# List of top-scoring protein chains for t2k-w0.5 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 1btgA 110 1.09e-01 1bndA g.17.1.3 44802 1sgfY 118 1.15e-01 1bndA g.17.1.3 44806 1bet 107 1.19e-01 1bndA g.17.1.3 44801 1ai1H 221 4.43e-01 1igtB b.1.1.1 19883 b.1.1.2 20979 1wwwW 120 5.25e-01 1bndA g.17.1.3 44808 2gatA 66 6.03e-01 1gatA g.39.1.1 45102 3gatA 66 6.03e-01 1gatA g.39.1.1 45103 1gatA 60 7.01e-01 1gatA g.39.1.1 45106 1rec 201 9.25e-01 1rec a.39.1.5 17326 1jsa 202 9.30e-01 1rec a.39.1.5 17328 1la3A 202 1.04e+00 2hpaA 342 1.37e+00 1cviA c.60.1.2 33985 1cviA 342 1.37e+00 1cviA c.60.1.2 33989 1fpzA 212 1.75e+00 1fpzA c.45.1.1 59976 1bjx 110 1.91e+00 1bjx c.47.1.2 32774 2bjxA 110 1.91e+00 1bjx c.47.1.2 32776 2rslA 140 2.00e+00 2rslA c.53.1.1 33345 1gdtA 183 2.36e+00 2rslA a.4.1.2 16021 c.53.1.1 33348 1pcp 106 3.00e+00 2pspA g.16.1.1 44742 g.16.1.1 44743 2pspA 106 3.00e+00 2pspA g.16.1.1 44730 g.16.1.1 44731 1dpo 223 3.36e+00 5ptp b.47.1.2 25975 1rpa 342 3.51e+00 1cviA c.60.1.2 33983 1am1 213 3.79e+00 1yer d.122.1.1 41095 1amw 214 3.81e+00 1yer d.122.1.1 41093 1bgq 225 3.88e+00 1yer d.122.1.1 41098 1ah6 220 3.92e+00 1yer d.122.1.1 41094 1a4h 230 3.98e+00 1yer d.122.1.1 41099 1egjL 215 4.58e+00 32c2A b.1.1.1 20500 b.1.1.2 21456 1fdlH 218 5.01e+00 1igtB b.1.1.1 19961 b.1.1.2 21021 1l8pA 436 5.71e+00 1oneA 436 5.83e+00 4enl c.1.11.1 29200 d.54.1.1 38844 2oneA 436 5.83e+00 4enl c.1.11.1 29203 d.54.1.1 38847 4enl 436 5.91e+00 4enl c.1.11.1 29202 d.54.1.1 38846 1ji0A 240 7.33e+00 1hcfB 130 9.31e+00 g.17.1.3 65789 1gv7A 123 1.28e+01 1jk9B 249 1.31e+01 b.1.8.1 63150 d.58.17.1 63151 1c4eA 35 1.33e+01 1c4eA g.3.4.1 44080 3trx 105 1.34e+01 1erv c.47.1.1 32757 1g1yA 585 1.39e+01 1bvzA b.1.1.5 60210 b.71.1.1 60211 c.1.8.1 60212 1jl8A 585 1.43e+01 b.1.1.5 63163 b.71.1.1 63164 c.1.8.1 63165 1jf6A 585 1.44e+01 1ji2A 585 1.44e+01 1bvzA 585 1.44e+01 1bvzA b.1.1.5 21856 b.71.1.1 27783 c.1.8.1 28770 1jf5A 585 1.44e+01 1bolA 222 1.45e+01 1bolA d.124.1.1 41120 1cs6A 382 1.57e+01 1cs6A b.1.1.4 21760 b.1.1.4 21761 b.1.1.4 21762 b.1.1.4 21763 1erv 105 1.57e+01 1erv c.47.1.1 32743 1amm 174 1.62e+01 1amm b.11.1.1 23587 b.11.1.1 23588 4gcr 174 1.62e+01 1amm b.11.1.1 23589 b.11.1.1 23590 1amf 233 1.80e+01 1wod c.94.1.1 35833 1wod 233 1.80e+01 1wod c.94.1.1 35832 1fgnH 214 1.80e+01 1igtB b.1.1.1 20217 b.1.1.2 21229 1hqvA 191 1.97e+01 1hqvA a.39.1.8 61160 1qgvA 142 2.10e+01 1qgvA c.47.1.8 33056 1bihA 395 2.23e+01 1bihA b.1.1.4 21752 b.1.1.4 21753 b.1.1.4 21754 b.1.1.4 21755 1ldnA 316 2.27e+01 1hyhA c.2.1.5 30166 d.162.1.1 42133 2ldb 317 2.28e+01 1hyhA c.2.1.5 30175 d.162.1.1 42142 1d2kA 392 2.29e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1aaf 55 2.32e+01 1aaf g.40.1.1 45166 1f46A 140 2.52e+01 1f46A d.129.4.1 59643 1cczA 171 2.56e+01 1cczA b.1.1.1 19758 b.1.1.3 21683 1nldH 215 2.61e+01 1igtB b.1.1.1 20111 b.1.1.2 21141 1fs1A 53 2.61e+01 1fqvA a.122.1.1 19250 2pcpB 215 2.62e+01 1mfa b.1.1.1 20371 b.1.1.2 21363 1f47B 144 2.64e+01 1f46A d.129.4.1 59645 1k7wA 468 2.74e+01 1hy1C 468 2.79e+01 1auwA a.127.1.1 61396 1jv5B 117 2.85e+01 b.1.1.1 67345 1quqB 121 2.87e+01 1quqB b.40.4.3 25305 1bfs 106 2.88e+01 1a3qA b.1.1.5 21927 1uox 296 2.94e+01 1uox d.96.1.4 40673 d.96.1.4 40674 1faxA 255 2.95e+01 5ptp b.47.1.2 26345 2pkaA 80 2.95e+01 2pkaA b.47.1.2 26302 2kaiA 80 2.95e+01 2pkaA b.47.1.2 26306 1dcnC 434 2.98e+01 1auwA a.127.1.1 19422 1j5pA 253 2.99e+01 1dcnD 436 3.05e+01 1auwA a.127.1.1 19423 1jhlL 108 3.07e+01 8fabA b.1.1.1 19966 1ert 105 3.08e+01 1erv c.47.1.1 32744 1f4pA 147 3.11e+01 5nul c.23.5.1 59651 1gpmA 525 3.13e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1ppeI 29 3.14e+01 g.3.2.1 44065 1nfiB 107 3.14e+01 1a3qA b.1.1.5 21925 1h2hA 241 3.15e+01 1aiu 105 3.16e+01 1erv c.47.1.1 32746 1hcgA 241 3.20e+01 5ptp b.47.1.2 26341 1c5mD 255 3.21e+01 5ptp b.47.1.2 26338 1ghtA 105 3.26e+01 2rslA c.53.1.1 60526 1ksnA 254 3.26e+01 1lu0A 29 3.28e+01 1fmjA 351 3.32e+01 c.37.1.5 59879 1pce 60 3.33e+01 1tgsI g.15.1.1 44721 1dcnA 424 3.34e+01 1auwA a.127.1.1 19420 1qa9B 95 3.47e+01 1cczA b.1.1.1 19759 1jm4B 118 3.51e+01 1f68A 103 3.59e+01 1b91A a.29.2.1 16970 1g2lA 235 3.61e+01 b.47.1.2 65112 1iknC 119 3.64e+01 b.1.1.5 21928 1kozA 36 3.74e+01 1poc 134 3.93e+01 1poc a.133.1.1 19513