# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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.soe.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 2bngA 149 1.12e-15 2geyA 158 3.25e-14 1buqA 125 5.15e-14 1opy d.17.4.3 38111 1ocvA 125 3.19e-13 d.17.4.3 86810 1ohpA 125 4.95e-13 d.17.4.3 118702 1oh0A 131 3.77e-12 d.17.4.3 87004 1nwwA 149 7.45e-12 d.17.4.8 86306 1ea2A 131 7.48e-12 d.17.4.3 64860 1opy 131 1.08e-11 1opy 1dmmA 131 1.83e-11 1opy d.17.4.3 38114 1tuhA 156 3.27e-11 d.17.4.11 107345 2gxfA 142 2.33e-07 2a15A 139 4.06e-07 d.17.4.3 125973 1s5aA 150 1.36e-06 d.17.4.10 98525 3b7cA 122 1.48e-06 3cu3A 172 5.36e-06 1sjwA 144 7.02e-06 d.17.4.9 98899 2imjA 166 4.12e-05 2ux0A 143 6.53e-05 1hkxA 147 5.27e-04 d.17.4.7 83567 1m98A 317 3.75e-03 a.175.1.1,d.17.4.6 78866,78867 3cnxA 170 1.15e-02 2nlvA 112 2.46e-02 d.326.1.1 138362 2hd9A 145 5.10e-02 2r4iA 123 6.50e-02 1wmmA 145 7.35e-02 b.122.1.8 121049 2rgqA 144 8.03e-02 2chcA 170 2.28e-01 2f86B 143 3.34e-01 3blzA 128 5.37e-01 1z4eA 153 5.43e-01 d.108.1.1 124431 1jkgB 250 7.29e-01 d.17.4.2 66796 1tp6A 128 7.76e-01 d.17.4.12 107184 1elwA 118 8.02e-01 1a17 a.118.8.1 19207 2fxtA 192 9.46e-01 2ri7A 174 1.01e+00 2fsaA 174 1.17e+00 3bb9A 148 1.44e+00 2dwwA 114 1.69e+00 1x8hA 228 1.84e+00 d.157.1.1 114961 2nvmA 126 2.00e+00 d.326.1.1 138631 2qdsA 227 2.04e+00 2optA 234 2.12e+00 1x8gA 227 2.13e+00 d.157.1.1 114960 2ifuA 307 3.22e+00 1xp8A 366 3.91e+00 c.37.1.11,d.48.1.1 115735,115736 1m6jA 261 3.91e+00 c.1.1.1 78693 2ossA 127 3.96e+00 2rfrA 155 4.27e+00 3stdA 165 4.38e+00 3stdA d.17.4.1 38073 2bt9A 90 4.79e+00 1ucdA 190 5.53e+00 d.124.1.1 107767 1idpA 172 5.59e+00 d.17.4.1 83685 2dk3A 86 5.99e+00 1unfX 238 6.08e+00 a.2.11.1,d.44.1.1 113314,113315 1n3bA 216 6.31e+00 c.37.1.1 79959 1ezwA 349 6.62e+00 1ezwA c.1.16.3 29558 1j0tA 78 7.06e+00 a.163.1.1 77051 1uayA 242 7.23e+00 c.2.1.2 88390 2bs6A 90 7.69e+00 1tw7A 99 7.92e+00 1x2gA 337 7.95e+00 1fliA 98 8.70e+00 1awcA a.4.5.21 16160 1hr6A 475 8.74e+00 1hr6A d.185.1.1,d.185.1.1 61164,61165 1yo5C 97 8.87e+00 a.4.5.21 123768 1xwmA 217 9.34e+00 a.7.12.1 116132 1dcqA 278 9.58e+00 1dcqA d.211.1.1,g.45.1.1 19178,45326 3b9qA 302 1.00e+01 2oo1A 113 1.05e+01 1e3sA 261 1.06e+01 1e6wA c.2.1.2 59201 1vhtA 218 1.06e+01 c.37.1.1 100700 1e85A 127 1.11e+01 1bbhA a.24.3.2 16549 2a0nA 265 1.11e+01 c.1.2.1 125961 2cjaA 