e+00 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1mvpA 124 2.71e+00 2rspB b.50.1.1 26775 1i5pA 633 2.86e+00 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1cqxA 403 2.90e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1mml 265 3.03e+00 1mml e.8.1.2 43015 1a7cA 379 3.10e+00 1sek e.1.1.1 42660 1vns 609 3.26e+00 1vns a.111.1.3 19061 1e2uA 553 3.64e+00 1e1dA e.26.1.1 43362 1gntA 553 3.65e+00 e.26.1.1 70290 1ki1B 352 3.70e+00 a.87.1.1 72497 b.55.1.1 72498 1dvpA 220 4.00e+00 1dvpA a.118.9.2 19216 g.50.1.1 45358 1miqA 375 4.14e+00 b.50.1.2 79151 1aomA 567 4.19e+00 1qksA b.70.2.1 27694 1lj5A 379 4.22e+00 e.1.1.1 73928 1e1dA 553 4.42e+00 1e1dA e.26.1.1 43363 3psg 370 4.60e+00 1smrA b.50.1.2 26841 1nqcA 217 5.00e+00 1ehkA 562 5.76e+00 1ehkA f.24.1.1 43624 1o86A 589 5.89e+00 d.92.1.5 81177 1ds6B 180 5.92e+00 1rhoA b.1.18.8 21898 1scfA 273 5.97e+00 1exzA a.26.1.2 16873 1vnc 609 6.13e+00 1vns a.111.1.3 19065 1jmxA 494 6.28e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1hm2A 700 6.41e+00 1cb8A a.102.3.2 61083 b.24.1.1 61084 b.30.5.2 61085 1ffkZ 92 6.72e+00 1ffkZ g.41.8.3 45317 1kwkA 645 7.15e+00 b.71.1.1 77565 c.1.8.1 77566 c.23.16.5 77567 1mkeA 152 7.24e+00 b.55.1.4 79231 1jj22 92 7.71e+00 1ffkZ 1kwgA 645 7.96e+00 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1eybA 471 8.08e+00 1ey2A b.82.1.4 28115 1mat 264 8.10e+00 1c24A d.127.1.1 41152 1floA 422 8.10e+00 1floA a.60.9.1 18106 d.163.1.1 42166 1n6zA 105 8.14e+00 2bc2A 227 8.15e+00 1a7tA d.157.1.1 42031 1qatB 622 8.23e+00 1djxB a.39.1.7 17355 b.7.1.1 23172 c.1.18.1 29600 1ayx 492 8.35e+00 1ayx a.102.1.1 18825 1i1iP 681 8.35e+00 1i1iP d.92.1.5 40297 1h38B 883 8.37e+00 e.8.1.3 76626 1aocA 175 8.64e+00 1aocA g.17.1.5 44817 1dupA 152 8.85e+00 1dupA b.85.4.1 28351 1euwA 152 8.85e+00 1dupA b.85.4.1 28349 1ez0A 510 8.88e+00 1eyyA c.82.1.1 35385 1h38D 883 9.28e+00 e.8.1.3 76628 1eyyA 510 9.31e+00 1eyyA c.82.1.1 35389 1h38C 883 9.41e+00 e.8.1.3 76627 1h1hA 134 9.44e+00 d.5.1.1 76468 1dceA 567 9.46e+00 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1h0oA 390 9.47e+00 a.25.1.2 70845 1deuA 277 9.57e+00 1theB d.3.1.1 37085 1l5zA 155 9.81e+00 c.23.1.1 77722 2bc2B 227 1.01e+01 1a7tA d.157.1.1 42032 1qkkA 155 1.01e+01 1dbwA c.23.1.1 31104 1c24A 263 1.03e+01 1c24A d.127.1.1 41148 1ksfX 758 1.09e+01 a.174.1.1 77522 c.37.1.20 77523 c.37.1.20 77524 1theA 260 1.09e+01 1theB d.3.1.1 37056 1theB 260 1.10e+01 1theB d.3.1.1 37057 1exzA 141 1.13e+01 1exzA a.26.1.2 16877 1js8A 394 1.14e+01 a.86.1.1 67219 b.112.1.1 67220 2matA 264 1.18e+01 1c24A d.127.1.1 41146 4pep 326 1.19e+01 1smrA b.50.1.2 26843 1ca1 370 1.20e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1qsaA 618 1.21e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 1od5A 492 1.25e+01 1qmtA 134 1.25e+01 7rsa d.5.1.1 37290 1uch 230 1.30e+01 1uch d.3.1.6 37129 1cezA 883 1.32e+01 1cezA e.8.1.3 43110 1m5yA 408 1.32e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 1ifa 158 1.34e+01 1ifa a.26.1.3 16892 1mhyD 521 1.38e+01 1mhyD a.25.1.2 16780 1lxkA 721 1.38e+01 a.102.3.2 74331 b.24.1.1 74332 b.30.5.2 74333 1o0xA 262 1.39e+01 d.127.1.1 80755 1csn 298 1.41e+01 1csn d.144.1.1 41664 1mhyG 169 1.42e+01 1mtyG a.23.3.1 16518 4matA 278 1.43e+01 1c24A d.127.1.1 41150 1hrhA 136 1.44e+01 1rthA c.55.3.1 33577 1vrtA 560 1.51e+01 1rthA c.55.3.1 33574 e.8.1.2 43023 1kriA 186 1.53e+01 b.29.1.14 72897 1nf2A 268 1.53e+01 1uahA 431 1.58e+01 1ug6A 431 1.58e+01 1pbyA 489 1.63e+01 1hcxA 127 1.63e+01 b.109.1.1 65800 1ku2A 241 1.65e+01 a.112.1.1 72998 1o20A 427 1.65e+01 1zin 217 1.66e+01 1zin c.37.1.1 31915 g.41.2.1 45178 1csbB 205 1.67e+01 1theB 1eguA 