# List of top-scoring protein chains for t2k-100-30-str2 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 1vqsA 116 1.38e-01 1rzhM 307 6.97e-01 f.26.1.1 98165 1aijM 307 7.01e-01 6prcM f.26.1.1 43462 1aijS 301 7.98e-01 6prcM f.26.1.1 43465 1vmhA 144 8.62e-01 1xbfA 140 9.41e-01 d.273.1.1 109538 1vmfA 145 1.41e+00 2a8eA 220 1.99e+00 1qwoA 442 2.44e+00 c.60.1.2 104620 1mk4A 157 3.26e+00 d.108.1.1 84979 1qyp 57 3.55e+00 1qyp g.41.3.1 45205 1h8eD 482 4.61e+00 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1f9zA 135 5.10e+00 1qipA d.32.1.1 38484 1fa8A 135 5.42e+00 1qipA d.32.1.1 38486 1e79D 482 5.53e+00 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1q4uA 151 5.96e+00 d.38.1.5 95828 1ax0 239 6.15e+00 1led b.29.1.1 24042 1gzcA 239 8.41e+00 b.29.1.1 70803 1e5rA 290 8.59e+00 1e5rA b.82.2.4 59276 1j9jA 247 9.54e+00 c.106.1.1 62758 1dmlA 319 1.21e+01 1dmlA d.131.1.2 41380 d.131.1.2 41381 1b4eA 323 1.35e+01 1b4kA c.1.10.3 29186 1j9lA 247 1.54e+01 c.106.1.1 62762 1ij8A 128 1.61e+01 b.61.1.1 62480 1ravA 127 1.62e+01 1swuA b.61.1.1 27409 2ay1A 394 1.68e+01 1ajsA c.67.1.1 34357 2a61A 145 1.77e+01 1nqnA 122 1.79e+01 b.61.1.1 86042 1qwdA 177 1.91e+01 b.60.1.1 96471 1ci3M 249 1.95e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1fljA 260 2.00e+01 2cba b.74.1.1 27954 2sxl 88 2.10e+01 1b7fA d.58.7.1 39179 1qqp3 220 2.13e+01 1qqp3 1bbt3 220 2.19e+01 1qqp3 2camA 127 2.22e+01 1swuA b.61.1.1 27407 1kb9D 246 2.23e+01 a.3.1.3 77317 f.23.11.1 77318 1eq3A 96 2.23e+01 1eq3A d.26.1.1 59486 1ezvD 245 2.25e+01 1be3D a.3.1.3 59546 f.23.11.1 59547 1vyoA 128 2.31e+01 1kyoD 248 2.32e+01 a.3.1.3 73254 f.23.11.1 73255 1kk6A 209 2.36e+01 b.81.1.3 68657 1mr7A 209 2.41e+01 b.81.1.3 91430 1m1sA 116 2.51e+01 b.1.11.2 84747 1v0dA 329 2.61e+01 d.4.1.7 108204 1ebmA 317 2.63e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1molA 94 2.63e+01 1molA d.17.1.1 37988 1lwyA 324 2.71e+01 a.96.1.3 78285 d.129.1.2 78286 1m3qA 317 2.78e+01 a.96.1.3 91184 d.129.1.2 91185 1m4lA 307 2.79e+01 c.56.5.1 78604 1i8jA 323 2.79e+01 1b4kA c.1.10.3 61968 2ctb 307 2.82e+01 1aye c.56.5.1 33803 1yme 309 2.83e+01 1aye c.56.5.1 33804 1qmyA 167 2.87e+01 1qmyA d.3.1.2 37094 1dbxA 158 2.93e+01 1dbuA d.116.1.1 40928 1fb6A 105 3.02e+01 1thx c.47.1.1 32739 1l6sA 323 3.14e+01 c.1.10.3 73627 1wxxA 382 3.16e+01 1gr0A 367 3.16e+01 c.2.1.3 70379 d.81.1.3 70380 1nhp 447 3.19e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1nhs 447 3.19e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 2ctc 307 3.20e+01 1aye c.56.5.1 33802 1joa 447 3.23e+01 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1bavA 309 3.24e+01 1aye c.56.5.1 33806 6cpa 307 3.31e+01 1aye c.56.5.1 33816 1ko9A 345 3.40e+01 a.96.1.3 68717 d.129.1.2 68718 1vphA 149 3.58e+01 1cgo 127 3.59e+01 1cpq a.24.3.2 16550 2bopA 85 3.62e+01 2bopA d.58.8.1 39217 1vejA 74 3.64e+01 1e85A 127 3.65e+01 1bbhA a.24.3.2 16549 1ten 90 3.65e+01 1ten b.1.2.1 21990 2fj8A 125 3.79e+01 1wbiA 129 3.80e+01 1wd6A 123 3.86e+01 2a9uA 144 3.87e+01 1hcv 117 3.95e+01 1igtB b.1.1.1 20514