# List of top-scoring protein chains for t2k-100-30-bys 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 1sixA 174 5.75e-01 b.85.4.1 -5030 1gbg 214 7.85e-01 1axkA b.29.1.2 24171 1vzoA 355 8.64e-01 1bywA 110 9.17e-01 1bywA d.110.3.6 40912 1mq7A 154 1.10e+00 b.85.4.1 79404 1ngvA 534 1.19e+00 c.111.1.2 85698 1oroA 213 1.45e+00 1opr c.61.1.1 34093 1d2gA 292 1.82e+00 1xvaA c.66.1.5 34187 1miqA 375 2.02e+00 b.50.1.2 79151 1axkA 394 2.28e+00 1axkA b.29.1.2 24181 b.29.1.11 24315 1n9lA 109 3.36e+00 d.110.3.6 85468 2ayh 214 3.58e+00 1axkA b.29.1.2 24172 1fbr 93 4.87e+00 1fbr g.27.1.1 44948 g.27.1.1 44949 1j2gA 319 5.49e+00 1s0yA 76 5.62e+00 d.80.1.1 -10434 1bv8A 138 5.80e+00 1ayoA b.2.4.1 22430 1dun 134 5.85e+00 1dun b.85.4.1 28371 1qs8A 329 6.52e+00 1smrA b.50.1.2 26887 1ptmA 329 7.08e+00 unknown_sccs -8456 1f7dA 136 7.60e+00 1dun b.85.4.1 28353 1opr 213 7.98e+00 1opr c.61.1.1 34091 1xvaA 292 8.93e+00 1xvaA c.66.1.5 34183 1euaA 213 9.92e+00 1fwrA c.1.10.1 29155 1q9uA 130 1.00e+01 unknown_sccs -11025 3cbh 365 1.04e+01 1bvwA c.6.1.1 30665 1qcrJ 59 1.05e+01 1be3J f.23.14.1 43679 1lh0A 213 1.11e+01 c.61.1.1 73896 1bhjA 292 1.19e+01 1xvaA c.66.1.5 34189 1qhoA 686 1.20e+01 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1jssA 224 1.23e+01 d.129.3.2 71844 1b57A 358 1.24e+01 1dosA c.1.10.2 29177 1fwrA 213 1.24e+01 1fwrA c.1.10.1 29164 1fr9A 194 1.35e+01 1fr9A c.68.1.8 34579 1aj6 219 1.36e+01 1aj6 d.122.1.2 41106 1snzA 344 1.39e+01 b.30.5.4 -3496 1dd5A 185 1.50e+01 1dd5A d.67.3.1 39564 1fmtA 314 1.50e+01 1fmtA b.46.1.1 25758 c.65.1.1 34174 1lnrI 134 1.58e+01 1fjrA 195 1.59e+01 1fjrA b.102.1.1 59855 1qlmA 316 1.67e+01 1qlmA d.147.1.1 41765 1vi9A 299 1.69e+01 c.72.1.5 -8393 3rnt 104 1.78e+01 9rnt d.1.1.4 36069 1i0vA 104 1.79e+01 9rnt d.1.1.4 36054 1souA 194 1.91e+01 1e5kA 201 2.00e+01 1fr9A c.68.1.8 34578 1e79G 272 2.34e+01 1e79G c.49.2.1 33158 1fmtB 314 2.43e+01 1fmtA b.46.1.1 25759 c.65.1.1 34175 1dlhB 188 2.44e+01 1iakB b.1.1.2 21598 d.19.1.1 38172 1sf8A 126 2.46e+01 1kolA 398 2.54e+01 b.35.1.2 77474 c.2.1.1 77475 9rnt 104 2.59e+01 9rnt d.1.1.4 36055 1r5zA 323 2.63e+01 unknown_sccs -12289 1kxrA 339 2.69e+01 d.3.1.3 73175 1iyu 79 2.78e+01 1iyu b.84.1.1 28227 1qyrA 252 2.83e+01 1cb2A 365 2.95e+01 1bvwA c.6.1.1 30661 1czfA 362 3.00e+01 1czfA b.80.1.3 28031 1fq0A 213 3.12e+01 1fwrA c.1.10.1 29161 1cpn 208 3.17e+01 1axkA b.29.1.2 24175 1idsA 207 3.30e+01 1avmA a.2.11.1 15722 d.44.1.1 38730 1ia8A 289 3.38e+01 1ia8A d.144.1.7 62112 1k8kD 300 3.38e+01 d.198.2.1 68309 d.198.2.1 68310 1kqzA 273 3.40e+01 c.1.8.5 68844 1gpmA 525 3.46e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1n67A 359 3.56e+01 b.2.3.4 85354 b.2.3.4 85355 1i3uA 127 3.64e+01 1gc1H b.1.1.1 61636 1pvc4 68 3.75e+01 1pvc4 1vbd4 69 3.78e+01 1pvc4 1kewA 361 3.84e+01 c.2.1.2 68544 1v9mA 323 3.88e+01 unknown_sccs -12292 1kcxA 518 3.89e+01 b.92.1.3 -5074 c.1.9.6 -5426 1ic7H 114 3.99e+01 1f3rB b.1.1.1 62258