# List of top-scoring protein chains for T0380.t2k-w0.5 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 1dnlA 199 6.91e-15 1ci0A b.45.1.1 25753 1g79A 218 7.07e-15 1ci0A b.45.1.1 25752 2fhqA 141 1.17e-14 1nrgA 261 2.27e-09 b.45.1.1 80694 2fg9A 178 1.39e-07 1rfeA 162 1.73e-07 1t9mA 214 2.60e-07 2a2jA 246 9.80e-07 1ty9A 222 6.93e-06 1ci0A 228 6.84e-05 1ci0A b.45.1.1 25750 2asfA 137 2.54e-03 2aq6A 147 6.62e-03 1vl7A 157 9.46e-03 b.45.1.1 108732 1wlkA 122 2.51e-02 1wllA 122 2.53e-02 1wliA 122 2.53e-02 1flmA 122 2.53e-02 1axj b.45.1.1 25747 1w3oA 216 1.42e-01 1ejeA 192 2.15e-01 1ejeA b.45.1.2 25757 2furA 209 3.33e-01 2bgiA 272 1.66e+00 1wvbA 322 2.78e+00 2aebA 322 2.78e+00 1j58A 385 4.52e+00 b.82.1.2 71531 1oi1A 221 4.78e+00 b.34.9.3,b.34.9.3 87037,87038 2bivA 243 5.58e+00 2fauA 341 7.35e+00 2b0jA 358 8.83e+00 2etvA 346 1.02e+01 1lf9B 674 1.68e+01 a.102.1.5,b.30.5.5 77924,77925 1lf6A 684 1.68e+01 a.102.1.5,b.30.5.5 77918,77919 1x4nA 92 1.78e+01 1cyg 680 1.79e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21843,22512,27750,28737 2fnqA 699 1.98e+01 1gyfA 62 2.12e+01 1gyfA d.76.1.1 39749 1syxB 86 2.23e+01 1pse 69 2.48e+01 1pse b.34.4.2 24595 1vmeA 410 2.65e+01 c.23.5.1,d.157.1.3 108893,108894 4fiv 113 2.72e+01 1fmb b.50.1.1 26762 5fivA 113 2.92e+01 1fmb b.50.1.1 26765 1ye8A 178 3.10e+01 3fivA 116 3.11e+01 1fmb b.50.1.1 26768 1w66A 232 3.24e+01 1bxcA 387 3.84e+01 4xis c.1.15.3 29539 1m2aA 110 3.88e+01 c.47.1.11 78472 1r17A 343 4.04e+01 b.2.3.4,b.2.3.4 96796,96797 1f99B 172 4.13e+01 1qgwC a.1.1.3 59723 2fzlA 219 4.22e+01 2h2yA 136 4.28e+01 1m2bA 110 4.62e+01 c.47.1.11 78474 1vrdA 494 4.63e+01 1g63A 181 4.97e+01 1g5qA c.34.1.1 60299 1yxaA 398 4.99e+01 1g5qA 181 5.12e+01 1g5qA c.34.1.1 60288 1nnt 328 5.39e+01 1nnt c.94.1.2 35884 1tfaA 329 5.46e+01 1nnt c.94.1.2 35880 1iejA 332 5.53e+01 1nnt c.94.1.2 62328 2fcjA 119 5.84e+01 2c9yA 242 5.95e+01 2bw3A 534 6.04e+01 1xhnA 184 6.11e+01 1t0vA 184 6.15e+01 1xg0C 177 6.44e+01 1ej9A 563 6.66e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 1lpqA 564 6.67e+01 a.2.8.1,d.163.1.2,e.15.1.1 74174,74175,74176 1nh3A 563 6.68e+01 d.163.1.2,e.15.1.1 85710,85711 1rrjA 565 6.70e+01 a.2.8.1,d.163.1.2,e.15.1.1 105078,105079,105080 1h2bA 359 6.71e+01 b.35.1.2,c.2.1.1 90543,90544 1bxbA 387 6.71e+01 4xis c.1.15.3 29543 1a35A 591 6.94e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 1a31A 591 6.95e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 1r49A 592 6.96e+01 a.2.8.1,d.163.1.2,e.15.1.1 96983,96984,96985 1k4tA 592 6.97e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1seuA 592 6.97e+01 1rr8C 565 7.22e+01 d.163.1.2,e.15.1.1 105076,105077 1v3wA 173 7.29e+01 b.81.1.5 100291 1s14A 194 7.29e+01 d.122.1.2 98329 1x9nA 688 7.51e+01 1n0sA 184 7.61e+01 b.60.1.1 91526 2a4vA 159 7.61e+01 1m2dA 110 7.78e+01 c.47.1.11 78476 1pvtA 238 7.86e+01 c.74.1.1 95189 1wydA 429 8.00e+01 1z6xA 180 8.39e+01 1o4uA 285 8.69e+01 c.1.17.1,d.41.2.1 86624,86625 2ay1A 394 8.80e+01 1ajsA c.67.1.1 34357 1tsjA 139 8.85e+01 1uapA 154 8.93e+01 b.40.3.3 88385