522 1.14e+01 1hvc 203 1.16e+01 1hvc 2retB 175 1.17e+01 1elrA 131 1.37e+01 1a17 a.118.8.1 19209 1th8B 116 1.37e+01 c.13.2.1 106909 1qqeA 292 1.38e+01 1qqeA a.118.8.1 19210 1korA 400 1.43e+01 c.26.2.1,d.210.1.1 72824,72825 2qr6A 393 1.46e+01 3csvA 333 1.51e+01 1dloB 427 1.52e+01 1rthA e.8.1.2 43041 1j3aA 142 1.60e+01 c.21.1.1 77070 2awpA 198 1.66e+01 1olmA 403 1.75e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1std 172 1.80e+01 3stdA 1aidA 99 1.86e+01 1fmb b.50.1.1 26591 1vh7A 265 1.90e+01 c.1.2.1 100646 1b43A 340 1.99e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 3cpgA 282 2.16e+01 2og2A 359 2.20e+01 2o90A 122 2.36e+01 1grj 158 2.39e+01 1grj 1grjA 158 2.39e+01 a.2.1.1,d.26.1.2 15691,38433 1lh0A 213 2.40e+01 c.61.1.1 73896 2novA 496 2.43e+01 2fddA 100 2.44e+01 2pa8D 265 2.44e+01 2owpA 129 2.44e+01 1vknA 351 2.52e+01 c.2.1.3,d.81.1.1 108676,108677 1b04A 318 2.56e+01 1b04A d.142.2.2 41579 2d5lA 706 2.62e+01 2avkA 136 2.71e+01 2ffgA 87 2.74e+01 d.317.1.1 133383 1oroA 213 2.87e+01 1opr c.61.1.1 34093 2j01E 206 2.89e+01 1rttA 193 2.97e+01 c.23.5.4 105098 2qruA 274 2.98e+01 2c30A 321 3.01e+01 1repC 251 3.01e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1phnB 172 3.03e+01 1qgwC a.1.1.3 15642 1mngA 203 3.05e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 2qzcA 214 3.13e+01 1vlwA 217 3.18e+01 c.1.10.1 108868 2f7vA 369 3.33e+01 2jaeA 489 3.34e+01 1r6jA 82 3.36e+01 b.36.1.1 97151 1iicA 422 3.49e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 2nwbA 400 3.50e+01 1tidB 119 3.56e+01 c.13.2.1 107000 1hp1A 516 3.58e+01 d.114.1.1,d.159.1.2 70976,70977 1w6nA 134 3.61e+01 b.29.1.3 114275 1e6wA 260 3.66e+01 1e6wA c.2.1.2 59326 1x0jA 122 3.67e+01 1q60A 99 3.69e+01 d.288.1.1 111654 1s35A 214 3.70e+01 a.7.1.1,a.7.1.1 98420,98421 2f2fC 186 3.71e+01 b.42.2.1 132812 1m1hA 248 3.74e+01 b.114.1.1,d.58.42.1 78415,78416 2nybA 192 3.77e+01 a.2.11.1,d.44.1.1 138804,138805 2nrhA 219 3.81e+01 c.55.1.13,c.55.1.13 138523,138524 1wmhB 86 3.82e+01 d.15.2.2 114745 1jb2A 127 3.83e+01 d.17.4.2 71624 1fshA 105 3.84e+01 1fshA a.4.5.31 60006 1opr 213 3.85e+01 1opr 2jgqA 233 3.87e+01 1qp8A 303 3.93e+01 1qp8A c.2.1.4,c.23.12.1 30092,31352 1kzkA 99 3.95e+01 b.50.1.1 73371 1reoA 486 3.95e+01 c.3.1.2,d.16.1.5 97325,97326 1x1mA 107 3.96e+01 d.15.1.1 121592 1lcl 142 3.98e+01 1lcl 1iscA 192 