# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 2fs2A 151 1.86e-19 1psuA 140 1.86e-19 d.38.1.5 88285 1j1yA 136 1.01e-16 d.38.1.5 90776 1wluA 136 1.19e-16 1zkiA 133 2.68e-16 2b6eA 146 1.06e-13 1o0iA 138 1.32e-13 d.38.1.5 86532 1vh5A 148 1.14e-12 d.38.1.5 100642 1yliA 153 2.63e-12 1q4uA 151 4.45e-12 d.38.1.5 95828 1ixlA 131 1.42e-11 d.38.1.5 90717 1vpmA 169 4.98e-11 2gvhA 288 2.38e-10 1yocA 147 1.58e-07 2cyeA 133 1.04e-06 1sh8A 154 2.79e-06 d.38.1.5 105549 1t82A 155 3.97e-06 d.38.1.5 106639 1njkA 156 5.85e-06 d.38.1.1 85818 1s5uA 138 8.07e-06 d.38.1.1 98573 1z54A 132 4.66e-05 2b3nA 159 5.78e-05 2av9A 147 6.25e-05 1c8uA 285 5.25e-04 1c8uA d.38.1.3,d.38.1.3 38547,38548 1u1zA 168 5.63e-04 d.38.1.6 107602 2gf6A 135 2.23e-03 1iq6A 134 3.11e-03 d.38.1.4 76755 1z6bA 154 3.19e-03 2cwzA 141 3.74e-03 1tbuA 118 2.58e-02 2bi0A 337 2.71e-02 2essA 248 6.27e-02 1lo7A 141 7.25e-02 d.38.1.1 74144 1bvqA 141 7.98e-02 1bvqA d.38.1.1 38542 2aliA 158 1.38e-01 1mkaA 171 1.02e+00 1mkaA d.38.1.2 38543 1yycA 174 1.20e+00 2b59A 187 1.43e+00 1sdjA 310 1.55e+00 d.21.1.2,d.21.1.2 98807,98808 1l0wA 580 1.72e+00 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1su8A 636 1.79e+00 e.26.1.2 98999 1jjyA 636 1.79e+00 1jjyA 1w9hA 427 1.86e+00 2bm3A 166 1.89e+00 2gr8A 99 2.55e+00 1sltB 134 3.78e+00 1c1lA b.29.1.3 24187 1kzfA 230 3.89e+00 d.108.1.3 73354 1eqkA 102 4.08e+00 1eqkA d.17.1.2 37998 1slaA 134 4.66e+00 1c1lA b.29.1.3 24196 1vehA 92 4.83e+00 1w6nA 134 5.40e+00 1zo2A 129 5.56e+00 1qyaA 307 5.59e+00 d.21.1.2,d.21.1.2 104653,104654 1q7lA 198 6.02e+00 c.56.5.4 96044 2fm8A 135 6.15e+00 3pcgM 238 6.36e+00 3pchM b.3.6.1 22742 2pcdM 238 6.60e+00 3pchM b.3.6.1 22760 3pchM 238 7.37e+00 3pchM b.3.6.1 22748 1rbp 182 7.56e+00 1aqb b.60.1.1 27085 1c0aA 585 8.06e+00 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1n9pA 207 8.46e+00 b.1.18.16 80343 1sltA 134 9.53e+00 1c1lA b.29.1.3 24186 1r4vA 171 1.01e+01 a.197.1.1 97049 3proC 166 1.10e+01 3proC d.52.1.1,d.52.1.1 38812,38813 3fivA 116 1.19e+01 1fmb b.50.1.1 26768 1rmg 422 1.27e+01 1rmg b.80.1.3 28029 2ptd 298 1.31e+01 2plc c.1.18.2 29605 1tf4A 605 1.35e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1nox 205 1.37e+01 1nox d.90.1.1 40242 1hbq 183 1.38e+01 1aqb b.60.1.1 27078 1kt6A 183 1.39e+01 b.60.1.1 84466 1gym 298 1.40e+01 2plc c.1.18.2 29606 1g0dA 695 1.41e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 60166,60167,60168,60169 1hbp 183 1.41e+01 1aqb b.60.1.1 27079 2f4lA 297 1.44e+01 1f3uA 118 1.50e+01 1f3uA b.65.1.1 27521 4enl 436 1.62e+01 4enl c.1.11.1,d.54.1.1 29202,38846 2oneA 436 1.66e+01 4enl c.1.11.1,d.54.1.1 29203,38847 2al1A 436 1.68e+01 1oneA 436 1.69e+01 4enl c.1.11.1,d.54.1.1 29200,38844 2al2A 436 1.69e+01 1pn2A 280 1.72e+01 d.38.1.4,d.38.1.4 94930,94931 1ry9A 145 1.76e+01 d.198.1.1 98094 1eo9B 241 1.79e+01 3pchM b.3.6.1 22826 1eysH 259 