# 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 1pjjA 271 7.28e-01 1nnjA 271 7.42e-01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1faeA 629 1.29e+00 1fce a.102.1.2 18837 1g9gA 629 1.29e+00 a.102.1.2 83279 1fce 629 1.29e+00 1fce a.102.1.2 18836 1st0A 337 1.37e+00 unknown_sccs -9014 unknown_sccs -9474 1d6zA 727 1.89e+00 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1nnhA 294 1.98e+00 d.104.1.1 -10772 1phk 298 2.27e+00 1cdkA d.144.1.7 41635 1r31A 428 2.74e+00 d.58.20.1 -10108 d.179.1.1 -11716 1v8gA 329 4.76e+00 a.46.2.1 -953 c.27.1.1 -6644 1qaxA 428 4.86e+00 1qaxA d.58.20.1 39376 d.179.1.1 42597 1qayA 428 4.94e+00 1qaxA d.58.20.1 39378 d.179.1.1 42599 1cl8A 276 6.24e+00 1ckqA c.52.1.1 33230 1ckqA 276 6.25e+00 1ckqA c.52.1.1 33229 1qpsA 261 6.87e+00 1ckqA c.52.1.1 33234 1khbA 625 7.72e+00 c.91.1.1 68606 c.109.1.1 68607 1spuB 727 7.97e+00 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1oacA 727 9.24e+00 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1hm9A 468 1.02e+01 b.81.1.4 65866 c.68.1.5 65867 1ystH 260 1.03e+01 6prcH b.41.1.1 25482 f.23.10.1 43511 1mh3A 421 1.03e+01 a.4.1.1 79112 c.94.1.1 79113 1g97A 459 1.05e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1eriA 276 1.23e+01 1ckqA c.52.1.1 33231 1ky3A 182 1.31e+01 c.37.1.8 73193 1fxjA 331 1.53e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1anf 370 1.60e+01 4mbp c.94.1.1 35776 1f82A 424 1.63e+01 1f82A d.92.1.7 40307 1fwyA 331 1.69e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 1v4sA 455 1.73e+01 c.55.1.3 -7604 c.55.1.3 -7605 1qnrA 344 1.74e+01 1qnoA c.1.8.3 28834 1qftA 175 1.84e+01 1qftA b.60.1.1 27151 1dctA 324 1.85e+01 6mhtA c.66.1.26 34244 1omp 370 1.90e+01 4mbp c.94.1.1 35778 1gdeA 389 1.91e+01 c.67.1.1 60456 1gd9A 389 1.94e+01 c.67.1.1 60454 1eg2A 319 2.01e+01 1eg2A c.66.1.11 34249 1f83A 425 2.06e+01 1f82A d.92.1.7 40306 1g0sA 209 2.07e+01 1g0sA d.113.1.1 60187 9ldtA 332 2.11e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1e87A 118 2.15e+01 1b6e d.169.1.1 42327 1nw8A 319 2.26e+01 c.66.1.11 86292 1ln1A 214 2.30e+01 d.129.3.2 74038 1cs8A 316 2.41e+01 1cs8A d.3.1.1 37065 4mbp 370 2.46e+01 4mbp c.94.1.1 35777 1fmaD 81 2.56e+01 1fmaD d.15.3.1 37643 1ukkA 142 2.72e+01 d.227.1.1 -11206 1tx4B 178 2.79e+01 1ctqA c.37.1.8 32045 1fm0D 81 2.80e+01 1fmaD d.15.3.1 37642 1dj0A 264 2.86e+01 1dj0A unknown_sccs -10141 1l1eA 287 2.89e+01 c.66.1.18 73454 1jj2E 177 3.05e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1on3A 523 3.11e+01 c.14.1.4 87107 c.14.1.4 87108 1uxy 340 3.11e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1qnoA 344 3.12e+01 1qnoA c.1.8.3 28838 1s72E 178 3.13e+01 1fnoA 417 3.14e+01 c.56.5.4 75841 d.58.19.1 70145 1pqhA 143 3.16e+01 b.52.2.1 -4318 1erjA 393 3.20e+01 1erjA b.69.4.1 27660 1ryc 294 3.32e+01 1ryc a.93.1.1 18601 1hv9A 456 3.33e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 2cyp 294 3.37e+01 1ryc a.93.1.1 18600 1mwsA 646 3.49e+01 d.17.4.5 79592 d.175.1.1 79593 e.3.1.1 79594 1fm5A 199 3.52e+01 1fm5A d.169.1.1 42330 1gwmA 153 3.61e+01 b.18.1.19 83348 1hrdA 449 3.74e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1ccg 291 3.90e+01 1ryc a.93.1.1 18627 3proD 166 3.92e+01 3proC d.52.1.1 38814 d.52.1.1 38815