# 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 1gqpA 221 3.80e-05 b.18.1.9 70372 1jhjA 171 2.58e-03 b.18.1.9 66714 1euu 605 8.15e-03 1eut b.1.18.2 21892 b.18.1.1 23713 b.68.1.1 27610 1eut 605 1.08e-02 1eut b.1.18.2 21891 b.18.1.1 23712 b.68.1.1 27609 1k3iA 656 3.56e-02 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1hg8A 349 1.34e-01 b.80.1.3 65830 1goh 639 2.77e-01 1gof b.1.18.2 21809 b.18.1.1 23711 b.69.1.1 27633 1gof 639 3.34e-01 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1smd 496 1.61e+00 1smd b.71.1.1 27768 c.1.8.1 28755 1dfx 125 2.04e+00 1dfx b.1.13.1 22367 g.41.5.2 45255 1r4yA 136 2.69e+00 d.1.1.3 -8813 6prcH 258 2.71e+00 6prcH b.41.1.1 25457 f.23.10.1 43436 1iznA 286 2.88e+00 e.43.1.1 83847 1dxrH 258 3.07e+00 6prcH b.41.1.1 25456 f.23.10.1 43433 1rl4A 188 3.39e+00 d.167.1.1 -11593 1ewsA 32 3.95e+00 1ewsA g.9.1.1 59534 1dr9A 201 4.31e+00 1dr9A b.1.1.1 19762 b.1.1.3 21684 1r0pA 312 4.41e+00 d.144.1.7 -11377 1pmaP 211 4.47e+00 1pmaP d.153.1.4 41863 1vjhA 122 4.90e+00 d.129.3.1 -11037 1cq3A 233 5.07e+00 1cq3A b.27.1.1 23923 1p9oA 313 5.25e+00 unknown_sccs -8423 1v3eA 431 5.33e+00 b.68.1.1 -4584 1al0G 175 5.83e+00 2bpa2 b.121.5.1 23275 1bvyF 191 6.55e+00 1bvyF c.23.5.1 31207 1gcqA 61 6.85e+00 1ckaA b.34.2.1 60434 1fx3A 169 6.88e+00 1fx3B d.33.1.1 38524 1iakA 199 6.90e+00 1iakA b.1.1.2 21625 d.19.1.1 38199 1ghj 79 7.26e+00 1ghj b.84.1.1 28232 1seiA 130 8.22e+00 1seiA d.140.1.1 41463 1de3A 150 8.27e+00 1aqzA d.1.1.3 36240 1uzxA 169 8.43e+00 d.20.1.2 -9409 1fiqC 763 8.97e+00 1fiqC d.41.1.1 38588 d.133.1.1 41418 1kexA 155 1.02e+01 b.18.1.2 77350 2bpa2 175 1.03e+01 2bpa2 1kigI 60 1.08e+01 1kigI g.8.1.2 44567 1mgrA 99 1.15e+01 d.1.1.2 79106 1hnf 182 1.17e+01 1qa9A b.1.1.1 19741 b.1.1.3 21680 1hx0A 496 1.17e+01 b.71.1.1 61346 c.1.8.1 61347 1uj0A 62 1.18e+01 b.34.2.1 -3570 1iz6A 138 1.19e+01 b.34.5.2 76976 b.40.4.5 76977 1kwgA 645 1.22e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1ah2 269 1.25e+01 1gci c.41.1.1 32542 1nciA 110 1.26e+01 1edhA b.1.6.1 22191 1peeA 180 1.29e+01 1lmeA 176 1.39e+01 d.167.1.1 84629 1tvdA 116 1.44e+01 1tvdA b.1.1.1 20650 1d0dA 60 1.47e+01 1kigI g.8.1.2 44566 1kbvA 327 1.51e+01 b.6.1.3 68395 b.6.1.3 68396 1ld4A 264 1.55e+01 i.6.1.1 77886 1v97A 1332 1.56e+01 1gfc 59 1.56e+01 1griA b.34.2.1 24537 1hdmA 201 1.58e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 1ncg 110 1.59e+01 1edhA b.1.6.1 22193 1gskA 513 1.64e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1ppfE 