1.81e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1kl9A 182 1.85e+01 b.40.4.5 72681 1ktjA 129 1.87e+01 b.1.18.7 72974 1vrbA 342 1.93e+01 1qcnA 421 1.99e+01 1qcnA b.34.8.1,d.177.1.1 59017,59018 1hyoA 421 1.99e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1q7fA 286 2.01e+01 b.68.9.1 96036 1qqjA 419 2.01e+01 1qcnA b.34.8.1,d.177.1.1 59034,59035 3proD 166 2.02e+01 3proC d.52.1.1,d.52.1.1 38814,38815 1k51A 72 2.10e+01 d.15.7.1 68147 3fib 249 2.21e+01 3fib d.171.1.1 42455 1k52A 72 2.26e+01 d.15.7.1 68148 2fibA 269 2.28e+01 3fib d.171.1.1 42457 1fib 269 2.28e+01 3fib d.171.1.1 42456 1fm4A 159 2.28e+01 1bv1 d.129.3.1 76186 1gzwA 134 2.31e+01 b.29.1.3 90535 1ycsA 199 2.31e+01 1tupA b.2.5.2 22433 2fivA 116 2.36e+01 1fmb b.50.1.1 26766 1mmiA 366 2.36e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1vq0A 302 2.40e+01 4fiv 113 2.42e+01 1fmb b.50.1.1 26762 1ihjA 98 2.45e+01 1pdr b.36.1.1 62382 1hz6A 72 2.47e+01 2ptl d.15.7.1 61429 1zyoA 191 2.55e+01 1aqb 183 2.57e+01 1aqb b.60.1.1 27084 2f57A 317 2.58e+01 1y9qA 192 2.70e+01 1fivA 113 2.78e+01 1fmb b.50.1.1 26764 1k4jA 230 2.79e+01 d.108.1.3 72057 1k3eA 156 2.82e+01 d.198.1.1 68103 1hjrA 158 2.83e+01 1hjrA c.55.3.6 33727 1te6A 439 2.93e+01 c.1.11.1,d.54.1.1 106797,106798 1o9yA 84 2.95e+01 b.139.1.1 92692 1hnf 182 2.98e+01 1qa9A b.1.1.1,b.1.1.3 19741,21680 1bxeA 113 3.02e+01 1bxeA d.55.1.1 38898 2akzA 439 3.02e+01 1xkpC 143 3.03e+01 1nkgA 508 3.05e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1tsrA 219 3.19e+01 1tupA b.2.5.2 22437 1tupA 219 3.19e+01 1tupA b.2.5.2 22434 1c8zA 265 3.20e+01 1c8zA d.23.1.1 38375 1b8sA 504 3.21e+01 1b8sA c.3.1.2,d.16.1.1 30335,37866 1b4vA 504 3.23e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 2fg1A 158 3.27e+01 1s7iA 124 3.30e+01 d.58.4.9 105353 1hdr 244 3.31e+01 1dhr c.2.1.2 29837 1mxtA 504 3.33e+01 c.3.1.2,d.16.1.1 79671,79672 1n1pA 504 3.34e+01 c.3.1.2,d.16.1.1 91546,91547 1n4wA 504 3.34e+01 c.3.1.2,d.16.1.1 91676,91677 2a15A 139 3.38e+01 1wgzA 510 3.41e+01 2polA 366 3.46e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1uolA 219 3.59e+01 b.2.5.2 99695 1ijhA 504 3.67e+01 c.3.1.2,d.16.1.1 66161,66162 1bhgA 613 3.75e+01 1bhgA b.1.4.1,b.18.1.5,c.1.8.3 22161,23766,28889 1xezA 721 3.76e+01 1ok7A 366 3.80e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1l1qA 186 3.88e+01 c.61.1.1 77653 1i5pA 633 3.90e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1vzyA 291 3.92e+01 1v7rA 186 3.92e+01 c.51.4.1 100482 1w6tA 444 3.93e+01 1xxnA 185 3.95e+01 2c5uA 375 4.05e+01 1sceA 112 4.12e+01 1puc d.97.1.1 40676 1h1aA 191 4.13e+01 b.29.1.11 83450 1iyxA 432 4.16e+01 c.1.11.1,d.54.1.1 83815,83816 2tpt 440 4.18e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 2dcyA 185 4.33e+01 1xnkA 196 4.37e+01 1vkdA 338 4.37e+01 b.67.2.4 108644 1b26A 416 4.51e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1zhhB 242 4.52e+01 1gq8A 319 