# 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 1ndk 155 2.94e-01 1npk d.58.6.1 39118 1ebpA 211 3.76e-01 1eerB b.1.2.1 22023 b.1.2.1 22024 1f3fA 155 4.19e-01 1npk d.58.6.1 39101 1d7yA 408 5.54e-01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1npk 154 5.69e-01 1npk d.58.6.1 39099 1m32A 366 1.29e+00 c.67.1.3 78508 1jx7A 117 1.40e+00 c.114.1.1 77195 1bcpB 199 1.45e+00 1bcpB b.40.2.1 25120 d.169.1.2 42429 1ebaA 215 1.64e+00 1eerB b.1.2.1 22015 b.1.2.1 22016 1a2vA 655 2.02e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1bia 321 2.14e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1rxxA 421 4.27e+00 unknown_sccs -10982 1bib 321 4.38e+00 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 3hmgA 328 4.95e+00 1hgeA b.19.1.2 23825 1jsmA 325 5.28e+00 b.19.1.2 63264 1hgeA 328 5.52e+00 1hgeA b.19.1.2 23816 1gmeA 151 5.58e+00 b.15.1.1 65305 2viuA 328 5.62e+00 1hgeA b.19.1.2 23797 1efcA 393 6.56e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1m5q1 130 6.58e+00 1g6oA 330 6.82e+00 1g6oA c.37.1.11 32430 3psg 370 7.13e+00 1smrA b.50.1.2 26841 1tk9A 188 7.81e+00 1oqjA 97 8.04e+00 d.217.1.1 -9412 1smlA 269 8.13e+00 1smlA d.157.1.1 42053 1fjrA 195 8.25e+00 1fjrA b.102.1.1 59855 1s29A 92 8.62e+00 unknown_sccs -315 2admA 421 9.32e+00 2admA c.66.1.27 34238 1cfyA 143 9.37e+00 1cof d.109.1.2 40858 1eerB 227 1.00e+01 1eerB b.1.2.1 22011 b.1.2.1 22012 1aqjA 421 1.05e+01 2admA c.66.1.27 34242 3sicI 107 1.07e+01 3ssi d.84.1.1 40028 1o1xA 155 1.28e+01 c.121.1.1 86553 1cof 143 1.36e+01 1cof d.109.1.2 40860 1mj4A 82 1.39e+01 d.120.1.1 79189 1s98A 107 1.40e+01 1ge8A 249 1.41e+01 1plq d.131.1.2 41398 d.131.1.2 41399 1hdfA 102 1.44e+01 1ag4 b.11.1.1 23627 1bs2A 607 1.45e+01 1bs2A a.27.1.1 16930 c.26.1.1 31597 d.67.2.1 39563 1fukA 165 1.52e+01 1fukA c.37.1.19 32409 1pnsB 234 1.55e+01 i.1.1.1 88169 2blsA 358 1.56e+01 1gceA e.3.1.1 42747 2sicI 107 1.58e+01 3ssi d.84.1.1 40031 1qr0A 228 1.58e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1knwA 425 1.60e+01 b.49.2.3 -4274 c.1.6.1 -5229 1t3cA 421 1.60e+01 1o7nB 194 1.63e+01 d.17.4.4 81164 1j5eB 256 1.64e+01 c.23.15.1 71543 1hh1A 143 1.65e+01 1gefA c.52.1.18 61036 2his 312 1.66e+01 1taxA c.1.8.3 28918 1l1qA 186 1.70e+01 c.61.1.1 77653 1ffkK 186 1.70e+01 1ffkK c.55.4.1 33731 1nykA 165 1.71e+01 b.33.1.1 86408 1h10A 125 1.71e+01 b.55.1.1 83446 1c7nA 399 1.72e+01 1d2fA c.67.1.3 34413 1uf2A 1019 1.75e+01 unknown_sccs -12036 1jj2X 240 1.82e+01 1ffkV c.9.2.1 63109 1s72Y 241 1.85e+01 1k9uA 78 1.86e+01 a.39.1.10 84348 1fhdA 312 1.89e+01 1taxA c.1.8.3 28915 1pls 113 1.89e+01 1pls b.55.1.1 26965 1a8p 258 1.90e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1ik6A 369 1.92e+01 c.36.1.7 66174 c.48.1.2 66175 1jxhA 288 1.95e+01 c.72.1.2 67415 1pms 136 2.01e+01 1awe b.55.1.1 