# 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 1rz1A 161 3.94e-28 b.45.1.2 -4088 1i0rA 169 2.22e-23 1i0rA b.45.1.2 61489 1i0sA 169 3.06e-23 1i0rA b.45.1.2 61491 1uscA 178 8.19e-22 b.45.1.2 -4074 1ejeA 192 5.15e-21 1ejeA b.45.1.2 25757 1ne2A 200 1.19e-01 c.66.1.32 85586 1cz3A 168 1.45e-01 1d1gA c.71.1.1 34891 1rxxA 421 1.47e-01 unknown_sccs -10982 1fhgA 154 2.44e-01 1tlk b.1.1.4 21706 1d1gA 168 2.55e-01 1d1gA c.71.1.1 34889 1krhA 338 7.34e-01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1smvA 260 7.68e-01 1smvA b.121.4.7 23288 1uaqA 158 9.14e-01 c.97.1.2 88386 1p6oA 161 9.24e-01 c.97.1.2 -8774 1mkyA 439 1.04e+00 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1e19A 314 1.71e+00 1b7bA c.73.1.1 34967 1k9sA 237 1.92e+00 c.56.2.1 68359 1i3cA 149 2.01e+00 c.23.1.1 71112 1hxs1 302 2.12e+00 1nx8A 273 2.14e+00 b.82.2.8 86374 1tlk 154 2.25e+00 1tlk b.1.1.4 21707 1lxyA 409 2.32e+00 unknown_sccs -10987 1ytw 306 2.34e+00 1ytw c.45.1.2 32689 1i58A 189 2.49e+00 1b3qA d.122.1.3 61773 1hywA 68 2.50e+00 1hywA d.186.1.1 61425 1pk9A 237 2.69e+00 c.56.2.1 -7734 1yptA 305 2.82e+00 1ytw c.45.1.2 32686 1s9rA 410 2.85e+00 unknown_sccs -10989 1pxvA 183 2.88e+00 d.3.1.1 -8881 1ecpA 238 3.29e+00 1ecpA c.56.2.1 33775 1dx8A 70 3.34e+00 1rb9 g.41.5.1 45243 1hjp 203 3.38e+00 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1go3E 187 3.55e+00 b.40.4.5 83054 d.230.1.1 83055 1cuk 203 3.74e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1dapA 320 3.81e+00 1dapA c.2.1.3 30053 d.81.1.3 39968 1ooeA 236 4.36e+00 c.2.1.2 87196 1yts 278 4.62e+00 1ytw c.45.1.2 32690 1f06A 320 4.80e+00 1dapA c.2.1.3 59556 d.81.1.3 59557 3dapA 320 5.00e+00 1dapA c.2.1.3 30051 d.81.1.3 39966 1devB 41 5.01e+00 1devB j.64.1.1 46354 1zpdA 568 5.33e+00 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1a53 247 5.41e+00 1a53 c.1.2.4 28564 1asx 159 5.49e+00 1a6dA c.8.5.2 30821 1dcfA 136 5.87e+00 1dcfA c.23.1.2 31124 1igs 248 5.87e+00 1a53 c.1.2.4 28565 1uj6A 227 6.65e+00 1juk 248 6.87e+00 1a53 c.1.2.4 28567 1ejjA 511 6.88e+00 1ejjA c.105.1.1 59422 c.76.1.3 59423 1nox 205 7.05e+00 1nox d.90.1.1 40242 1o98A 511 7.35e+00 c.105.1.1 86684 c.76.1.3 86685 1c4eA 35 7.51e+00 1c4eA g.3.4.1 44080 1ytn 306 7.63e+00 1ytw c.45.1.2 32688 1eqjA 511 8.12e+00 1ejjA c.105.1.1 59495 c.76.1.3 59496 1ipwA 175 8.19e+00 2prd b.40.5.1 25427 1r9hA 135 8.42e+00 d.26.1.1 -9482 1b7bA 310 9.35e+00 1b7bA c.73.1.1 34963 1l1eA 287 9.60e+00 c.66.1.18 73454 1flmA 122 9.64e+00 1axj b.45.1.1 25747 1kvdB 77 9.65e+00 1kveB 1quqB 121 9.84e+00 1quqB b.40.4.3 25305 1ax4A 467 9.87e+00 1ax4A c.67.1.2 34391 1a6dA 545 9.95e+00 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1vcaA 202 9.99e+00 1vcaA b.1.1.3 21649 b.1.1.4 21685 1ntfA 282 1.02e+01 d.151.1.2 -11397 1kwmA 402 1.02e+01 c.56.5.1 73079 d.58.3.1 73080 1nzhA 282 1.17e+01 d.151.1.2 -11398 1lyvA 306 1.25e+01 c.45.1.2 74348 1ngzB 220 1.30e+01 b.1.1.1 80502 b.1.1.2 80503 1bmfA 510 1.35e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1ok8A 394 1.37e+01 b.1.18.4 -2737 f.10.1.1 -12384 1nngA 153 1.42e+01 d.38.1.1 -9636 2izgB 123 1.47e+01 1swuA b.61.1.1 27236 1zxq 192 1.48e+01 1zxq b.1.1.3 21657 b.1.1.4 21693 1o77D 146 