# List of top-scoring protein chains for t04-100-30-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 1dnlA 199 6.86e-16 1ci0A b.45.1.1 25753 1nrgA 261 4.87e-14 b.45.1.1 80694 1flmA 122 1.23e-05 1axj b.45.1.1 25747 1ejeA 192 7.63e-03 1ejeA b.45.1.2 25757 1obpA 159 2.58e-01 1obpA b.60.1.1 27092 1ko3A 230 3.01e-01 d.157.1.1 -11454 1t5yA 190 3.86e-01 1j58A 385 6.45e-01 b.82.1.2 71531 1pvtA 238 8.67e-01 c.74.1.1 -8444 1gal 583 1.73e+00 1gpeA c.3.1.2 30386 d.16.1.1 37950 1f0iA 504 1.75e+00 1f0iA d.136.1.2 59566 d.136.1.2 59567 1g5cA 170 1.77e+00 1g5cA c.53.2.1 60264 1v0wA 506 1.82e+00 1al3 324 1.90e+00 1al3 c.94.1.1 35835 1n9lA 109 2.04e+00 d.110.3.6 85468 1qfjA 232 2.09e+00 1qfjA b.43.4.2 25655 c.25.1.1 31545 1nar 290 2.70e+00 1nar c.1.8.5 28988 1d2eA 397 3.24e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1i45A 248 3.29e+00 1amk c.1.1.1 61665 1gpeA 587 3.37e+00 1gpeA c.3.1.2 30387 d.16.1.1 37951 1eluA 390 3.67e+00 1elqA c.67.1.3 34434 1exmA 405 4.11e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1mo7A 213 4.49e+00 d.220.1.1 85028 1ha3A 405 5.07e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1s2wA 295 5.30e+00 c.1.12.7 -5577 1k8kD 300 5.41e+00 d.198.2.1 68309 d.198.2.1 68310 1neyA 247 5.78e+00 c.1.1.1 80449 1i24A 404 6.10e+00 c.2.1.2 83663 1od5A 492 6.27e+00 b.82.1.2 86832 b.82.1.2 86833 1jdpA 441 6.46e+00 c.93.1.1 62906 1elqA 390 6.62e+00 1elqA c.67.1.3 34436 1kr4A 125 6.63e+00 d.58.5.2 72889 1mkmA 249 6.87e+00 a.4.5.33 79242 d.110.2.2 79243 1vqb 87 7.74e+00 1gvp b.40.4.7 25370 1j71A 334 8.09e+00 1eagA b.50.1.2 62669 1i9zA 347 8.33e+00 1i9yA d.151.1.2 62102 1gvp 87 8.37e+00 1gvp b.40.4.7 25369 1hkeA 137 8.41e+00 1me4A 215 8.61e+00 d.3.1.1 79023 1jykA 254 8.75e+00 c.68.1.13 67458 1sdjA 310 8.86e+00 d.21.1.2 -9420 d.21.1.2 -9421 1q1aA 289 9.75e+00 c.31.1.5 -6781 1e2uA 553 9.97e+00 1e1dA e.26.1.1 43362 1vk8A 106 1.03e+01 1b25A 619 1.05e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1jx4A 352 1.09e+01 unknown_sccs -10188 unknown_sccs -11898 1jflA 228 1.10e+01 c.78.2.1 71656 c.78.2.1 71657 1r6lA 239 1.13e+01 d.14.1.4 -9057 d.101.1.1 -10747 1o98A 511 1.15e+01 c.105.1.1 86684 c.76.1.3 86685 1rocA 155 1.15e+01 unknown_sccs -2866 1eqjA 511 1.16e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 2plc 274 1.16e+01 2plc c.1.18.2 29614 1gntA 553 1.22e+01 e.26.1.1 70290 1a8y 367 1.25e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1uuzA 137 1.27e+01 d.233.1.1 -9478 1f2aA 215 1.29e+01 1cs8A d.3.1.1 37040 1gt1A 159 1.38e+01 b.60.1.1 -4436 3seb 238 1.39e+01 3seb b.40.2.2 25184 d.15.6.1 37773 3thiA 371 1.40e+01 2thiA c.94.1.1 35792 1m40A 263 1.45e+01 e.3.1.1 74437 1hn2A 159 1.46e+01 b.60.1.1 65890 1fljA 260 1.47e+01 2cba b.74.1.1 27954 1ukuA 102 1.53e+01 d.58.5.2 -9992 1v8fA 276 1.54e+01 c.26.1.4 -6618 1f5jA 199 1.57e+01 1axkA b.29.1.11 24342 