# 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 1zvdA 380 6.57e-01 1yaxA 153 1.46e+00 1m6dA 214 3.21e+00 d.3.1.1 84849 1r12A 258 3.30e+00 e.4.1.1 96780 1nt4A 391 3.69e+00 c.60.1.2 92102 1n2sA 299 3.70e+00 c.2.1.2 79857 1lbeA 258 3.75e+00 1lbeA e.4.1.1 42773 1r5zA 323 4.57e+00 f.40.1.1 97135 1mnp 357 5.16e+00 1arv a.93.1.1 18668 1yydA 357 5.19e+00 1u04A 771 6.00e+00 b.34.14.1 107539 c.55.3.10 107540 1mn1 357 6.23e+00 1arv a.93.1.1 18667 1wpgA 994 6.87e+00 1x9mA 698 7.35e+00 1enj 138 8.50e+00 2end a.18.1.1 16401 1su4A 994 8.62e+00 b.82.7.1 98993 c.108.1.7 98994 d.220.1.1 98995 f.33.1.1 98996 1tueB 218 8.86e+00 b.91.1.1 107324 1lfpA 249 8.90e+00 e.39.1.1 73885 2bykA 140 9.80e+00 1xc0A 33 1.01e+01 j.6.1.1 109542 1s5lX 50 1.04e+01 1eni 138 1.06e+01 2end a.18.1.1 16403 1ll2A 333 1.09e+01 c.68.1.14 74005 1enk 138 1.18e+01 2end a.18.1.1 16402 1z83A 196 1.21e+01 2end 138 1.29e+01 2end a.18.1.1 16400 1f07A 321 1.39e+01 1ezwA c.1.16.3 59560 1qqhA 144 1.40e+01 1dtoA b.91.1.1 28404 1ws6A 171 1.44e+01 1vasA 137 1.50e+01 2end a.18.1.1 16404 2bifA 469 1.53e+01 1bif c.37.1.7 31963 c.60.1.4 34009 1exbA 332 1.56e+01 1qrqA c.1.7.1 28666 1bg6 359 1.61e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1ash 150 1.73e+01 1ash a.1.1.2 15622 1jeqB 565 1.74e+01 1jeqB b.131.1.2 90368 c.62.1.4 90369 1bx4A 345 1.75e+01 1bx4A c.72.1.1 34935 1fbtA 190 1.76e+01 1bif c.60.1.4 34004 1zsxA 347 1.81e+01 3pbgA 468 1.83e+01 1e70M c.1.8.4 28951 1a17 166 1.90e+01 1a17 a.118.8.1 19206 2cz1A 206 1.95e+01 2ahjA 206 1.96e+01 2ahjA d.149.1.1 41772 1jeyB 565 2.01e+01 1jeqB b.131.1.2 90372 c.62.1.4 90373 1ll0A 339 2.06e+01 c.68.1.14 73995 1f88A 348 2.07e+01 1f88A f.13.1.2 43429 2ew2A 316 2.10e+01 1pbgA 468 2.10e+01 1e70M c.1.8.4 28946 1o2dA 371 2.19e+01 e.22.1.2 86591 1yw0A 276 2.25e+01 1dceA 567 2.26e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1binB 143 2.36e+01 2gdm a.1.1.2 15232 1lfdA 87 2.41e+01 1lfdA d.15.1.5 37622 3bifA 468 2.43e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1t7pA 698 2.44e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1gpmA 525 2.52e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1ehkB 168 2.61e+01 2cuaA b.6.1.2 23041 f.17.2.1 43625 1t0qA 498 2.62e+01 a.25.1.2 106220 1u5tA 233 2.74e+01 a.4.5.54 107684 a.4.5.54 107685 1o51A 114 2.79e+01 d.58.5.4 92480 1oyc 400 2.84e+01 1oyc c.1.4.1 28603 1mioA 534 2.87e+01 1qguA c.92.2.3 35601 1ap6A 198 2.87e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1oyb 400 2.87e+01 1oyc c.1.4.1 28602 1ak0 270 2.89e+01 1ak0 a.124.1.2 19345 1wwpA 119 2.90e+01 1abmA 198 2.91e+01 1avmA 1ii6A 368 2.91e+01 1bg2 c.37.1.9 62413 1lxdA 100 2.92e+01 1lfdA d.15.1.5 37624 1oya 400 2.93e+01 1oyc c.1.4.1 28604 1pl4A 198 2.93e+01 a.2.11.1 94854 d.44.1.1 94855 1rwtA 232 3.04e+01 f.43.1.1 97992 1rzl 91 3.04e+01 1rzl a.52.1.1 17817 1ahjA 207 3.06e+01 2ahjA d.149.1.1 41774 1le6A 123 3.12e+01 a.133.1.2 73862 2ahjC 206 3.24e+01 2ahjA d.149.1.1 41773 1bif 469 3.25e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1ovnA 248 3.30e+01 a.71.1.1 93602 c.47.1.7 93603 1yrlA 491 3.33e+01 1zsyA 357 3.34e+01 3adk 195 3.43e+01 1zin c.37.1.1 31885 1z3xA 238 3.44e+01 1j8mF 297 3.51e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1qrqA 325 3.53e+01 1qrqA c.1.7.1 28667 1lj8A 493 3.53e+01 a.100.1.9 90392 c.2.1.6 90393 1j8yF 297 3.53e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1v9mA 323 3.64e+01 f.40.1.1 100543 1xrdA 52 3.68e+01 1cxpC 466 3.77e+01 1mhlC 1eulA 994 3.94e+01 1eulA 1b4fG 82 3.95e+01 1b4fA a.60.1.2 17940 1m2eA 135 3.98e+01 c.23.1.5 78478