1.48e+01 c.23.2.1 81128 1pfsA 78 1.49e+01 1pfsA b.40.4.7 25391 1go5A 69 1.60e+01 a.5.2.3 65410 1kzyC 259 1.63e+01 c.15.1.4 73383 c.15.1.4 73384 1s9aA 257 1.64e+01 1t0hB 224 1.67e+01 1iakA 199 1.67e+01 1iakA b.1.1.2 21625 d.19.1.1 38199 3pchA 200 1.70e+01 3pchA b.3.6.1 22653 1gkuB 1054 1.71e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1bdo 80 1.71e+01 1bdo b.84.1.1 28214 3pcgA 200 1.71e+01 3pchA b.3.6.1 22647 3pcnA 200 1.74e+01 3pchA b.3.6.1 22725 2pcdA 200 1.75e+01 3pchA b.3.6.1 22665 1j8hD 212 1.82e+01 b.1.1.1 71606 b.1.1.2 71607 1n57A 291 1.82e+01 c.23.16.2 85328 1kveB 77 1.83e+01 1kveB 1szoA 257 1.85e+01 1o8uA 257 1.87e+01 c.14.1.3 81194 1fztA 211 1.88e+01 1qhfA c.60.1.1 60158 1hruA 188 1.89e+01 1hruA d.115.1.1 40926 1j0sA 157 1.98e+01 b.42.1.2 -4016 1gmxA 108 1.99e+01 c.46.1.3 65355 1e58A 249 1.99e+01 1qhfA c.60.1.1 59262 1i36A 264 2.07e+01 a.100.1.8 71108 c.2.1.6 71109 1sriA 121 2.12e+01 1swuA b.61.1.1 27276 1o8vA 134 2.13e+01 b.60.1.2 86680 1iu9A 111 2.18e+01 c.78.2.1 -8500 2bbkH 355 2.23e+01 2bbkH b.69.2.1 27634 1oaiA 59 2.25e+01 a.5.2.3 81255 1bg2 325 2.26e+01 1bg2 c.37.1.9 32189 1b3qA 379 2.30e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1gn0A 108 2.30e+01 c.46.1.3 65358 1lw3A 657 2.32e+01 unknown_sccs -4378 unknown_sccs -7358 1sviA 195 2.34e+01 2izhB 123 2.35e+01 1swuA b.61.1.1 27234 1jvwA 167 2.38e+01 d.26.1.1 71907 1br2A 791 2.39e+01 1lvk b.34.3.1 24558 c.37.1.9 32155 1isaA 192 2.41e+01 1avmA a.2.11.1 15731 d.44.1.1 38724 1rpxA 230 2.41e+01 1rpxA c.1.2.2 28536 1r0wA 286 2.44e+01 c.37.1.12 -7158 1pg6A 243 2.44e+01 unknown_sccs -4997 1mgqA 83 2.47e+01 b.38.1.1 79099 1swuA 127 2.55e+01 1swuA b.61.1.1 27230 1uzxA 169 2.57e+01 d.20.1.2 -9409 1cydA 244 2.59e+01 1cydA c.2.1.2 29825 1iscA 192 2.65e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1n1bA 549 2.68e+01 a.102.4.1 79799 a.128.1.3 79800 1wdcC 156 2.70e+01 1wdcC a.39.1.5 17317 1dv2A 452 2.76e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1mkp 144 2.80e+01 1vhrA c.45.1.1 32654 1pkoA 139 2.80e+01 b.1.1.1 88147 1am2 199 2.84e+01 1am2 b.86.1.2 28381 1iqoA 88 2.89e+01 d.214.1.1 71277 1ueaB 184 2.90e+01 1br9 b.40.3.1 25232 1ixlA 131 2.94e+01 d.38.1.5 -9705 1gr3A 160 2.94e+01 b.22.1.1 65476 1b1cA 181 3.00e+01 1amoA c.23.5.2 31212 1mi3A 322 3.05e+01 c.1.7.1 -5257 1pjqA 457 3.18e+01 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 2e2c 156 3.24e+01 1u9aA d.20.1.1 38336 1pvc1 301 3.26e+01 1pov1 1qdlB 195 3.41e+01 1qdlB c.23.16.1 31437 1u9aA 160 3.43e+01 1u9aA d.20.1.1 38333 1n2eA 300 3.43e+01 c.26.1.4 85268 1mopA 300 3.45e+01 c.26.1.4 85035 1e79A 510 3.49e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1amj 754 3.49e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1cf1A 404 3.50e+01 1cf1A b.1.18.11 21907 b.1.18.11 21908 1aqt 138 3.52e+01 1aqt a.2.10.1 15718 b.93.1.1 28435 1nn6A 228 3.60e+01 b.47.1.2 85893 1bq3B 246 3.60e+01 1qhfA c.60.1.1 33979 1rxwA 336 3.61e+01 a.60.7.1 -1041 c.120.1.2 -6680 1jc7A 131 3.72e+01 1jc7A b.40.3.2 62873 7acn 754 3.75e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1n7eA 97 3.81e+01 b.36.1.1 -3745 1uw4A 91 3.91e+01 unknown_sccs -10038 1uq5A 263 3.94e+01 d.165.1.1 -11555