1btl 263 1.63e+01 1btl e.3.1.1 42691 1lnwA 147 1.69e+01 a.4.5.28 78104 1ue1A 164 1.71e+01 b.40.4.3 -3905 1o58A 303 1.72e+01 c.79.1.1 -8503 1iejA 332 1.82e+01 1nnt c.94.1.2 62328 1lci 550 1.84e+01 1lci e.23.1.1 43349 1sb8A 352 1.85e+01 1qrrA 394 1.88e+01 1qrrA c.2.1.2 29824 1qmyA 167 1.89e+01 1qmyA d.3.1.2 37094 1aisA 182 1.96e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1lxnA 99 2.07e+01 d.58.48.1 84737 1pymA 295 2.08e+01 1pymA c.1.12.7 29308 1hf2A 210 2.13e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 9gafA 295 2.18e+01 1apyA d.153.1.5 42008 1nnvA 110 2.24e+01 unknown_sccs -9309 2mcm 112 2.27e+01 2mcm b.1.7.1 22207 1k2yX 463 2.31e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1p4kA 295 2.34e+01 d.153.1.5 87772 1fcdA 401 2.35e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1nf2A 268 2.35e+01 c.108.1.10 -6842 1ukgA 252 2.41e+01 b.29.1.1 -3390 1f60A 458 2.47e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1plq 258 2.48e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1l3iA 192 2.52e+01 c.66.1.22 77676 1apmE 350 2.57e+01 1cdkA d.144.1.7 41628 1ny1A 240 2.58e+01 c.6.2.3 86395 1h7zA 194 2.59e+01 1qhvA b.21.1.1 60733 1ly1A 181 2.63e+01 c.37.1.1 74334 1ermA 263 2.69e+01 1btl e.3.1.1 42690 1vkbA 161 2.72e+01 1qyaA 307 2.76e+01 1g6hA 257 2.82e+01 1gajA c.37.1.12 60318 1q5xA 161 2.85e+01 c.8.7.1 -6068 1lbvA 252 2.86e+01 e.7.1.1 73813 1o0sA 605 2.90e+01 c.2.1.7 86540 c.58.1.3 86541 1jenA 267 2.91e+01 1jenA 1qg3A 195 2.97e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1scuA 288 2.98e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1go3E 187 2.98e+01 b.40.4.5 83054 d.230.1.1 83055 1ru3A 732 3.01e+01 e.26.1.3 -12021 1oapA 109 3.04e+01 unknown_sccs -10428 1kutA 230 3.05e+01 d.143.1.1 73017 1ojrA 274 3.05e+01 c.74.1.1 -8441 1lfwA 470 3.13e+01 c.56.5.4 77942 d.58.19.1 77943 1pne 140 3.17e+01 1pne d.110.1.1 40866 1ct5A 256 3.24e+01 1ct5A c.1.6.2 28663 1bywA 110 3.24e+01 1bywA d.110.3.6 40912 1h1wA 289 3.26e+01 d.144.1.7 83460 1lrzA 426 3.32e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1h0hA 977 3.40e+01 b.52.2.2 76435 c.81.1.1 76436 1r9cA 139 3.43e+01 d.32.1.2 -9557 1ry6A 360 3.46e+01 c.37.1.9 -7111 1ftrA 296 3.48e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1g0oA 283 3.64e+01 1ybvA c.2.1.2 60181 1zfjA 491 3.66e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1ohvA 472 3.73e+01 c.67.1.4 -8181 1btkA 169 3.76e+01 1btkA b.55.1.1 26959 1nszA 347 3.76e+01 b.30.5.4 80724 2prd 174 3.76e+01 2prd b.40.5.1 25435 1qfgA 725 3.77e+01 1by5A f.4.3.3 43803 1efyA 350 3.80e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1kuuA 202 3.84e+01 d.153.2.1 73019 1pkp 150 3.89e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1l4dB 122 3.92e+01 d.15.5.1 77684 1kngA 156 3.97e+01 c.47.1.10 72777 1oaoC 729 3.97e+01 e.26.1.3 86746