# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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 1yqyA 523 5.81e-05 d.92.1.14 123903 d.166.1.1 123904 1j7nA 776 2.05e-04 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 2ejqA 130 2.70e-02 1h6zA 913 1.06e-01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1v9dA 340 4.55e-01 a.207.1.1 100535 1hyt 316 5.11e-01 1hyt 8tlnE 316 5.11e-01 1hyt d.92.1.2 59075 1n5uA 585 7.11e-01 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 2oqcA 327 9.94e-01 1am4A 199 1.07e+00 1tx4A a.116.1.1 19100 1kuh 132 1.11e+00 1kuh 1e7aA 585 1.29e+00 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1c7kA 132 1.88e+00 1kuh d.92.1.1 59078 1wpaA 114 2.23e+00 h.4.17.1 121145 2avdA 219 2.54e+00 c.66.1.1 127377 1ovlA 271 2.69e+00 a.123.1.1 87455 2fkcA 247 2.77e+00 3b9eA 584 2.89e+00 2ngrB 234 2.93e+00 1tx4A a.116.1.1 19105 1wh8A 111 3.08e+00 a.35.1.7 114636 1xawA 140 3.15e+00 h.4.17.1 121831 1tx4A 198 3.29e+00 1tx4A a.116.1.1 19098 3c37A 253 3.98e+00 3c2qA 345 4.19e+00 3bhwA 209 4.31e+00 1rm8A 169 4.38e+00 d.92.1.11 97660 1qsdA 106 4.72e+00 1qsdA a.7.5.1 16335 1y791 680 5.40e+00 2cbyA 208 5.62e+00 c.14.1.1 130202 1jb0D 138 5.62e+00 1jb0D d.187.1.1 62823 2h1nA 567 5.68e+00 2q88A 257 5.81e+00 1jvsA 400 5.88e+00 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 2i9fA 69 6.12e+00 2bxkA 585 6.40e+00 a.126.1.1 129431 a.126.1.1 129432 2clyA 214 6.60e+00 1bqbA 301 6.70e+00 1hyt d.92.1.2 58962 1fbaA 361 6.78e+00 1fbaA c.1.10.1 29120 2jg0A 535 6.82e+00 2om6A 235 6.94e+00 2ckiA 262 7.43e+00 1n46A 258 7.48e+00 a.123.1.1 85315 1gwyA 175 8.51e+00 b.97.1.1 83356 830cA 168 9.40e+00 1ck7A d.92.1.11 40400 3b8dA 363 9.81e+00 1mijA 152 1.07e+01 a.4.1.1 79150 1kd6A 179 1.12e+01 b.97.1.1 68459 1j3gA 187 1.14e+01 d.118.1.1 77075 1v54D 147 1.24e+01 f.23.1.1 100325 3cskA 711 1.29e+01 2i53A 258 1.29e+01 1v3yA 192 1.32e+01 d.167.1.1 113508 2o7cA 398 1.37e+01 1iae 200 1.38e+01 1iae 2h1tA 188 1.41e+01 1dq3A 454 1.42e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1qryA 80 1.44e+01 2hddA a.4.1.1 16016 1wzdA 215 1.45e+01 a.132.1.1 121493 1iazA 179 1.45e+01 1iazA b.97.1.1 62131 2vqeM 126 1.46e+01 1ar1A 558 1.52e+01 2occA f.24.1.1 43618 1zgyA 272 1.58e+01 a.123.1.1 125064 1ctn 540 1.73e+01 1ctn 1zkgA 212 1.76e+01 a.4.1.9 125194 a.121.1.1 125195 1vraB 215 1.76e+01 1edqA 540 1.84e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 3cmnA 372 1.84e+01 1k9tA 540 1.85e+01 