# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-scores 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 1fo5A 85 3.95e-04 1fo5A c.47.1.1 59922 1egr 85 5.44e-04 1kte c.47.1.1 32765 1kte 105 5.56e-04 1kte c.47.1.1 32771 1grx 85 2.30e-03 1kte c.47.1.1 32766 1ego 85 4.65e-03 1kte c.47.1.1 32767 1jhb 106 5.46e-03 1kte c.47.1.1 32772 1t1vA 93 9.70e-03 1m4jA 142 4.41e-02 d.109.1.2 78602 1qfnA 85 6.44e-02 1qfnA c.47.1.1 32768 1j0fA 100 7.53e-02 unknown_sccs -7483 1r26A 125 1.13e-01 c.47.1.1 -7389 1thx 115 1.28e-01 1thx c.47.1.1 32732 1ns5A 155 1.30e-01 c.116.1.3 80705 1iloA 77 2.18e-01 c.47.1.1 66205 3grx 82 2.90e-01 1aba c.47.1.1 32769 1f3aA 222 3.53e-01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1fw1A 216 6.14e-01 a.45.1.1 60051 c.47.1.5 60052 1wkqA 164 6.26e-01 1k3lA 221 6.67e-01 a.45.1.1 77229 c.47.1.5 77230 1n71A 180 7.76e-01 d.108.1.1 85370 1sqsA 242 8.01e-01 unknown_sccs -6433 1ci8A 392 8.43e-01 e.3.1.1 64765 1b87A 181 8.61e-01 1b87A d.108.1.1 40797 1gseA 221 8.84e-01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1hyuA 521 9.98e-01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1ci9A 392 1.04e+00 e.3.1.1 64767 1f9mA 112 1.15e+00 1erv c.47.1.1 32736 1f37A 110 1.25e+00 1f37A c.47.1.11 33088 2trxA 108 1.47e+00 1thx c.47.1.1 32719 1k3yA 221 1.56e+00 a.45.1.1 77245 c.47.1.5 77246 1hv8A 367 1.75e+00 1hv8A c.37.1.19 32405 c.37.1.19 32406 1ksiB 642 1.89e+00 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1j08A 226 1.95e+00 c.47.1.2 83855 c.47.1.2 83856 1erv 105 2.03e+00 1erv c.47.1.1 32743 1bymA 97 2.04e+00 1bi0 b.34.1.2 24458 1dd5A 185 2.19e+00 1dd5A d.67.3.1 39564 1e50B 134 2.46e+00 2jhbA b.54.1.1 59245 1ipd 345 2.52e+00 1cnzA c.77.1.1 35038 1b0uA 262 2.57e+00 1b0uA c.37.1.12 32370 1dr8B 344 2.67e+00 1cnzA c.77.1.1 35052 1f9aA 168 2.79e+00 1f9aA c.26.1.3 31602 1e6bA 221 2.97e+00 1e6bA a.45.1.1 59294 c.47.1.5 59295 1g65K 211 3.10e+00 d.153.1.4 41907 1uiuA 502 3.37e+00 c.94.1.1 -8674 1pcxA 810 3.45e+00 a.71.2.1 -1098 b.2.8.1 -2910 c.62.1.2 -7984 d.109.2.1 -10823 g.41.10.1 -12792 1qstA 160 3.60e+00 1yghA d.108.1.1 40804 1jagA 241 3.71e+00 c.37.1.1 66463 1h9dB 134 3.84e+00 2jhbA b.54.1.1 60822 1gwcA 230 3.89e+00 a.45.1.1 70660 c.47.1.5 70661 1idm 343 4.15e+00 1cnzA c.77.1.1 35035 1iw5A 113 4.27e+00 1v9jA 113 4.27e+00 d.52.6.1 -9781 1oyjA 231 4.51e+00 a.45.1.1 87597 c.47.1.5 87598 1kebA 108 4.52e+00 c.47.1.1 77341 1ksiA 642 4.59e+00 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1xgsA 295 4.99e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1faaA 124 5.10e+00 1erv c.47.1.1 32738 