# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1.57e-01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1mun 225 1.93e-01 1mun a.96.1.2 18744 1g1eB 89 5.05e-01 1g1eB a.59.1.1 17931 1pufA 77 5.94e-01 a.4.1.1 -191 1g4yR 148 8.25e-01 1cll a.39.1.5 60252 1ggzA 148 9.67e-01 a.39.1.5 70176 1dat 174 1.09e+00 2fha a.25.1.1 16677 1ehkC 33 1.09e+00 1ehkC f.23.9.1 43626 1top 162 1.10e+00 1ncx a.39.1.5 17223 1v54J 59 1.12e+00 f.23.4.1 -12112 1lvwA 295 1.18e+00 c.68.1.6 84723 2occJ 59 1.18e+00 2occJ f.23.4.1 43524 1aj8A 371 1.30e+00 1aj8A a.103.1.1 18900 1k5nA 276 1.33e+00 b.1.1.2 77266 d.19.1.1 77267 1pyaB 228 1.50e+00 1pyaB 1hkhA 279 1.84e+00 c.69.1.12 -8342 1ei9A 279 2.32e+00 1ei9A c.69.1.13 34713 1thg 544 2.56e+00 1thg c.69.1.17 34763 1e3dB 542 2.59e+00 1h2rL e.18.1.1 59189 1jggA 60 2.61e+00 2hddA a.4.1.1 62950 1neyA 247 2.65e+00 c.1.1.1 80449 1ee8A 266 2.81e+00 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1kaeA 434 3.03e+00 c.82.1.2 72247 1ac5 483 3.15e+00 1ac5 c.69.1.5 34653 1i45A 248 3.42e+00 1amk c.1.1.1 61665 1aisB 200 3.46e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1exrA 148 3.52e+00 1cll a.39.1.5 17299 1gs5A 258 3.69e+00 c.73.1.2 70395 1lvfA 110 3.82e+00 a.47.2.1 74280 1pufB 73 4.13e+00 a.4.1.1 -192 1p7gA 222 4.32e+00 a.2.11.1 -108 d.44.1.1 -9742 1b72B 87 4.33e+00 1akhA a.4.1.1 16001 1t0gA 109 5.25e+00 unknown_sccs -10955 2liv 344 5.33e+00 2liv c.93.1.1 35708 1gpuA 680 5.53e+00 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 2fha 183 5.58e+00 2fha a.25.1.1 16674 1ekeA 230 5.86e+00 1ekeA c.55.3.1 33572 1esmA 316 5.97e+00 1esmA c.37.1.6 31953 1afwA 393 6.20e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1chuA 540 6.36e+00 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1trkA 680 6.41e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1vk9A 151 6.73e+00 1e0cA 271 6.80e+00 1e0cA c.46.1.2 32717 c.46.1.2 32718 1j1jA 240 7.07e+00 a.118.16.1 -1637 1ax4A 467 7.36e+00 1ax4A c.67.1.2 34391 1l0iA 78 7.53e+00 a.28.1.1 77643 1h96A 182 7.88e+00 2fha a.25.1.1 60811 1lb3A 182 7.88e+00 a.25.1.1 77873 1amk 251 7.98e+00 1amk c.1.1.1 28503 1j30A 144 8.03e+00 a.25.1.1 -650 1g8iA 190 8.23e+00 1rec a.39.1.5 60363 1n55A 251 8.31e+00 c.1.1.1 80007 1vjnA 220 8.35e+00 unknown_sccs -11458 1ly1A 181 8.39e+00 c.37.1.1 74334 2cro 71 8.47e+00 1r69 a.35.1.2 17038 1pq1A 196 8.52e+00 f.1.4.1 -12055 1eexB 224 8.98e+00 1dioB c.51.3.1 33213 1e5eA 404 9.66e+00 1ibjA c.67.1.3 59265 1lk2A 274 9.89e+00 b.1.1.2 -2610 d.19.1.1 -9365 1q8iA 783 1.04e+01 c.55.3.5 -7635 e.8.1.1 -11885 1i4fA 275 1.05e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 2btvA 901 1.07e+01 2btvA e.28.1.1 43376 1fzoA 274 1.11e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1i50A 1733 1.12e+01 e.29.1.2 61754 1gc0A 398 1.14e+01 c.67.1.3 70168 1cleA 534 1.16e+01 1thg c.69.1.17 34771 1tph1 247 1.21e+01 1amk 1b9rA 105 1.22e+01 1ayfA d.15.4.1 37683 1r12A 258 1.24e+01 e.4.1.1 -11807 1va4A 279 1.25e+01 1acf 125 1.28e+01 3nul d.110.1.1 40882 1b25A 619 1.35e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1ui8A 638 1.36e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1us7B 265 1.37e+01 unknown_sccs -1518 1s9aA 257 1.40e+01 1ui7A 638 1.42e+01 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1brt 277 1.45e+01 1brt c.69.1.12 34699 1v54M 46 1.46e+01 f.23.7.1 -12124 1p65A 73 1.50e+01 unknown_sccs -10331 1iw8A 231 