# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 2cblA 305 4.62e-01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1aisB 200 1.91e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1b47A 304 1.97e+00 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1g1eB 89 2.19e+00 1g1eB a.59.1.1 17931 1fzkA 274 3.04e+00 1agdA b.1.1.2 60149 d.19.1.1 60150 1tkaA 678 3.05e+00 1trkA c.36.1.6 31816 c.36.1.10 31815 c.48.1.1 33096 1s9aA 257 3.05e+00 1trkA 680 3.10e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1gpuA 680 3.17e+00 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1v54J 59 3.36e+00 f.23.4.1 -12112 2occJ 59 3.36e+00 2occJ f.23.4.1 43524 1k5nA 276 3.67e+00 b.1.1.2 77266 d.19.1.1 77267 1ehkC 33 3.72e+00 1ehkC f.23.9.1 43626 1kpuA 274 4.40e+00 b.1.1.2 84456 d.19.1.1 84457 1ca1 370 4.43e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1g7pA 274 4.49e+00 b.1.1.2 70153 d.19.1.1 70154 1lk2A 274 4.49e+00 b.1.1.2 -2610 d.19.1.1 -9365 1ekeA 230 4.63e+00 1ekeA c.55.3.1 33572 1fzoA 274 4.64e+00 1agdA b.1.1.2 60155 d.19.1.1 60156 1ibvB 229 4.70e+00 1dd3A 128 4.72e+00 1dd3C a.108.1.1 19031 d.45.1.1 38760 1agdA 276 4.75e+00 1agdA b.1.1.2 20741 d.19.1.1 38260 1ucpA 91 5.16e+00 unknown_sccs -1193 1hkhA 279 6.41e+00 c.69.1.12 -8342 1ei9A 279 6.97e+00 1ei9A c.69.1.13 34713 1dk8A 147 7.31e+00 1agrE a.91.1.1 18548 1dioB 224 7.54e+00 1dioB c.51.3.1 33219 1pyaB 228 7.58e+00 1pyaB 1pufB 73 7.58e+00 a.4.1.1 -192 1eexB 224 7.60e+00 1dioB c.51.3.1 33213 1lvwA 295 7.74e+00 c.68.1.6 84723 1d3uB 201 7.83e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1jggA 60 8.53e+00 2hddA a.4.1.1 62950 1nozA 388 9.86e+00 1clqA c.55.3.5 33715 1k75A 434 9.93e+00 c.82.1.2 68253 1g4yR 148 1.05e+01 1cll a.39.1.5 60252 1rylA 167 1.16e+01 1bupA 386 1.17e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1bvp1 349 1.18e+01 1bvp1 1il6 185 1.19e+01 1alu a.26.1.1 16827 1ehyA 294 1.23e+01 1ehyA c.69.1.11 34693 1duzA 275 1.23e+01 1agdA b.1.1.2 20670 d.19.1.1 38224 1e0cA 271 1.25e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1jdqA 98 1.28e+01 d.68.3.3 66559 1kaeA 434 1.29e+01 c.82.1.2 72247 1ll7A 392 1.29e+01 c.1.8.5 78085 d.26.3.1 78086 1alu 186 1.29e+01 1alu a.26.1.1 16826 1bgf 124 1.31e+01 1bgf a.90.1.1 18537 1bxlA 181 1.34e+01 1maz f.1.4.1 43396 1gs5A 258 1.34e+01 c.73.1.2 70395 1i4fA 275 1.36e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1ba1 386 1.39e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1snnA 227 1.41e+01 1r4pA 297 1.42e+01 d.165.1.2 -11560 1foeA 377 1.45e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1pufA 77 1.49e+01 a.4.1.1 -191 