1cnuA 137 5.22e+00 1cof d.109.1.2 40862 1jkgA 140 5.39e+00 d.17.4.2 66795 1m2dA 110 5.49e+00 c.47.1.11 78476 1bh5A 183 5.59e+00 1qipA d.32.1.1 38476 1tiyA 164 5.66e+00 1eejA 216 5.72e+00 1eejA c.47.1.9 33057 d.17.3.1 38071 1m2aA 110 5.83e+00 c.47.1.11 78472 1a8l 226 5.91e+00 1a8l c.47.1.2 32777 c.47.1.2 32778 1jtdB 273 5.95e+00 b.69.5.2 67265 1gvnB 287 6.16e+00 c.37.1.21 76354 1gky 187 6.32e+00 1gky c.37.1.1 31839 1dp0A 1023 6.44e+00 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 2jhbA 143 6.48e+00 2jhbA b.54.1.1 26950 1jz8A 1023 6.74e+00 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1s3zA 165 6.87e+00 1ej6A 1289 6.98e+00 i.7.1.1 45967 1rypL 212 7.04e+00 d.153.1.4 41880 1jn5A 140 7.11e+00 d.17.4.2 66921 1aiu 105 7.30e+00 1erv c.47.1.1 32746 1mdiA 105 7.45e+00 1erv c.47.1.1 32755 1gajA 257 7.48e+00 1gajA c.37.1.12 60416 1nycA 111 8.18e+00 unknown_sccs -4522 1r5pA 108 8.20e+00 unknown_sccs -7487 1m2bA 110 8.38e+00 c.47.1.11 78474 1ip9A 85 8.50e+00 1ip9A d.15.2.2 62638 1vjqA 79 8.90e+00 unknown_sccs -13478 1aba 87 9.69e+00 1aba c.47.1.1 32760 1jhnA 424 9.75e+00 b.29.1.12 70060 b.104.1.1 66722 1bglA 1023 9.81e+00 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.5.1 24358 c.1.8.3 28857 1qipA 183 9.91e+00 1qipA d.32.1.1 38470 1j9bA 141 1.04e+01 c.47.1.12 66459 1k0nA 241 1.07e+01 a.45.1.1 67953 c.47.1.5 67954 1b1a 137 1.08e+01 1be1 c.23.6.1 31242 1giqA 413 1.11e+01 d.166.1.1 76224 d.166.1.1 76225 1ghsA 306 1.14e+01 1aq0A c.1.8.3 28840 1gumA 222 1.18e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 2pth 193 1.19e+01 2pth c.56.3.1 33793 1gulA 222 1.29e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1oktA 211 1.31e+01 a.45.1.1 -942 c.47.1.5 -7467 1go3E 187 1.34e+01 b.40.4.5 83054 d.230.1.1 83055 1qk8A 146 1.35e+01 1ewxA c.47.1.10 33061 1nubA 229 1.36e+01 1sra a.39.1.3 17191 g.3.11.3 44330 unknown_sccs 44715 1vhxA 150 1.38e+01 unknown_sccs -7663 1ei5A 520 1.41e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1ex7A 186 1.42e+01 1gky c.37.1.1 59537 1gsa 316 1.43e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1btkB 169 1.46e+01 1btkA b.55.1.1 26960 1sjyA 159 1.49e+01 d.113.1.1 -10908 1a8y 367 1.49e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1vfrA 218 1.49e+01 1vfrA d.90.1.1 40247 1ctqA 166 1.51e+01 1ctqA c.37.1.8 31965 1k0mA 241 1.51e+01 a.45.1.1 67949 c.47.1.5 67950 1m3iA 471 1.65e+01 f.9.1.1 -12374 1dypA 271 1.70e+01 1dypA b.29.1.2 24185 1d1gA 168 1.71e+01 1d1gA c.71.1.1 34889 1je8A 82 1.73e+01 a.4.6.2 77108 1usuB 170 1.73e+01 unknown_sccs -10492 1pgs 314 1.76e+01 1pgs b.121.1.1 23653 