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 1smtA 122 1.87e+01 1smtA a.4.5.5 16109 2v0oA 276 1.92e+01 2bhwA 232 1.96e+01 1iw0A 215 1.99e+01 a.132.1.1 83720 2pv4A 145 2.02e+01 1xsm 390 2.03e+01 1xsm 2ivfB 352 2.10e+01 1u4gA 301 2.10e+01 d.92.1.2 107670 1kugA 203 2.25e+01 d.92.1.9 73008 2occA 514 2.25e+01 2occA f.24.1.1 43518 1r1tA 122 2.28e+01 a.4.5.5 104769 1prgA 270 2.31e+01 2prgA a.123.1.1 19314 1g2nA 264 2.31e+01 1lbd a.123.1.1 60227 1g5yA 238 2.36e+01 1lbd a.123.1.1 60294 2qfnA 138 2.37e+01 1i1sA 96 2.39e+01 1bjaA a.4.5.9 16124 2drhA 361 2.40e+01 1y4iA 398 2.40e+01 c.67.1.3 122619 3co4A 312 2.44e+01 1rl4A 188 2.45e+01 d.167.1.1 97636 1v54A 514 2.47e+01 f.24.1.1 100321 1vp6A 138 2.47e+01 b.82.3.2 113939 1r1hA 696 2.49e+01 d.92.1.4 104756 1v2zA 111 2.53e+01 a.186.1.1 108300 1d0cA 444 2.54e+01 d.174.1.1 64769 2in1A 175 2.57e+01 d.20.1.4 137521 2ob9A 130 2.58e+01 1q6aA 107 2.62e+01 a.186.1.1 95966 1ewaA 137 2.63e+01 1ewaA a.1.1.2 15639 1ylqA 96 2.63e+01 d.218.1.5 123671 2q22A 139 2.64e+01 1ed5A 444 2.74e+01 1nseA d.174.1.1 42530 1kufA 203 2.77e+01 d.92.1.9 73007 1i76A 163 2.83e+01 1hfc d.92.1.11 61877 2qisA 374 2.84e+01 2iekA 200 2.85e+01 2ps1A 226 2.85e+01 1cxvA 164 2.90e+01 1ck7A d.92.1.11 40404 1u08A 386 2.90e+01 c.67.1.1 107543 1jqoA 970 2.91e+01 c.1.12.3 77160 1jysA 242 2.92e+01 c.56.2.1 77216 1z5oA 242 3.00e+01 2py2A 136 3.10e+01 2v0vA 194 3.10e+01 2hddA 61 3.10e+01 2hddA a.4.1.1 15971 2nyvA 222 3.11e+01 1iab 200 3.12e+01 1iae 1iabA 200 3.12e+01 d.92.1.8 40312 1y7mA 164 3.13e+01 b.160.1.1 122696 d.7.1.1 122697 1jeoA 180 3.17e+01 c.80.1.3 66611 1q0qA 406 3.18e+01 a.69.3.1 104464 c.2.1.3 104465 d.81.1.3 104466 3d0cA 314 3.26e+01 1f16A 192 3.29e+01 1f16A f.1.4.1 43400 2j1dG 483 3.30e+01 1ezm 301 3.30e+01 1hyt 1jyoA 130 3.37e+01 d.198.1.1 67483 3bv0A 437 3.43e+01 1xkrA 206 3.45e+01 d.252.1.1 115421 2prgA 271 3.50e+01 2prgA a.123.1.1 19311 1w68A 390 3.52e+01 a.25.1.2 109216 2fphX 165 3.53e+01 2id6A 202 3.62e+01 1yiqA 689 3.63e+01 1iqpA 327 3.64e+01 a.80.1.1 62649 c.37.1.20 62650 1z5nA 242 3.68e+01 3pfk 319 3.70e+01 3pfk 3bhxA 709 3.72e+01 1z77A 200 3.74e+01 a.4.1.9 124588 a.121.1.1 124589 1yv5A 374 3.74e+01 3b8zA 217 3.75e+01 1ithA 141 3.80e+01 1ithA a.1.1.2 15623 1gc0A 398 3.83e+01 c.67.1.3 70168 1adjA 421 3.84e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1h4vB 421 3.90e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1bjaA 95 3.90e+01 1bjaA a.4.5.9 16122 1zgsA 447 3.93e+01 2gsmA 566 4.00e+01 f.24.1.1 135589