1d2kA 392 1.56e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1qddA 144 1.57e+01 1qddA d.169.1.1 42324 1hsbA 270 1.66e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1b7bA 310 1.73e+01 1b7bA c.73.1.1 34963 1pvyA 227 1.75e+01 d.115.1.2 -10937 1m1eB 81 1.80e+01 a.161.1.1 78400 1ax4A 467 1.84e+01 1ax4A c.67.1.2 34391 1ggwA 140 1.92e+01 1ggwA a.39.1.5 60490 1pq1B 33 2.01e+01 1gr8A 412 2.02e+01 1ockA 412 2.02e+01 c.117.1.1 86802 1b7eA 420 2.02e+01 1b7eA c.55.3.4 33680 1jweA 114 2.05e+01 1b79A a.81.1.1 18455 1mun 225 2.09e+01 1mun a.96.1.2 18744 1muyA 225 2.12e+01 1mun a.96.1.2 18745 1sv7A 109 2.15e+01 1g8iA 190 2.19e+01 1rec a.39.1.5 60363 1j03A 102 2.29e+01 unknown_sccs -10954 1bxsA 501 2.36e+01 1bpwA c.82.1.1 35357 1kepA 348 2.39e+01 c.2.1.2 68536 1i50A 1733 2.41e+01 e.29.1.2 61754 1ncx 162 2.43e+01 1ncx a.39.1.5 17222 1top 162 2.43e+01 1ncx a.39.1.5 17223 1t0gA 109 2.48e+01 unknown_sccs -10955 1p7gA 222 2.49e+01 a.2.11.1 -108 d.44.1.1 -9742 1e5mA 416 2.50e+01 1dd8A c.95.1.1 58973 c.95.1.1 58974 1aew 174 2.52e+01 2fha a.25.1.1 16676 1ad6 185 2.53e+01 1guxA a.74.1.3 18390 1rprA 63 2.56e+01 1nkd a.30.1.1 16989 1elkA 157 2.67e+01 1dvpA a.118.9.2 19217 1b79A 119 2.78e+01 1b79A a.81.1.1 18451 1oc2A 348 2.86e+01 c.2.1.2 -5753 1dat 174 2.86e+01 2fha a.25.1.1 16677 1kv9A 668 2.88e+01 a.3.1.6 73056 b.70.1.1 73057 1h8aC 128 3.01e+01 a.4.1.3 65731 a.4.1.3 65732 1fpoA 171 3.02e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487 1zug 71 3.10e+01 1r69 a.35.1.2 17041 1pioA 257 3.15e+01 1btl e.3.1.1 42719 1lit 144 3.25e+01 1qddA d.169.1.1 42325 1us7B 265 3.25e+01 unknown_sccs -1518 2btvA 901 3.30e+01 2btvA e.28.1.1 43376 1q8iA 783 3.33e+01 c.55.3.5 -7635 e.8.1.1 -11885 2cro 71 3.42e+01 1r69 a.35.1.2 17038 1aj8A 371 3.42e+01 1aj8A a.103.1.1 18900 1brwA 433 3.43e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1cx4A 305 3.45e+01 b.82.3.2 59099 b.82.3.2 59100 1ggzA 148 3.46e+01 a.39.1.5 70176 1omrA 201 3.55e+01 a.39.1.5 -854 1aye 401 3.69e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1f46A 140 3.73e+01 1f46A d.129.4.1 59643 1am7A 158 3.76e+01 1am7A d.2.1.4 36981 3blm 257 3.80e+01 1btl e.3.1.1 42709 1dxrM 323 3.86e+01 6prcM f.26.1.1 43432 3cln 148 3.87e+01 1cll a.39.1.5 17286 1jjoC 261 3.88e+01 1ftt 68 3.89e+01 2hddA a.4.1.1 15997 1nubA 229 3.90e+01 1sra a.39.1.3 17191 g.3.11.3 44330 unknown_sccs 44715 1rec 201 3.91e+01 1rec a.39.1.5 17326 1alq 266 3.96e+01 1btl e.3.1.1 42707 1kwgA 645 3.97e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1pq1A 196 3.98e+01 f.1.4.1 -12055 1kwkA 645 3.99e+01 b.71.1.1 77565 c.1.8.1 77566 c.23.16.5 77567