218 1.64e+01 1a7s b.47.1.2 26234 1hlcA 129 1.65e+01 1c1lA b.29.1.3 24208 2dabA 282 1.70e+01 1daaA e.17.1.1 43274 1fo4A 1332 1.72e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1i6pA 220 1.74e+01 1ddzA c.53.2.1 61848 1ejfA 125 1.75e+01 1ejfA b.15.1.2 23683 1fl0A 171 1.82e+01 1eujA b.40.4.4 25315 1r8oA 96 1.83e+01 1htrB 329 1.86e+01 1smrA 1an7A 136 1.92e+01 1seiA d.140.1.1 41465 1mh1 186 1.99e+01 1eesA c.37.1.8 32002 1kgcE 242 2.01e+01 b.1.1.1 77386 b.1.1.2 77387 1oe8A 211 2.08e+01 a.45.1.1 86905 c.47.1.5 86906 1qoiA 177 2.15e+01 2cpl b.62.1.1 27490 1eagA 342 2.16e+01 1eagA b.50.1.2 26826 1kypA 237 2.22e+01 d.22.1.1 73280 2at2A 300 2.23e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1bhgA 613 2.23e+01 1bhgA b.1.4.1 22161 b.18.1.5 23766 c.1.8.3 28889 1gci 269 2.26e+01 1gci c.41.1.1 32503 1kwkA 645 2.29e+01 b.71.1.1 77565 c.1.8.1 77566 c.23.16.5 77567 1fx3B 169 2.30e+01 1fx3B d.33.1.1 38525 1pdkB 157 2.39e+01 1pdkB b.2.3.2 22427 1c8zA 265 2.45e+01 1c8zA d.23.1.1 38375 1tfr 305 2.59e+01 1tfr a.60.7.1 18081 c.120.1.2 33351 1pzdA 322 2.71e+01 unknown_sccs -2848 unknown_sccs -10778 1koiA 184 2.77e+01 b.60.1.1 68725 3daaA 277 2.80e+01 1daaA e.17.1.1 43272 1kcbA 340 2.81e+01 b.6.1.3 -2950 b.6.1.3 -2951 1q25A 432 2.87e+01 1np4A 184 2.87e+01 1np1A b.60.1.1 27166 1mhcB 99 2.89e+01 1agdB b.1.1.2 20832 1ktjA 129 2.92e+01 b.1.18.7 72974 3cms 323 2.94e+01 1smrA b.50.1.2 26865 1avaC 181 2.96e+01 1avaC b.42.4.1 25604 1l7iL 214 2.98e+01 b.1.1.1 73658 b.1.1.2 73659 1np1A 184 3.02e+01 1np1A b.60.1.1 27155 1gw0A 559 3.09e+01 b.6.1.3 70623 b.6.1.3 70624 b.6.1.3 70625 1g7pB 99 3.15e+01 b.1.1.2 70155 1c8gA 548 3.23e+01 2cas b.121.5.2 23380 1jroB 777 3.25e+01 d.41.1.1 67141 d.133.1.1 67142 1erxA 184 3.27e+01 1np1A b.60.1.1 27164 1giqA 413 3.31e+01 d.166.1.1 76224 d.166.1.1 76225 6hir 65 3.32e+01 4htcI g.3.15.2 44375 1v9yA 167 3.33e+01 1gpr 162 3.48e+01 1gpr b.84.3.1 28267 1uwsA 489 3.48e+01 1l2lA 457 3.51e+01 c.72.1.3 77656 1ema 236 3.55e+01 1ema d.22.1.1 38339 1oxdA 227 3.56e+01 d.22.1.1 -9438 1et7A 341 3.56e+01 1nif b.6.1.3 23070 b.6.1.3 23071 1e79H 146 3.61e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1kpuB 99 3.63e+01 b.1.1.2 84458 1h6rA 236 3.65e+01 d.22.1.1 65683 1pmhX 185 3.74e+01 1nif 340 3.78e+01 1nif b.6.1.3 23048 b.6.1.3 23049 1qrkA 731 3.88e+01 1f13A b.1.18.9 21889 b.1.5.1 22187 b.1.5.1 22188 d.3.1.4 37119 2mllB 255 3.91e+01 1abrB b.42.2.1 25567 b.42.2.1 25568 1e50A 134 3.91e+01 1cmoA b.2.5.6 59244