# List of top-scoring protein chains for t04-100-30-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 1mkiA 330 4.75e-46 e.3.1.2 84994 1i2sA 282 1.60e-02 e.3.1.1 71104 4blmA 265 5.04e-02 1btl e.3.1.1 42721 1iysA 262 5.55e-02 e.3.1.1 -11760 1ghpA 258 7.75e-02 1btl e.3.1.1 60520 1bza 262 8.65e-02 1btl e.3.1.1 42701 2sqcA 631 1.19e-01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1pjjA 271 7.91e-01 1is1A 185 7.98e-01 d.67.3.1 83704 1g6aA 271 9.89e-01 1btl e.3.1.1 42704 1qq7A 253 1.14e+00 1qq5A c.108.1.1 43329 1qq5A 253 1.18e+00 1qq5A c.108.1.1 43327 1bsg 266 1.38e+00 1btl e.3.1.1 42729 1j1jA 240 1.77e+00 a.118.16.1 -1637 1nnjA 271 2.05e+00 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1uch 230 2.26e+00 1uch d.3.1.6 37129 1oshA 232 2.37e+00 a.123.1.1 -1697 1dgfA 497 3.37e+00 1cf9A e.5.1.1 42782 1hzoA 271 3.60e+00 e.3.1.1 71092 1qwlA 505 4.04e+00 e.5.1.1 -11823 1fcyA 236 4.10e+00 2lbd a.123.1.1 19282 1klxA 138 4.12e+00 a.118.18.1 77440 1ei5A 520 4.31e+00 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1n9bA 265 4.96e+00 e.3.1.1 85463 1pd21 199 5.25e+00 1pd21 1uw4B 248 5.33e+00 unknown_sccs -1560 1top 162 5.45e+00 1ncx a.39.1.5 17223 1rzhL 281 5.61e+00 f.26.1.1 -12215 1m7sA 484 5.93e+00 e.5.1.1 74574 1ne9A 335 6.43e+00 d.108.1.4 -10805 d.108.1.4 -10806 1ouvA 273 6.94e+00 a.118.18.1 -1586 1omhA 293 8.51e+00 unknown_sccs -10527 1dfoA 417 8.82e+00 1bj4A c.67.1.4 34480 1el4A 195 8.88e+00 1ej3A a.39.1.5 59453 1btl 263 9.38e+00 1btl e.3.1.1 42691 1ad4A 266 1.02e+01 1aj2 c.1.21.1 29670 1m40A 263 1.05e+01 e.3.1.1 74437 1rec 201 1.07e+01 1rec a.39.1.5 17326 1q2wA 308 1.10e+01 b.47.1.4 88355 1ezvD 245 1.12e+01 1be3D a.3.1.3 59546 f.23.11.1 59547 1cqxA 403 1.13e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1pbv 195 1.14e+01 1pbv a.118.3.1 19179 1kb9D 246 1.16e+01 a.3.1.3 77317 f.23.11.1 77318 1keaA 221 1.16e+01 a.96.1.2 68491 1ci9A 392 1.19e+01 e.3.1.1 64767 1ornA 226 1.21e+01 a.96.1.1 87342 1s3zA 165 1.21e+01 1q5dA 419 1.24e+01 a.104.1.1 -1454 1cqqA 180 1.27e+01 1cqqA b.47.1.4 26422 1jfbA 404 1.35e+01 a.104.1.1 66624 4crxA 322 1.46e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1r8sE 203 1.53e+01 a.118.3.1 -1579 1ermA 263 1.54e+01 1btl e.3.1.1 42690 1e25A 282 1.55e+01 1e25A e.3.1.1 42731 1uldA 150 1.59e+01 b.29.1.3 -3423 1eca 136 1.63e+01 1flp a.1.1.2 15209 1uwzA 136 1.66e+01 1k8kD 300 1.74e+01 d.198.2.1 68309 d.198.2.1 68310 1k0dA 260 1.77e+01 a.45.1.1 67930 c.47.1.5 67931 1ad1A 266 1.80e+01 1aj2 c.1.21.1 29668 1gpr 162 1.85e+01 1gpr b.84.3.1 28267 1a4pA 96 1.88e+01 1b4cA a.39.1.2 17176 1fm9D 272 1.90e+01 2prgA a.123.1.1 19313 2olbA 517 1.91e+01 1jevA c.94.1.1 35721 16pk 415 2.01e+01 16pk c.86.1.1 35454 1qv1A 195 2.04e+01 a.39.1.5 -830 1l8bA 190 2.06e+01 d.86.1.1 73683 1o7eA 276 2.23e+01 e.3.1.1 -11766 1ek8A 185 2.24e+01 1ek8A d.67.3.1 59444 1dm5A 315 2.30e+01 1avc a.65.1.1 18186 1f24A 402 2.39e+01 1rom a.104.1.1 18953 1p99A 295 2.41e+01 c.94.1.1 -8697 1nq7A 244 2.44e+01 a.123.1.1 -1682 2ahjA 206 2.46e+01 2ahjA d.149.1.1 41772 1jf2A 195 2.49e+01 1ej3A a.39.1.5 62930 1cf9A 753 2.55e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1squA 155 2.58e+01 unknown_sccs -10229 1efnB 152 2.61e+01 1efnB d.102.1.1 40699 1hm6A 346 2.73e+01 1avc a.65.1.1 18147 1jtkA 136 2.75e+01 c.97.1.1 71862 1d5rA 324 2.80e+01 1d5rA b.7.1.1 23181 c.45.1.1 32697 1mp1A 111 3.04e+01 unknown_sccs -996 1p80A 753 3.04e+01 c.23.16.3 -6547 e.5.1.1 -11840 1jpzA 473 3.05e+01 a.104.1.1 67069 1q5zA 177 3.09e+01 unknown_sccs -1215 1k82A 268 3.15e+01 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1ej1A 190 3.18e+01 1ejhA d.86.1.1 40144 1auiB 169 3.23e+01 1auiB a.39.1.5 17325 1abv 134 3.29e+01 1abv a.70.1.1 18317 1gdoA 240 3.37e+01 1gdoA d.153.1.1 41804 1mh1 186 3.38e+01 1eesA c.37.1.8 32002 1regX 122 3.46e+01 1regX d.58.27.1 39406 1qb2A 109 3.50e+01 1qb2A a.36.1.1 17125 1odoA 408 3.64e+01 a.104.1.1 -1463 1vdkA 466 3.66e+01 a.127.1.1 -1752 1vh7A 265 3.70e+01 c.1.2.1 -5159 1or3A 165 3.71e+01 1nfn a.24.1.1 16522 1h8dH 260 3.82e+01 5ptp 1jetA 517 3.87e+01 1jevA c.94.1.1 35718 1iyhA 198 3.88e+01 a.45.1.1 83790 c.47.1.5 83791 1kl1A 419 3.95e+01 c.67.1.4 72663