26966 1dmr 823 2.01e+01 1dmr b.52.2.2 26904 c.81.1.1 35312 1g38A 393 2.04e+01 2admA c.66.1.27 60235 1ogdA 131 2.05e+01 unknown_sccs -8007 1rgyA 360 2.06e+01 e.3.1.1 -11768 1ofdA 1520 2.07e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1vkfA 188 2.09e+01 1ga0A 364 2.10e+01 1gceA e.3.1.1 60410 1bcpC 199 2.11e+01 1bcpB b.40.2.1 25121 d.169.1.2 42430 1iz5A 249 2.17e+01 d.131.1.2 83834 d.131.1.2 83835 1lu4A 136 2.20e+01 c.47.1.10 -7509 2bltA 361 2.21e+01 1gceA e.3.1.1 42739 1gdoB 240 2.21e+01 1gdoA d.153.1.1 41805 1elyA 449 2.25e+01 1b8jA c.76.1.1 35028 1fgkA 310 2.27e+01 1fgkA d.144.1.7 41693 1fh9A 312 2.30e+01 1taxA c.1.8.3 28913 1onhA 364 2.35e+01 e.3.1.1 -11769 1rgzA 363 2.40e+01 e.3.1.1 -11771 2bb2 181 2.41e+01 2bb2 b.11.1.1 23604 b.11.1.1 23605 1psrA 100 2.41e+01 1psrA a.39.1.2 17180 1ypcI 64 2.43e+01 2sniI d.40.1.1 38570 1llwA 1520 2.44e+01 b.80.4.1 74017 c.1.4.1 74018 d.153.1.1 74019 1kvlA 358 2.57e+01 e.3.1.1 73062 1gceA 364 2.60e+01 1gceA e.3.1.1 42738 2pspA 106 2.61e+01 2pspA g.16.1.1 44730 g.16.1.1 44731 1l1sA 113 2.67e+01 c.114.1.1 73484 1fsyA 358 2.67e+01 1gceA e.3.1.1 60016 1o12A 376 2.68e+01 b.92.1.5 80758 c.1.9.10 80759 1t0qA 498 2.72e+01 1pi4A 358 2.72e+01 e.3.1.1 -11774 1r6xA 395 2.72e+01 b.122.1.3 -5125 c.26.1.5 -6620 1a8rA 221 2.75e+01 1a8rA d.96.1.1 40587 1qwlA 505 2.76e+01 e.5.1.1 -11823 1f37A 110 2.79e+01 1f37A c.47.1.11 33088 1ne8A 117 2.81e+01 b.34.6.2 80424 1oaoC 729 2.82e+01 e.26.1.3 86746 1eg9B 194 2.89e+01 1ndoB d.17.4.4 38120 1exrA 148 2.92e+01 1cll a.39.1.5 17299 1osa 148 2.93e+01 1cll a.39.1.5 17300 1jsqA 582 2.95e+01 i.13.1.1 63270 1g8fA 511 3.05e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1qxyA 252 3.09e+01 d.127.1.1 -10993 1tvfA 369 3.10e+01 1m7vA 363 3.20e+01 d.174.1.1 78748 1r64A 481 3.26e+01 b.18.1.20 -3151 c.41.1.1 -7297 1mveA 243 3.28e+01 b.29.1.2 85140 1ot5A 477 3.29e+01 b.18.1.20 87409 c.41.1.1 87410 1fr1A 361 3.30e+01 1gceA e.3.1.1 42734 1rz3A 201 3.32e+01 c.37.1.6 -7048 1ggzA 148 3.38e+01 a.39.1.5 70176 2anhA 446 3.40e+01 1b8jA c.76.1.1 35004 1gdoA 240 3.41e+01 1gdoA d.153.1.1 41804 1ui5A 215 3.44e+01 1ed8A 449 3.47e+01 1b8jA c.76.1.1 34988 1of5B 184 3.48e+01 d.17.4.2 86934 1cll 148 3.48e+01 1cll a.39.1.5 17263 1sjyA 159 3.56e+01 d.113.1.1 -10908 1ro0A 216 3.64e+01 unknown_sccs -11390 1ep2B 261 3.65e+01 1ep2B b.43.4.2 25666 c.25.1.3 31556 3cln 148 3.65e+01 1cll a.39.1.5 17286 1r94A 118 3.69e+01 b.124.1.1 -4402 1e9gA 286 3.76e+01 1wgjA b.40.5.1 59393 1l0gA 358 3.78e+01 e.3.1.1 73400 1bf6A 291 3.78e+01 1pscA c.1.9.3 29065 1h2kA 349 3.82e+01 b.82.2.6 76572 1gnyA 153 3.89e+01 b.18.1.11 65404 1rypG 244 3.90e+01 d.153.1.4 41938 1g4yR 148 3.92e+01 1cll a.39.1.5 60252 1vk5A 157 3.99e+01 1qoiA 177 3.99e+01 2cpl b.62.1.1 27490 1l4dB 122 3.99e+01 d.15.5.1 77684