1.52e+01 a.111.1.1 76866 1kepA 348 1.53e+01 c.2.1.2 68536 1kxu 333 1.53e+01 1jkw a.74.1.1 18358 a.74.1.1 18359 2plc 274 1.54e+01 2plc c.1.18.2 29614 1oivA 191 1.55e+01 c.37.1.8 -7074 2hddA 61 1.57e+01 2hddA a.4.1.1 15971 1ffyA 917 1.58e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1enh 54 1.58e+01 2hddA a.4.1.1 15973 1lnsA 763 1.59e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1ji1A 637 1.60e+01 b.1.18.2 71666 b.71.1.1 71667 c.1.8.1 71668 1llfA 534 1.61e+01 c.69.1.17 78094 1i74A 309 1.64e+01 1i74A c.107.1.1 61867 2pvbA 107 1.68e+01 1a75A a.39.1.4 17205 1oc2A 348 1.69e+01 c.2.1.2 -5753 1e9lA 377 1.71e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1h5uA 842 1.74e+01 1a8i c.87.1.4 60655 1cfzA 162 1.78e+01 1cfzA c.56.1.1 33754 1r2rA 248 1.84e+01 c.1.1.1 -5147 1n9bA 265 1.89e+01 e.3.1.1 85463 1r4pA 297 1.97e+01 d.165.1.2 -11560 1i2sA 282 2.08e+01 e.3.1.1 71104 1ca1 370 2.10e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1fl1A 230 2.15e+01 1at3A b.57.1.1 27023 1e2kA 331 2.19e+01 1qhiA c.37.1.1 31854 1f3iA 481 2.22e+01 1b7eA 1b79A 119 2.22e+01 1b79A a.81.1.1 18451 1b0uA 262 2.24e+01 1b0uA c.37.1.12 32370 1qr6A 584 2.24e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1a8i 842 2.26e+01 1a8i c.87.1.4 35490 1svsA 353 2.26e+01 1ur3M 319 2.27e+01 c.1.7.1 -5248 1musA 477 2.28e+01 c.55.3.4 79494 3ygsP 97 2.29e+01 3ygsP a.77.1.3 18435 1htrP 43 2.29e+01 1htrP b.50.1.2 26852 1r03A 182 2.36e+01 1sqgA 429 2.38e+01 4blmA 265 2.42e+01 1btl e.3.1.1 42721 1l3iA 192 2.43e+01 c.66.1.22 77676 1cx4A 305 2.57e+01 b.82.3.2 59099 b.82.3.2 59100 2occM 46 2.58e+01 2occM f.23.7.1 43527 1kv9A 668 2.63e+01 a.3.1.6 73056 b.70.1.1 73057 1alu 186 2.64e+01 1alu a.26.1.1 16826 1uelB 48 2.67e+01 j.105.1.1 -13406 1izcA 339 2.67e+01 c.1.12.5 83838 1vhtA 218 2.71e+01 c.37.1.1 -7004 1odoA 408 2.86e+01 a.104.1.1 -1463 1g8fA 511 2.87e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1icrA 217 2.88e+01 1vfrA d.90.1.1 62274 1nnwA 252 2.88e+01 d.159.1.5 80674 1izmA 184 2.89e+01 unknown_sccs -1233 1jssA 224 2.93e+01 d.129.3.2 71844 1pk5A 248 2.93e+01 a.123.1.1 88139 1jboA 162 2.96e+01 a.1.1.3 84150 1jo0A 98 2.97e+01 d.68.4.1 77140 1kk8B 139 2.99e+01 a.39.1.5 77430 1qhiA 366 3.02e+01 1qhiA c.37.1.1 31860 1n2eA 300 3.02e+01 c.26.1.4 85268 1i39A 225 3.02e+01 1ekeA c.55.3.1 61585 1ah6 220 3.05e+01 1yer d.122.1.1 41094 1j33A 335 3.09e+01 c.39.1.1 77069 1s0pA 176 3.12e+01 unknown_sccs -1156 1r5yA 386 3.15e+01 c.1.20.1 -5626 1v54C 261 3.21e+01 f.25.1.1 -12239 1foeA 377 3.22e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1ea5A 537 3.26e+01 2bce c.69.1.1 34592 1ej0A 180 3.30e+01 1ej0A c.66.1.2 34179 1mvcA 240 3.34e+01 a.123.1.1 79499 1t4hA 290 3.36e+01 1yge 839 3.39e+01 1yge a.119.1.1 19234 b.12.1.1 23634 1nkd 65 3.40e+01 1nkd a.30.1.1 16974 4bcl 366 3.48e+01 4bcl b.75.1.1 27968 1irqA 71 3.48e+01 unknown_sccs 66297 1e55A 512 3.62e+01 1e70M c.1.8.4 28934 1pq1B 33 3.65e+01 1nv8A 284 3.65e+01 c.66.1.30 86224 1a79A 171 3.68e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1omrA 201 3.75e+01 a.39.1.5 -854 1udc 338 3.80e+01 1xel c.2.1.2 29785 1hlvA 131 3.80e+01 a.4.1.7 65854 a.4.1.7 65855 1broA 277 3.86e+01 1brt c.69.1.12 34700 1o08A 221 3.88e+01 c.108.1.6 86525 1bbhA 131 3.89e+01 1bbhA a.24.3.2 16546 1r6xA 395 3.92e+01 b.122.1.3 -5125 c.26.1.5 -6620 1dkqA 410 3.93e+01 1dklA c.60.1.2 33998 1ockA 412 3.96e+01 c.117.1.1 86802