# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1d5wC 126 1.56e-02 1dbwA c.23.1.1 31101 1dckA 126 4.63e-02 1dbwA c.23.1.1 31097 1dbwA 126 5.53e-02 1dbwA c.23.1.1 31095 1bouB 302 2.41e-01 1bouB c.56.6.1 33859 1pcfA 66 1.07e+00 1pcfA d.18.1.1 38142 1fggA 261 1.16e+00 1fggA c.68.1.7 34576 1kwsA 261 1.17e+00 1delA 241 1.35e+00 1dekA c.37.1.1 31844 1jjfA 268 1.83e+00 c.69.1.2 66765 1dekA 241 2.24e+00 1dekA c.37.1.1 31842 1kgsA 225 2.41e+00 a.4.6.1 68596 c.23.1.1 68597 1hf2A 210 3.10e+00 1hf2A b.80.3.1 60992 c.102.1.1 60993 1l6sA 323 3.18e+00 1i3kA 348 3.19e+00 1xel c.2.1.2 61595 1ek6A 348 3.45e+00 1xel c.2.1.2 29800 1pfkA 320 4.24e+00 3pfk c.89.1.1 35575 1azwA 313 4.67e+00 1qtrA c.69.1.7 34658 2dkb 433 4.73e+00 2dkb c.67.1.4 34438 1ble 163 4.99e+00 1ble c.38.1.1 32475 1ntr 124 5.14e+00 1dbwA c.23.1.1 31092 6pfkA 319 5.35e+00 3pfk c.89.1.1 35583 1d7uA 433 5.84e+00 2dkb c.67.1.4 34439 2pfkA 320 6.59e+00 3pfk c.89.1.1 35577 1kzhA 555 6.67e+00 3pfk 319 6.74e+00 3pfk c.89.1.1 35581 1psdA 409 6.76e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1j5eK 129 6.79e+00 1thm 279 7.57e+00 1gci c.41.1.1 32544 1ef8A 261 7.83e+00 1ef8A c.14.1.3 30921 4pfk 319 7.90e+00 3pfk c.89.1.1 35582 1behA 187 7.94e+00 1a44 b.17.1.1 23700 1i8jA 323 8.25e+00 1b4kA c.1.10.3 61968 1jztA 246 8.43e+00 c.104.1.1 63319 1fgjA 546 8.90e+00 1fgjA a.138.1.3 19679 1k78A 149 9.98e+00 a.4.1.5 68255 a.4.1.5 68256 1iufA 144 1.01e+01 1dxeA 256 1.03e+01 1dxeA c.1.12.5 29310 1gklA 297 1.04e+01 c.69.1.2 65250 1gkkA 297 1.07e+01 c.69.1.2 65248 4pgaA 337 1.08e+01 4pgaA c.88.1.1 35565 1vjs 483 1.13e+01 1bli b.71.1.1 27714 c.1.8.1 28701 1pjr 724 1.18e+01 1pjr c.37.1.13 32391 c.37.1.13 32392 1fjgK 129 1.25e+01 1fjfK c.55.4.1 33733 1hzpA 335 1.25e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1j8fA 323 1.33e+01 1j8fA c.31.1.5 62738 1dbqA 289 1.33e+01 1qpzA c.93.1.1 35666 1a44 185 1.33e+01 1a44 b.17.1.1 23704 1liiA 363 1.34e+01 1gt91 357 1.36e+01 1b4eA 323 1.40e+01 1b4kA c.1.10.3 29186 1nif 340 1.40e+01 1nif b.6.1.3 23048 b.6.1.3 23049 3pga1 337 1.42e+01 4pgaA 1ekeA 230 1.46e+01 1ekeA c.55.3.1 33572 1d2kA 392 1.51e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1d3yA 301 1.59e+01 1d3yA e.12.1.1 43252 1bupA 386 1.64e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1etu 394 1.65e+01 1efcA c.37.1.8 64737 1g9oA 91 1.66e+01 1pdr b.36.1.1 60400 1kay 381 1.66e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1oakA 196 1.74e+01 1auq c.62.1.1 34138 