# List of top-scoring protein chains for T0207.t2k-w0.5 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 1nhoA 85 3.96e-05 1fo5A 85 6.26e-05 1fo5A c.47.1.1 59922 1ego 85 1.62e-03 1kte c.47.1.1 32767 1j08A 226 2.04e-03 c.47.1.2 83855 c.47.1.2 83856 2tir 108 2.52e-03 1thx c.47.1.1 32721 1r7hA 75 3.03e-03 1fovA 82 4.41e-03 1qfnA c.47.1.1 32770 2trxA 108 6.15e-03 1thx c.47.1.1 32719 1h75A 81 8.31e-03 1h75A c.47.1.1 60716 1kte 105 8.37e-03 1kte c.47.1.1 32771 1a8l 226 8.42e-03 1a8l c.47.1.2 32777 c.47.1.2 32778 1jhb 106 9.61e-03 1kte c.47.1.1 32772 1kebA 108 9.94e-03 c.47.1.1 77341 1txxA 108 1.40e-02 1thx c.47.1.1 32724 1m7tA 107 1.45e-02 c.47.1.1 78745 1nw2A 105 1.60e-02 1quwA 105 2.05e-02 1thx c.47.1.1 32735 1nswA 105 2.22e-02 1srx 108 3.03e-02 1thx c.47.1.1 32729 1o73A 144 3.56e-02 c.47.1.10 86638 1hyuA 521 4.95e-02 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1fg4A 149 5.66e-02 1ewxA c.47.1.10 59814 1o6jA 150 5.68e-02 c.47.1.10 81089 1oc9A 152 5.70e-02 c.47.1.10 86797 1o81A 152 5.72e-02 c.47.1.10 81175 1nm3A 241 5.75e-02 c.47.1.1 85866 c.47.1.10 85867 1thx 115 6.41e-02 1thx c.47.1.1 32732 1iloA 77 1.71e-01 c.47.1.1 66205 1kjtA 119 2.18e-01 d.15.1.3 72622 1kotA 119 2.19e-01 d.15.1.3 68732 1tho 109 2.19e-01 1thx c.47.1.1 32722 1gnuA 117 2.25e-01 d.15.1.3 65403 1grx 85 3.05e-01 1kte c.47.1.1 32766 1qk8A 146 3.48e-01 1ewxA c.47.1.10 33061 1ewxA 146 3.49e-01 1ewxA c.47.1.10 33062 1ezkA 153 3.60e-01 1ewxA c.47.1.10 33063 1okdA 154 3.62e-01 1dbyA 107 4.35e-01 1thx c.47.1.1 32734 1st9A 143 4.90e-01 1eejA 216 6.68e-01 1eejA c.47.1.9 33057 d.17.3.1 38071 1gl8A 104 7.53e-01 c.47.1.1 65290 1fb6A 105 7.64e-01 1thx c.47.1.1 32739 3grx 82 8.07e-01 1aba c.47.1.1 32769 1pfc 113 8.80e-01 1cqkA b.1.1.2 21546 1f6mC 108 9.12e-01 1thx c.47.1.1 32725 1g7oA 215 9.18e-01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1adqA 206 1.15e+00 1igtB b.1.1.2 21518 b.1.1.2 21519 1r26A 125 1.21e+00 1oazA 123 1.41e+00 1lu4A 136 1.41e+00 1b4qA 105 1.62e+00 1kte c.47.1.1 32773 1cc8A 73 1.93e+00 1cc8A d.58.17.1 39343 1eo6A 117 2.19e+00 1eo6A d.15.1.3 37609 1frtC 205 2.41e+00 1igtB b.1.1.2 21544 b.1.1.2 21545 1fccA 206 2.42e+00 1igtB b.1.1.2 21524 b.1.1.2 21525 1oi7A 288 2.50e+00 c.2.1.8 87049 c.23.4.1 87050 1dn2A 207 2.54e+00 1igtB b.1.1.2 21512 b.1.1.2 21513 1l6xA 207 2.66e+00 b.1.1.2 73642 b.1.1.2 73643 1oqoA 212 2.72e+00 b.1.1.2 87313 b.1.1.2 87314 4ts1A 319 2.78e+00 2ts1 c.26.1.1 31565 1tybE 319 2.78e+00 2ts1 c.26.1.1 31569 1tydE 319 2.78e+00 2ts1 c.26.1.1 31567 1tyaE 319 