# 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.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 1t62A 166 5.76e-05 1ov3A 138 8.69e-01 b.34.2.1 87451 b.34.2.1 87452 1azeA 56 9.17e-01 b.34.2.1 24536 1kzfA 230 1.21e+00 d.108.1.3 73354 1gh8A 89 1.40e+00 1gh8A d.58.12.1 39309 1o0xA 262 1.50e+00 d.127.1.1 80755 1hxpA 348 1.59e+00 1guqA d.13.1.2 37530 d.13.1.2 37531 1ng2A 193 2.17e+00 b.34.2.1 85660 b.34.2.1 85661 1fx3B 169 2.41e+00 1fx3B d.33.1.1 38525 1gupA 348 2.73e+00 1guqA d.13.1.2 37534 d.13.1.2 37535 1cr5A 189 2.97e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 1qcsA 211 3.59e+00 1qcsA b.52.2.3 26927 d.31.1.1 38461 1utiA 58 3.62e+00 b.34.2.1 -3552 1oebA 62 4.09e+00 b.34.2.1 86909 1gcqA 61 4.11e+00 1ckaA b.34.2.1 60434 1guqA 348 4.49e+00 1guqA d.13.1.2 37522 d.13.1.2 37523 1b7yA 350 5.06e+00 1pysA d.104.1.1 40776 1olzA 663 5.19e+00 b.1.1.4 -2678 unknown_sccs -4626 unknown_sccs -12590 1fx3A 169 5.39e+00 1fx3B d.33.1.1 38524 1dptA 117 5.43e+00 1dptA d.80.1.3 39862 1mxb 383 6.45e+00 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1ckaA 57 6.61e+00 1ckaA b.34.2.1 24459 1g2rA 100 6.76e+00 1g2rA d.192.1.1 60231 1oi1A 221 6.95e+00 b.34.9.3 87037 b.34.9.3 87038 1s0yA 76 7.18e+00 d.80.1.1 -10434 1lvl 458 7.40e+00 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1k4jA 230 8.01e+00 d.108.1.3 72057 1oz2A 331 8.15e+00 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 1mxa 383 8.24e+00 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1i0cA 60 8.69e+00 1aojA b.34.2.1 61485 1rg9A 383 8.85e+00 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1otcB 260 1.00e+01 1otcB b.40.4.3 25310 1nt4A 391 1.01e+01 c.60.1.2 -7942 1s72H 171 1.06e+01 1gfc 59 1.06e+01 1griA b.34.2.1 24537 1shfA 59 1.14e+01 1bbzA b.34.2.1 24462 1aqt 138 1.15e+01 1aqt a.2.10.1 15718 b.93.1.1 28435 1e79H 146 1.18e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1lj2C 28 1.26e+01 1aboA 62 1.33e+01 1bbzA b.34.2.1 24474 1bbzA 58 1.37e+01 1bbzA b.34.2.1 24477 1bbzE 58 1.37e+01 1bbzA b.34.2.1 24479 1ukuA 102 1.67e+01 d.58.5.2 -9992 4mbp 370 1.68e+01 4mbp c.94.1.1 35777 1jxmA 301 1.71e+01 b.34.2.1 67420 c.37.1.1 67421 1td5A 202 1.73e+01 1aojA 60 1.75e+01 1aojA b.34.2.1 24555 1e2aA 105 1.79e+01 1e2aA a.7.2.1 16322 1e55A 512 1.82e+01 1e70M c.1.8.4 28934 1h49A 512 1.87e+01 c.1.8.4 83477 1fa0B 537 1.89e+01 1fa0B a.160.1.1 75839 d.218.1.3 75840 d.58.16.1 39336 1g2lA 235 1.93e+01 b.47.1.2 65112 1f5mA 180 1.93e+01 1f5mB d.110.2.1 40895 1uolA 219 1.95e+01 b.2.5.2 -2886 1vasA 137 1.95e+01 2end a.18.1.1 16404 1su4A 994 1.96e+01 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1l5jA 865 2.14e+01 a.118.15.1 73592 c.8.2.1 73593 c.83.1.1 73594 2end 138 2.19e+01 2end a.18.1.1 16400 1ir6A 424 2.23e+01 c.107.1.2 71342 1f5mB 180 2.27e+01 1f5mB d.110.2.1 40896 1mpb 370 2.32e+01 4mbp c.94.1.1 35780 1ej8A 140 2.36e+01 1qupA b.1.8.1 22300 1kp9B 287 2.39e+01 c.66.1.18 68734 1fjsA 234 2.40e+01 1ucyE b.47.1.2 26336 7catA 506 2.42e+01 1cf9A e.5.1.1 42781 1pysA 350 2.43e+01 1pysA d.104.1.1 40775 1nrfA 262 2.49e+01 e.3.1.1 -11780 1griA 217 2.52e+01 1griA b.34.2.1 24531 b.34.2.1 24532 d.93.1.1 40473 1qynA 153 2.77e+01 d.33.1.1 -9585 1oqvA 192 2.80e+01 d.24.1.2 87320 1ntvA 152 2.83e+01 b.55.1.2 86168 1kn0A 212 2.84e+01 d.50.1.3 77444 1ijhA 504 2.85e+01 c.3.1.2 66161 d.16.1.1 66162 1mxtA 504 2.85e+01 c.3.1.2 79671 d.16.1.1 79672 1n1pA 504 2.85e+01 c.3.1.2 -5988 d.16.1.1 -9206 1n4wA 504 2.85e+01 c.3.1.2 -5991 d.16.1.1 -9209 1g99A 408 2.92e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1aua 296 2.93e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1vdkA 466 3.00e+01 a.127.1.1 -1752 1tsrA 219 3.05e+01 1tupA b.2.5.2 22437 1tupA 219 3.05e+01 1tupA b.2.5.2 22434 1uj0A 62 3.08e+01 b.34.2.1 -3570 2tmkA 216 3.10e+01 3tmkA c.37.1.1 31928 1j93A 353 3.11e+01 c.1.22.1 66454 1hbkA 94 3.26e+01 1aca a.11.1.1 60887 1f1gA 154 3.31e+01 b.1.8.1 76153 1l4dB 122 3.31e+01 d.15.5.1 77684 1jcv 153 3.43e+01 1mfmA b.1.8.1 22279 1qu5A 182 3.43e+01 1qu5A b.26.1.2 23922 1b5qA 472 3.54e+01 1b37B c.3.1.2 30404 d.16.1.5 37968 1i16 130 3.57e+01 1i16 b.36.1.2 24787 1eulA 994 3.66e+01 1eulA 1b37A 472 3.77e+01 1b37B c.3.1.2 30389 d.16.1.5 37953 1b37B 472 3.77e+01 1b37B c.3.1.2 30390 d.16.1.5 37954 1b8sA 504 3.79e+01 1b8sA c.3.1.2 30335 d.16.1.1 37866 1h8eH 146 3.88e+01 1e79H b.93.1.1 60757 2e2aA 105 4.00e+01 a.7.2.1 88499