1qh8B 519 1.84e+01 1qguB c.92.2.3 35634 1qguB 519 1.86e+01 1qguB c.92.2.3 35626 1qtrA 317 1.88e+01 1qtrA c.69.1.7 34660 1ewkA 490 1.88e+01 1ewkA c.93.1.1 35712 2aaa 484 1.89e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1cseE 274 1.92e+01 1gci c.41.1.1 32481 1fiqC 763 1.92e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1oasA 322 1.94e+01 1oasA c.79.1.1 35293 1gp2G 71 1.98e+01 1tbgE a.137.3.1 19635 1byrA 155 2.05e+01 1byrA d.136.1.1 41450 1qpzA 340 2.13e+01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1fcjA 322 2.13e+01 1oasA c.79.1.1 35289 1pne 140 2.15e+01 1pne d.110.1.1 40866 1cvrA 435 2.20e+01 1cvrA b.1.1.5 21949 c.17.1.2 31006 1ba1 386 2.24e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1fiuA 286 2.46e+01 1fiuA c.52.1.10 33317 1ig3A 263 2.53e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1dmlA 319 2.57e+01 1dmlA d.131.1.2 41380 d.131.1.2 41381 1fezA 256 2.58e+01 1fezA c.108.1.3 43343 1jilA 420 2.62e+01 c.26.1.1 66745 1jx6A 342 2.63e+01 c.93.1.1 67406 1iawA 317 2.71e+01 c.52.1.9 62126 1fil 139 2.78e+01 1pne d.110.1.1 40869 1nox 205 2.81e+01 1nox d.90.1.1 40242 1ax0 239 2.81e+01 1led b.29.1.1 24042 1fnsA 196 2.87e+01 1auq c.62.1.1 34136 1gdhA 320 2.87e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1fo4A 1332 2.87e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1gmxA 108 2.89e+01 c.46.1.3 65355 1jscA 630 2.91e+01 c.31.1.3 67224 c.36.1.1 67225 c.36.1.1 67226 1ermA 263 2.91e+01 1btl e.3.1.1 42690 1gjuA 637 2.95e+01 b.71.1.1 60580 c.1.8.1 60581 1iirA 415 2.95e+01 1iirA c.87.1.5 62453 1gjwA 637 3.01e+01 b.71.1.1 60582 c.1.8.1 60583 1jp3A 253 3.07e+01 1f75A c.101.1.1 63221 1gzcA 239 3.16e+01 1jsrA 327 3.18e+01 c.88.1.1 67237 1fqgA 263 3.24e+01 1btl e.3.1.1 42699 1adoA 363 3.28e+01 1fbaA c.1.10.1 29124 1icyA 37 3.28e+01 1icxA 155 3.28e+01 1l7uA 263 3.30e+01 1m40A 263 3.30e+01 1dsxA 87 3.32e+01 1t1dA d.42.1.2 38644 1yer 228 3.33e+01 1yer d.122.1.1 41101 1bg4 302 3.35e+01 1taxA c.1.8.3 28806 1b73A 254 3.35e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1fjgB 256 3.41e+01 1fjfB c.23.15.1 31400 1fqvA 336 3.48e+01 1fqvA a.122.1.1 19254 c.10.1.3 30856 1agx 331 3.49e+01 4pgaA c.88.1.1 35564 1byqA 228 3.58e+01 1yer d.122.1.1 41100 1k0nA 241 3.59e+01 a.45.1.1 67953 c.47.1.5 67954 1oaa 259 3.62e+01 1oaa c.2.1.2 29829 1fw9A 164 3.66e+01 1fw9A d.190.1.1 60059 1otfA 62 3.67e+01 1otfA d.80.1.1 39820 1k0mA 241 3.70e+01 a.45.1.1 67949 c.47.1.5 67950 1btl 263 3.80e+01 1btl e.3.1.1 42691