b.121.1.1 23654 1cz3A 168 1.80e+01 1d1gA c.71.1.1 34891 1tikA 213 1.92e+01 1uzbA 516 1.92e+01 c.82.1.1 -8552 1pfo 500 1.93e+01 1pfo f.9.1.1 43826 1om4A 422 1.94e+01 d.174.1.1 87067 1erw 105 1.99e+01 1erv c.47.1.1 32745 1h75A 81 1.99e+01 1h75A c.47.1.1 60716 1shuX 182 2.02e+01 c.62.1.1 -7982 1fzqA 181 2.08e+01 1hurA c.37.1.8 32060 1se8A 301 2.10e+01 1phk 298 2.10e+01 1cdkA d.144.1.7 41635 1g7eA 122 2.14e+01 1g7eA c.47.1.7 33055 4cms 323 2.14e+01 1smrA b.50.1.2 26866 1pbuA 162 2.16e+01 d.58.46.1 88030 1c9kB 180 2.22e+01 1c9kB c.37.1.11 32364 1l92 164 2.23e+01 1l92 d.2.1.3 36629 5nul 138 2.26e+01 5nul c.23.5.1 31191 1aw9 216 2.28e+01 1gnwA a.45.1.1 17736 c.47.1.5 33030 1glv 303 2.28e+01 1gsa c.30.1.3 31721 d.142.1.1 41480 1ix9A 205 2.32e+01 a.2.11.1 76899 d.44.1.1 76900 1k4nA 192 2.36e+01 d.32.1.5 72059 1pmt 203 2.37e+01 1a0fA a.45.1.1 17740 c.47.1.5 33034 1rgyA 360 2.51e+01 e.3.1.1 -11768 1hqz9 141 2.54e+01 1nw2A 105 2.54e+01 c.47.1.1 -7380 1dbuA 158 2.61e+01 1dbuA d.116.1.1 40930 1i4mA 108 2.64e+01 d.6.1.1 66025 1l58 164 2.65e+01 1l92 d.2.1.3 36635 1eiyB 785 2.66e+01 1pysB a.6.1.1 16305 a.6.1.1 16306 b.40.4.4 25314 d.58.13.1 39313 d.104.1.1 40782 d.138.1.1 41458 1nkqA 259 2.70e+01 3nll 138 2.74e+01 5nul c.23.5.1 31206 1gz0A 253 2.76e+01 c.116.1.1 76391 d.79.3.3 76392 1exqA 154 2.77e+01 1b9dA c.55.3.2 33646 1e3dA 266 2.80e+01 2frvA e.19.1.1 59188 1te5A 257 2.84e+01 1h40A 71 2.86e+01 1g6hA 257 2.89e+01 1gajA c.37.1.12 60318 1m3jA 471 2.93e+01 f.9.1.1 -12372 1lw9A 164 2.94e+01 d.2.1.3 84727 1ffkI 194 3.03e+01 1ffkI d.12.1.2 37494 1p36A 164 3.08e+01 d.2.1.3 -8840 1i92A 91 3.11e+01 1pdr b.36.1.1 61990 1o0pA 104 3.20e+01 d.58.7.1 86535 1fyvA 161 3.22e+01 1fyvA c.23.2.1 31127 2fox 138 3.23e+01 5nul c.23.5.1 31197 119l 164 3.26e+01 1l92 d.2.1.3 36622 1inp 400 3.27e+01 1inp e.7.1.1 42972 1uzcA 71 3.48e+01 a.159.2.1 -339 1qamA 244 3.51e+01 2ercA c.66.1.24 34220 1fr1A 361 3.54e+01 1gceA e.3.1.1 42734 1c4qA 69 3.64e+01 2bosA b.40.2.1 25010 1fsz 372 3.72e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1dbxA 158 3.74e+01 1dbuA d.116.1.1 40928 1n2aA 201 3.78e+01 a.45.1.1 -938 c.47.1.5 -7463 1kx9A 112 3.79e+01 unknown_sccs 77602 1yghA 164 3.79e+01 1yghA d.108.1.1 40802 8fabA 212 3.82e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1ku2A 241 3.83e+01 a.4.13.1 83096 a.177.1.1 83097 1floA 422 3.83e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1nx8A 273 3.85e+01 b.82.2.8 86374 1ivnA 190 3.90e+01 c.23.10.5 83719 1rch 155 3.96e+01 2rn2 c.55.3.1 33570 1lrzA 426 4.00e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169