4.05e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 3b2yA 275 4.05e+01 1l3sA 580 4.14e+01 c.55.3.5,e.8.1.1 84521,84522 1pda 315 4.21e+01 1pda 1wy7A 207 4.25e+01 c.66.1.32 121433 1vjpA 394 4.27e+01 c.2.1.3,d.81.1.3 100828,100829 1hdkA 141 4.28e+01 b.29.1.3 65807 1jb0D 138 4.31e+01 1jb0D d.187.1.1 62823 2gojA 197 4.34e+01 1whzA 70 4.45e+01 d.50.3.2 114656 1nk4A 580 4.52e+01 c.55.3.5,e.8.1.1 91923,91924 1am2A 199 4.52e+01 b.86.1.2 28381 1am2 199 4.55e+01 1am2 1y89A 238 4.63e+01 1u4bA 580 4.69e+01 c.55.3.5,e.8.1.1 107664,107665 2ns0A 85 4.76e+01 1tiqA 180 4.76e+01 d.108.1.1 107010 2axpA 173 4.76e+01 c.37.1.1 127497 1ryp1 222 4.83e+01 1ryp1 3c5oA 157 4.89e+01 1i5nA 146 4.92e+01 1i5nA a.24.10.3 61805 1uanA 227 4.94e+01 c.134.1.1 99135 2q3pA 112 5.01e+01 d.58.4.4 139798 2hc0A 99 5.03e+01 2bdpA 580 5.06e+01 1xwl c.55.3.5,e.8.1.1 33709,43002 2hhvA 580 5.15e+01 c.55.3.5,e.8.1.1 136514,136515 2h36X 112 5.20e+01 2inpC 328 5.28e+01 2z8rA 591 5.46e+01 2vbkA 514 5.50e+01 3cinA 394 5.59e+01 2od5A 116 5.60e+01 1ngkA 128 5.66e+01 a.1.1.1 85673 2gu3A 136 5.79e+01 1pz4A 116 5.85e+01 d.106.1.1 95400 1wa3A 205 5.87e+01 c.1.10.1 120802 2q02A 272 5.87e+01 2yweA 600 5.89e+01 1n8mA 38 5.94e+01 g.3.7.2 91705 2ewdA 317 5.98e+01 2fcjA 119 6.00e+01 c.136.1.1 133269 1ifrA 121 6.00e+01 b.1.16.1 71203 2q5cA 196 6.04e+01 2grjA 192 6.15e+01 1a0dA 440 6.15e+01 1a0cA c.1.15.3 29533 2o23A 265 6.22e+01 c.2.1.2 138884 1xwl 580 6.22e+01 1xwl 2hi0A 240 6.28e+01 1hbxG 157 6.39e+01 1awcA a.4.5.21 60934 1a7jA 290 6.53e+01 c.37.1.6 31952 1a7j 290 6.54e+01 1a7j 1h0hB 214 6.63e+01 d.58.1.5 76437 1zeeA 403 6.63e+01 a.266.1.2 124981 1tmxA 293 6.73e+01 2rk5A 87 6.78e+01 1om2A 95 6.80e+01 1om2A a.23.4.1 16520 2hr0A 645 6.81e+01 1yr2A 741 7.04e+01 1kopA 223 7.07e+01 2cba b.74.1.1 27966 1ta8A 332 7.09e+01 d.142.2.2 112375 1mioA 534 7.16e+01 1qguA c.92.2.3 35601 2fxdA 99 7.19e+01 1gd5A 130 7.30e+01 1gd5A d.189.1.1 60439 1no1A 126 7.33e+01 a.179.1.1 85913 3cqyA 370 7.36e+01 1bc8C 93 7.46e+01 1awcA a.4.5.21 16168 1jr8A 117 7.49e+01 a.24.15.1 67115 1vk9A 151 7.49e+01 c.97.1.3 108640 1h5uA 842 7.50e+01 1a8i c.87.1.4 60655 2bdtA 189 7.62e+01 c.37.1.25 128344 1wy2A 351 7.63e+01 2c7hA 86 7.77e+01 1vraA 208 7.81e+01 2uxuA 210 7.87e+01 1thfD 253 7.87e+01 1thfD c.1.2.1 28535 1o7kA 131 7.90e+01 d.189.1.1 81144 2ejxA 139 7.91e+01 1g0uL 241 7.96e+01 d.153.1.4 41894 2h8lA 252 7.96e+01