2.78e+00 2ts1 c.26.1.1 31570 1pklA 499 2.82e+00 1a49A b.58.1.1 27052 c.1.12.1 29280 c.49.1.1 33134 1tyc 319 3.06e+00 2ts1 c.26.1.1 31568 1h3uA 223 3.35e+00 b.1.1.2 76657 b.1.1.2 76658 1mek 120 3.39e+00 1erv c.47.1.2 32775 1iixA 224 3.55e+00 1igtB b.1.1.2 62462 b.1.1.2 62463 1bjx 110 3.68e+00 1bjx c.47.1.2 32774 1fc2D 224 3.70e+00 1igtB b.1.1.2 21516 b.1.1.2 21517 1iisA 224 3.70e+00 1igtB b.1.1.2 62454 b.1.1.2 62455 1e4kA 225 3.70e+00 1igtB b.1.1.2 21526 b.1.1.2 21527 1rgvA 80 4.45e+00 1kzjA 264 4.73e+00 d.117.1.1 73365 1vdc 333 5.28e+00 1trb c.3.1.5 30545 c.3.1.5 30546 1mcoH 428 5.31e+00 1igtB b.1.1.1 20564 b.1.1.2 21469 b.1.1.2 21470 b.1.1.2 21471 1grj 158 5.73e+00 1grj a.2.1.1 15691 d.26.1.2 38433 1trs 105 5.78e+00 1erv c.47.1.1 32753 1ni4A 365 6.06e+00 c.36.1.7 85728 1i7qB 193 7.55e+00 1qdlB c.23.16.1 61902 1n10A 241 8.27e+00 b.7.3.1 79774 b.52.1.3 79775 1p1jA 533 8.39e+00 c.2.1.3 87687 d.81.1.3 87688 1erv 105 9.15e+00 1erv c.47.1.1 32743 1ert 105 9.24e+00 1erv c.47.1.1 32744 1i5gA 144 9.39e+00 1ewxA c.47.1.10 61784 2atcA 305 9.49e+00 3csuA c.78.1.1 35194 c.78.1.1 35195 1jayA 212 9.65e+00 c.2.1.6 66478 1hzhH 457 1.03e+01 1igtB b.1.1.1 61437 b.1.1.2 61438 b.1.1.2 61439 b.1.1.2 61440 2ig2H 455 1.06e+01 1igtB b.1.1.1 19849 b.1.1.2 20953 1cqkA 101 1.08e+01 1cqkA b.1.1.2 21547 3trx 105 1.08e+01 1erv c.47.1.1 32757 1a56 81 1.09e+01 451c a.3.1.1 15832 1hruA 188 1.14e+01 1hruA d.115.1.1 40926 1dfwA 25 1.22e+01 j.35.1.1 46255 1pmt 203 1.24e+01 1a0fA a.45.1.1 17740 c.47.1.5 33034 1chc 68 1.28e+01 1chc g.44.1.1 45323 1skuA 310 1.29e+01 3csuA 310 1.30e+01 3csuA c.78.1.1 35094 c.78.1.1 35095 9atcA 310 1.30e+01 3csuA c.78.1.1 35188 c.78.1.1 35189 1ekxA 311 1.30e+01 3csuA c.78.1.1 35088 c.78.1.1 35089 1f1bA 310 1.30e+01 3csuA c.78.1.1 35104 c.78.1.1 35105 1gq3A 310 1.32e+01 c.78.1.1 76268 c.78.1.1 76269 1f9mA 112 1.35e+01 1erv c.47.1.1 32736 1d09A 310 1.39e+01 3csuA c.78.1.1 35100 c.78.1.1 35101 1znf 26 1.40e+01 g.37.1.1 45036 1faaA 124 1.42e+01 1erv c.47.1.1 32738 2ts1 419 1.43e+01 2ts1 c.26.1.1 31564 1aba 87 1.46e+01 1aba c.47.1.1 32760 1acmA 310 1.46e+01 3csuA c.78.1.1 35180 c.78.1.1 35181 8atcA 310 1.46e+01 3csuA c.78.1.1 35132 c.78.1.1 35133 1of9A 77 1.58e+01 1cor 82 1.59e+01 451c a.3.1.1 15903 1ovmA 552 1.72e+01 c.31.1.3 87461 c.36.1.5 87462 c.36.1.9 87463 1aiu 105 1.74e+01 1erv c.47.1.1 32746 1j0fA 100 1.78e+01 1s5lE 84 1.85e+01 1dxgA 36 1.97e+01 1dxgA g.41.5.2 45247 1m12A 84 1.97e+01 a.64.1.1 84745 1izlE 83 2.02e+01 i.5.1.1 76998 1alq 266 2.07e+01 1btl e.3.1.1 