731 1.67e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1hqcA 324 1.67e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1ekgA 127 1.68e+01 1dlxA d.82.2.1 40021 1xsm 390 1.69e+01 1xsm a.25.1.2 16804 1onqA 283 1.71e+01 1qs8A 329 1.76e+01 1smrA b.50.1.2 26887 1smpI 101 1.80e+01 1smpI b.61.2.1 27417 1ey2A 471 1.80e+01 1ey2A b.82.1.4 28116 1o6uA 403 1.84e+01 1mo9A 523 1.85e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ieaA 192 1.85e+01 1iakA b.1.1.2 21631 d.19.1.1 38205 1ppo 216 1.89e+01 1cs8A d.3.1.1 37020 821p 166 1.90e+01 1ctqA c.37.1.8 31969 1fneA 192 1.97e+01 1iakA b.1.1.2 59896 d.19.1.1 59897 1fngA 192 1.97e+01 1iakA b.1.1.2 59904 d.19.1.1 59905 1ldjA 760 1.97e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1jjuA 489 2.00e+01 a.3.1.7 66774 a.3.1.7 66775 b.1.18.14 66776 b.1.18.14 66777 b.61.4.1 66778 1qy5A 269 2.03e+01 1n7oA 721 2.05e+01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1iakA 199 2.11e+01 1iakA b.1.1.2 21625 d.19.1.1 38199 1qlnA 883 2.17e+01 1cezA e.8.1.3 43111 1giqA 413 2.18e+01 d.166.1.1 76224 d.166.1.1 76225 1srrA 124 2.23e+01 1dz3A c.23.1.1 31110 1kdgA 546 2.30e+01 c.3.1.2 77337 d.16.1.1 77338 1e3oC 160 2.41e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1g87A 614 2.43e+01 1qoyA 318 2.44e+01 1qoyA h.4.4.1 45788 1b5fA 239 2.48e+01 1smrA b.50.1.2 26836 1cb8A 678 2.53e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1cg2A 393 2.54e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1ctqA 166 2.56e+01 1ctqA c.37.1.8 31965 1jmoA 480 2.57e+01 e.1.1.1 77138 3pghA 587 2.61e+01 1cqeA a.93.1.2 18726 g.3.11.1 44269 1etpA 190 2.63e+01 1etpA a.3.1.4 15962 a.3.1.4 15963 1rhoA 145 2.66e+01 1rhoA b.1.18.8 21899 2kfnA 605 2.68e+01 1xwl c.55.3.5 33682 e.8.1.1 42975 1a2vA 655 2.72e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1pot 325 2.72e+01 1pot c.94.1.1 35807 4cms 323 2.77e+01 1smrA b.50.1.2 26866 1uteA 313 2.83e+01 1uteA d.159.1.1 42078 1obpA 159 2.87e+01 1obpA b.60.1.1 27092 1cwyA 500 2.87e+01 1cwyA c.1.8.1 28789 1gt1A 159 2.89e+01 1hn2A 159 2.90e+01 b.60.1.1 65890 1sly 618 2.90e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 1m70A 190 3.00e+01 1ic7H 114 3.00e+01 1f3rB b.1.1.1 62258 1dytA 133 3.02e+01 7rsa d.5.1.1 37288 1lshA 1056 3.02e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1m2oA 768 3.05e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 5p21 166 3.06e+01 1ctqA c.37.1.8 31966 1nr0A 611 3.08e+01 1jnyA 435 3.09e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1itcA 516 3.16e+01 1btl 263 3.17e+01 1btl e.3.1.1 42691 1np7A 489 3.23e+01 a.99.1.1 80677 c.28.1.1 80678 1nm8A 616 3.23e+01 1c05A 159 3.24e+01 1c05A d.66.1.2 39559 2cb5A 453 3.31e+01 3gcb d.3.1.1 37035 1czpA 98 3.35e+01 1awd d.15.4.1 37645 1gpr 162 3.36e+01 1gpr b.84.3.1 28267 1o0wA 252 3.36e+01 a.149.1.1 80751 d.50.1.1 80752 1qt9A 98 3.37e+01 1awd d.15.4.1 37647 1gvmA 136 3.38e+01 b.109.1.1 70612 1aew 174 3.38e+01 2fha a.25.1.1 16676 1miuA 738 3.40e+01 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 1gw5M 435 3.48e+01 b.2.7.1 70631 d.110.4.2 70632 1fltY 95 3.51e+01 1fltX b.1.1.4 21766 1b9zA 516 3.52e+01 1b9zA b.3.1.1 22528 c.1.8.1 28798 1lnwA 147 3.52e+01 a.4.5.28 78104 1ai7A 209 3.54e+01 1ajqA d.153.1.2 41845 1aroP 883 3.60e+01 1cezA e.8.1.3 43112 1eswA 500 3.64e+01 1cwyA c.1.8.1 59500 1iomA 377 3.68e+01 1di1A 300 3.75e+01 1di1A a.128.1.4 19446 1mlwA 301 3.76e+01 d.178.1.1 79289 1h8lA 380 3.79e+01 b.3.2.1 65737 c.56.5.1 65738 1k1xA 659 3.83e+01 1t7pA 698 3.87e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1h49A 512 3.89e+01 1ad3A 452 4.00e+01 1ad3A c.82.1.1 35335 3aprE 325 4.00e+01 2er7E b.50.1.2 26820