# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1p32C 209 5.73e-02 1p32A d.25.1.1 38381 1p32A 209 8.26e-02 1p32A d.25.1.1 38379 1d0aB 168 1.85e-01 1d0aB b.8.1.1 23224 h.1.2.1 45431 1mhdA 132 2.22e-01 1mhdA d.164.1.1 42175 1czyC 168 2.32e-01 1d0aB b.8.1.1 23222 h.1.2.1 45429 1ca9A 192 2.45e-01 1d0aB b.8.1.1 23244 h.1.2.1 45451 1czyA 168 2.64e-01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1ozjA 144 3.06e-01 d.164.1.1 -11537 1ca4A 168 3.88e-01 1d0aB b.8.1.1 23238 h.1.2.1 45445 1ho1A 242 4.89e-01 1ho1A c.1.24.1 61097 1m5wA 243 5.88e-01 c.1.24.1 84836 1kutA 230 7.45e-01 d.143.1.1 73017 1iktA 120 1.75e+00 d.106.1.1 66188 1jatB 138 3.22e+00 1jatB d.20.1.1 62819 1mvfD 82 5.60e+00 b.129.1.1 85143 1qwgA 251 6.37e+00 unknown_sccs -5678 1k0eA 453 7.03e+00 d.161.1.1 67938 1pkoA 139 7.18e+00 b.1.1.1 88147 1opjA 293 7.57e+00 d.144.1.7 87230 1k0gA 453 7.69e+00 d.161.1.1 67940 1onqA 283 7.90e+00 b.1.1.2 -2640 d.19.1.1 -9390 1qndA 123 8.39e+00 1qndA d.106.1.1 40794 1ox8A 107 8.68e+00 unknown_sccs -3796 1d02A 202 9.00e+00 1d02A c.52.1.8 33313 1moq 368 9.32e+00 1moq c.80.1.1 35302 1g94A 448 9.69e+00 b.71.1.1 65169 c.1.8.1 65170 1vcbC 160 1.01e+01 1vcbC b.3.3.1 22535 1ucyE 109 1.10e+01 1ucyE 1ecrA 309 1.15e+01 1ecrA e.2.1.1 42678 1lqbC 162 1.15e+01 b.3.3.1 74186 1cec 343 1.22e+01 1ceo c.1.8.3 28809 1k8kD 300 1.26e+01 d.198.2.1 68309 d.198.2.1 68310 1ae1A 273 1.30e+01 1bdb c.2.1.2 29943 1ezwA 349 1.32e+01 1ezwA c.1.16.3 29558 1psdA 409 1.33e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1dj8A 89 1.41e+01 1bg8A a.57.1.1 17919 1irxA 523 1.65e+01 a.97.1.2 71378 c.26.1.1 71379 1o7zA 77 1.67e+01 d.9.1.1 86660 1fnnA 389 1.73e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1po5A 476 1.78e+01 a.104.1.1 -1467 1rm8A 169 1.78e+01 d.92.1.11 -10584 1lvwA 295 1.79e+01 c.68.1.6 84723 1oa8A 133 1.80e+01 unknown_sccs -5142 1el4A 195 1.81e+01 1ej3A a.39.1.5 59453 1guaB 81 1.98e+01 1c1yB d.15.1.5 37619 1lm8V 160 1.99e+01 b.3.3.1 74035 1gm7B 557 2.15e+01 1lv9A 77 2.24e+01 d.9.1.1 78233 1be3D 241 2.28e+01 1be3D a.3.1.3 15955 f.23.11.1 43666 1eq0A 158 2.32e+01 d.58.30.1 64909 1ojqA 212 2.33e+01 d.166.1.1 -11568 1e3sA 261 2.33e+01 1e6wA c.2.1.2 59201 1kamA 194 2.35e+01 c.26.1.3 72254 1d4xG 126 2.37e+01 1d0nA d.109.1.1 59109 1cei 94 2.37e+01 1cei a.28.2.1 16939 1di6A 195 2.39e+01 1di6A c.57.1.1 33863 1pnkB 557 2.39e+01 1ajqB 1gk9B 557 2.40e+01 1s6cA 183 2.46e+01 a.39.1.5 -858 1bg8A 89 2.49e+01 1bg8A a.57.1.1 17925 1f1xA 322 2.49e+01 d.32.1.3 83208 d.32.1.3 83209 1h1oA 183 2.51e+01 a.3.1.4 83454 a.3.1.4 83455 1s6yA 450 2.56e+01 1ajqB 557 2.59e+01 1ajqB 1ytbB 180 2.60e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1gkfB 557 2.65e+01 1e3aB 560 2.66e+01 1ajqB 1ppjD 241 2.69e+01 1bccD 241 2.77e+01 1be3D a.3.1.3 15959 f.23.11.1 43698 1ew4A 106 2.84e+01 1ew4A d.82.2.1 40023 1cxvA 164 2.88e+01 1ck7A d.92.1.11 40404 1a78A 134 2.91e+01 1c1lA b.29.1.3 24212 1b5tA 275 2.93e+01 1b5tA c.1.23.1 29676 1yagG 125 2.99e+01 1d0nA d.109.1.1 40846 1k9uA 78 3.00e+01 a.39.1.10 84348 1ytbA 180 3.01e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1rj9A 304 3.04e+01 a.24.13.1 -631 c.37.1.10 -7129 1pqzA 238 3.06e+01 1ub4C 85 3.11e+01 b.129.1.1 88401 1aqm 453 3.21e+01 1smd b.71.1.1 27717 c.1.8.1 28704 1c1yB 77 3.21e+01 1c1yB d.15.1.5 37618 1i27A 73 3.22e+01 1i27A a.4.5.30 61555 1ko9A 345 3.32e+01 a.96.1.3 68717 d.129.1.2 68718 1rerA 391 3.32e+01 b.1.18.4 -2740 f.10.1.1 -12385 1gm9B 557 3.32e+01 1g5cA 170 3.40e+01 1g5cA c.53.2.1 60264 1nm1G 125 3.70e+01 d.109.1.1 80653 1f1uA 323 3.79e+01 d.32.1.3 83200 d.32.1.3 83201 1m42A 102 3.86e+01 b.1.18.17 78597 1rfa 79 3.88e+01 1c1yB d.15.1.5 37620 1pil 112 3.92e+01 2pii d.58.5.1 39072 2cgpA 210 3.99e+01 2cgpA a.4.5.4 16102 b.82.3.2 28141