42707 1iruA 246 2.19e+01 d.153.1.4 71352 1f4dA 264 2.20e+01 1bkpA d.117.1.1 40972 1tys 264 2.25e+01 1bkpA d.117.1.1 40937 1fi8D 58 2.25e+01 1sluA 1lmhA 184 2.35e+01 d.167.1.1 74036 1jd3A 164 2.38e+01 1fw9A d.190.1.1 62896 1g81A 164 2.39e+01 1fw9A d.190.1.1 60336 1fw9A 164 2.40e+01 1fw9A d.190.1.1 60059 1g1bA 164 2.40e+01 1fw9A d.190.1.1 60202 1h0cA 392 2.44e+01 c.67.1.3 83424 1j04A 392 2.45e+01 1iqzA 81 2.45e+01 d.58.1.4 66281 2tscA 264 2.48e+01 1bkpA d.117.1.1 40952 1evfA 264 2.50e+01 1bkpA d.117.1.1 40932 1dnaA 264 2.50e+01 1bkpA d.117.1.1 40956 1ev5A 264 2.50e+01 1bkpA d.117.1.1 40935 1nceA 264 2.51e+01 d.117.1.1 80401 1axwA 264 2.51e+01 1bkpA d.117.1.1 40938 1bq2 264 2.51e+01 1bkpA d.117.1.1 40971 1fwmA 264 2.51e+01 1qqqA 264 2.51e+01 1bkpA d.117.1.1 40931 1ev8A 264 2.51e+01 1bkpA d.117.1.1 40989 1f81A 88 2.53e+01 1f81A g.53.1.1 45383 1bynA 128 2.55e+01 1rsy b.7.1.2 23193 1aiqA 264 2.57e+01 1bkpA d.117.1.1 40967 1dbp 271 2.58e+01 2dri c.93.1.1 35639 1pqnA 127 2.66e+01 1kkuA 279 2.68e+01 c.26.1.3 72661 1kqnA 279 2.74e+01 c.26.1.3 77492 1lf1A 308 2.77e+01 c.1.8.3 73877 1gzuA 290 2.80e+01 c.26.1.3 70822 1ifgA 140 2.81e+01 1sluA b.16.1.1 62349 1h7cA 108 2.82e+01 a.7.5.1 70914 1fxyA 228 2.86e+01 5ptp b.47.1.2 26347 1f6bA 198 2.87e+01 c.37.1.8 64986 1dcnA 433 2.90e+01 1auwA a.127.1.1 19420 1uaqA 158 2.90e+01 c.97.1.2 88386 1l4uA 176 2.91e+01 c.37.1.2 73568 1p6oA 161 2.92e+01 1rsy 152 2.94e+01 1rsy b.7.1.2 23192 1qgvA 142 2.94e+01 1qgvA c.47.1.8 33056 1lqwA 183 3.00e+01 d.167.1.1 74210 1g47A 77 3.01e+01 1g47A g.39.1.3 45147 g.39.1.3 45148 1paa 30 3.02e+01 g.37.1.1 45032 1dcnD 445 3.02e+01 1auwA a.127.1.1 19423 1dcnC 447 3.03e+01 1auwA a.127.1.1 19422 1epxA 370 3.05e+01 1fbaA c.1.10.1 29150 1dcnB 446 3.08e+01 1auwA a.127.1.1 19421 1lm4A 194 3.12e+01 d.167.1.1 84626 1ezsA 142 3.27e+01 1sluA b.16.1.1 23689 451c 82 3.28e+01 451c a.3.1.1 15904 1k7wA 468 3.33e+01 a.127.1.1 72130 1hy1A 468 3.34e+01 1auwA a.127.1.1 61394 1n8oE 142 3.42e+01 b.16.1.1 80303 1ep8A 112 3.43e+01 c.47.1.1 64907 1iymA 55 3.44e+01 g.44.1.1 83806 1auwA 468 3.47e+01 1auwA a.127.1.1 19416 1hy0A 466 3.48e+01 1auwA a.127.1.1 61392 1nkl 78 3.49e+01 1nkl a.64.1.1 18140 1h3zA 109 3.54e+01 b.34.9.2 83471 1id5I 142 3.67e+01 b.16.1.1 62294 1jg0A 264 3.68e+01 d.117.1.1 66659 1cruA 454 3.77e+01 1c9uA b.68.2.1 27617 1njgA 250 3.83e+01 c.37.1.20 85785 1g8aA 227 3.91e+01 1s1iM 146 3.93e+01 1ezuA 142 3.97e+01 1sluA b.16.1.1 23695 1igtB 444 3.98e+01 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869