4.53e+01 b.80.1.5 70350 1l2tA 235 4.57e+01 c.37.1.12 73514 1i78A 297 4.57e+01 f.4.4.1 66046 1vapA 123 4.66e+01 1poa a.133.1.2 19548 2afcA 168 4.70e+01 1b3bA 415 4.76e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 2cu6A 103 4.85e+01 2pelA 236 4.88e+01 1led b.29.1.1 24082 1f2hA 169 4.89e+01 1f3vA d.58.22.1 59612 1bib 321 4.97e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1mfqC 129 5.01e+01 a.36.1.1 79046 2fikA 287 5.11e+01 1lylA 504 5.17e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1b8aA 438 5.21e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1axkA 394 5.23e+01 1axkA b.29.1.2,b.29.1.11 24181,24315 2bw2A 140 5.29e+01 1f1sA 814 5.33e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1nvpD 108 5.34e+01 a.32.1.1,b.56.1.1 92213,92214 1xnb 185 5.35e+01 1axkA b.29.1.11 24308 1t0bA 252 5.69e+01 c.23.16.6 106199 1e2tA 284 5.75e+01 1e2tA d.3.1.5 37121 2ac3A 316 5.81e+01 1pdz 434 5.91e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1u58A 253 6.00e+01 1e1oA 504 6.01e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1o6sA 466 6.01e+01 b.1.18.15,c.10.2.1 81094,81095 1nnxA 109 6.03e+01 b.40.10.1 92013 1o6vA 466 6.04e+01 b.1.18.15,c.10.2.1 81099,81100 1bia 321 6.06e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1f5mB 180 6.24e+01 1f5mB d.110.2.1 40896 1epfA 191 6.29e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1okhA 46 6.34e+01 g.13.1.1 93253 2mjpA 193 6.36e+01 1b78A c.51.4.1 33223 1b78A 193 6.36e+01 1b78A c.51.4.1 33221 1meoA 209 6.40e+01 c.65.1.1 79035 1f5mA 180 6.43e+01 1f5mB d.110.2.1 40895 1lshA 1056 6.50e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1aol 228 6.62e+01 1aol b.20.1.1 23840 1sq9A 397 6.75e+01 b.69.4.1 105889 1se8A 301 7.00e+01 b.40.4.3 105448 1gtmA 419 7.04e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1d2oA 187 7.12e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1o0wA 252 7.14e+01 a.149.1.1,d.50.1.1 80751,80752 1jkeA 145 7.19e+01 c.110.1.1 66791 1j1bA 420 7.33e+01 d.144.1.7 90758 2biqA 219 7.36e+01 1itbB 315 7.40e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1a9v 129 7.55e+01 1a9v b.1.18.7 21946 1n4xH 120 7.62e+01 b.1.1.1 85324 3hmgA 328 7.65e+01 1hgeA b.19.1.2 23825 2ac5A 316 7.68e+01 1v6tA 255 7.71e+01 2aalA 131 7.78e+01 2u1a 88 7.81e+01 2u1a d.58.7.1 39164 1s68A 249 7.85e+01 d.142.2.4 98591 1zq7A 207 7.93e+01 2ptl 78 7.94e+01 2ptl d.15.7.1 37835 1tbxA 99 8.00e+01 a.4.5.48 106748 1ysqA 193 8.10e+01 1qmrA 159 8.13e+01 1bv1 d.129.3.1 41314 1gkuB 1054 8.14e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 2c30A 321 8.19e+01 2f2hA 773 8.25e+01 1dhr 241 8.30e+01 1dhr c.2.1.2 29832 1bv1 159 8.57e+01 1bv1 d.129.3.1 41313 2b1xA 470 8.64e+01 1l7lA 121 8.69e+01 b.18.1.16 77790 2f1rA 171 8.73e+01 1q52A 314 8.78e+01 c.14.1.3 95846 1lfo 128 8.95e+01 1hmt b.60.1.2 27223 2tdt 274 8.99e+01 3tdt b.81.1.2 28054 1sz6A 249 9.00e+01