# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1aisB 200 1.88e-01 1aisB a.74.1.2 18384 a.74.1.2 18385 1trkA 680 8.85e-01 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1mun 225 9.87e-01 1mun a.96.1.2 18744 1gpuA 680 9.99e-01 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1e3dB 542 1.07e+00 1h2rL e.18.1.1 59189 1aj8A 371 1.20e+00 1aj8A a.103.1.1 18900 1ehkC 33 1.32e+00 1ehkC f.23.9.1 43626 1b9rA 105 1.74e+00 1ayfA d.15.4.1 37683 1ei9A 279 2.44e+00 1ei9A c.69.1.13 34713 1pufA 77 2.55e+00 a.4.1.1 -191 1v54J 59 2.84e+00 f.23.4.1 -12112 1m55A 197 2.96e+00 d.89.1.3 74469 2occJ 59 3.42e+00 2occJ f.23.4.1 43524 1pufB 73 3.44e+00 a.4.1.1 -192 1g4yR 148 3.71e+00 1cll a.39.1.5 60252 1pyaB 228 4.30e+00 1pyaB 1cfzA 162 4.30e+00 1cfzA c.56.1.1 33754 1ee8A 266 4.37e+00 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1h5uA 842 4.78e+00 1a8i c.87.1.4 60655 1q18A 332 4.89e+00 1lnsA 763 4.90e+00 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1dat 174 5.06e+00 2fha a.25.1.1 16677 1ucpA 91 5.09e+00 unknown_sccs -1193 1ggzA 148 5.18e+00 a.39.1.5 70176 1g8iA 190 5.46e+00 1rec a.39.1.5 60363 1ui7A 638 6.15e+00 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1b72B 87 6.22e+00 1akhA a.4.1.1 16001 1iw8A 231 6.26e+00 a.111.1.1 76866 1kaeA 434 6.36e+00 c.82.1.2 72247 1ac5 483 6.47e+00 1ac5 c.69.1.5 34653 1b25A 619 7.51e+00 1b25A a.110.1.1 19044 d.152.1.1 41796 1c8bA 371 7.67e+00 1c8bA c.56.1.2 59082 1jggA 60 7.89e+00 2hddA a.4.1.1 62950 1mumA 295 7.93e+00 c.1.12.7 85108 1thg 544 8.13e+00 1thg c.69.1.17 34763 1s9aA 257 8.16e+00 1i50A 1733 8.22e+00 e.29.1.2 61754 1ekeA 230 8.40e+00 1ekeA c.55.3.1 33572 1lvfA 110 8.78e+00 a.47.2.1 74280 1eexB 224 8.84e+00 1dioB c.51.3.1 33213 1dk8A 147 8.97e+00 1agrE a.91.1.1 18548 1chuA 540 9.21e+00 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1n55A 251 9.23e+00 c.1.1.1 80007 1a8i 842 9.57e+00 1a8i c.87.1.4 35490 1amk 251 1.07e+01 1amk c.1.1.1 28503 1oc2A 348 1.10e+01 c.2.1.2 -5753 1k4mA 213 1.14e+01 c.26.1.3 77258 1kepA 348 1.15e+01 c.2.1.2 68536 1e5eA 404 1.16e+01 1ibjA c.67.1.3 59265 1esmA 316 1.21e+01 1esmA c.37.1.6 31953 2occM 46 1.23e+01 2occM f.23.7.1 43527 1exrA 148 1.24e+01 1cll a.39.1.5 17299 1ea5A 537 1.28e+01 2bce c.69.1.1 34592 1ocsA 162 1.43e+01 d.189.1.1 -9929 1gs5A 258 1.43e+01 c.73.1.2 70395 1top 162 1.45e+01 1ncx a.39.1.5 17223 1hkhA 279 1.52e+01 c.69.1.12 -8342 1b0uA 262 1.58e+01 1b0uA c.37.1.12 32370 1i4fA 275 1.59e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1k5nA 276 1.59e+01 b.1.1.2 77266 d.19.1.1 77267 1enh 54 1.59e+01 2hddA a.4.1.1 15973 1v54M 46 1.61e+01 f.23.7.1 -12124 2cblA 305 1.66e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1q8iA 783 1.68e+01 c.55.3.5 -7635 e.8.1.1 -11885 1e9lA 377 1.70e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1lb3A 182 1.72e+01 a.25.1.1 77873 1pq9A 253 1.75e+01 a.123.1.1 -1687 1neyA 247 1.78e+01 c.1.1.1 80449 1ci9A 392 1.81e+01 e.3.1.1 64767 1h96A 182 1.82e+01 2fha a.25.1.1 60811 1g1eB 89 1.82e+01 1g1eB a.59.1.1 17931 1fzoA 274 2.00e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1lk2A 274 2.00e+01 b.1.1.2 -2610 d.19.1.1 -9365 1ax4A 467 2.17e+01 1ax4A c.67.1.2 34391 1e0cA 271 2.18e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1allA 160 2.23e+01 1qgwC a.1.1.3 15647 1dkqA 410 2.29e+01 1dklA c.60.1.2 33998 1izmA 184 2.33e+01 unknown_sccs -1233 1vhtA 218 2.39e+01 c.37.1.1 -7004 1acf 125 2.40e+01 3nul d.110.1.1 40882 1oivA 191 2.40e+01 c.37.1.8 -7074 1p65A 73 2.43e+01 unknown_sccs -10331 1nxhA 126 2.50e+01 unknown_sccs -1239 1i39A 225 2.51e+01 1ekeA c.55.3.1 61585 1gc0A 398 2.53e+01 c.67.1.3 70168 1auk 489 2.65e+01 1auk c.76.1.2 35030 1b0pA 1231 2.78e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1lvwA 295 2.78e+01 c.68.1.6 84723 1kv9A 668 2.82e+01 a.3.1.6 73056 b.70.1.1 73057 1ah6 220 2.96e+01 1yer d.122.1.1 41094 1j1jA 240 2.98e+01 a.118.16.1 -1637 2dkb 433 3.01e+01 2dkb c.67.1.4 34438 1dwkA 156 3.04e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1k3yA 221 3.06e+01 a.45.1.1 77245 c.47.1.5 77246 1musA 477 3.08e+01 c.55.3.4 79494 1jssA 224 3.09e+01 d.129.3.2 71844 1noyA 388 3.09e+01 1clqA c.55.3.5 33713 1ui8A 638 3.21e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1hlb 158 3.38e+01 1hlb a.1.1.2 15625 1icrA 217 3.40e+01 1vfrA d.90.1.1 62274 2hddA 61 3.40e+01 2hddA a.4.1.1 15971 4bcl 366 3.42e+01 4bcl b.75.1.1 27968 1ehyA 294 3.44e+01 1ehyA c.69.1.11 34693 1jfzA 154 3.50e+01 a.149.1.1 66655 1alu 186 3.55e+01 1alu a.26.1.1 16826 1ffyA 917 3.57e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1diiC 80 3.63e+01 1diiC a.3.1.1 15925 1itcA 516 3.64e+01 b.3.1.1 83705 c.1.8.1 83706 1p3qQ 54 3.64e+01 a.5.2.4 87748 1j7gA 144 3.67e+01 c.110.1.1 84130 1rypA 243 3.68e+01 1pmaA d.153.1.4 41932 1pk5A 248 3.69e+01 a.123.1.1 88139 1nz6A 101 3.74e+01 a.2.3.1 86441 3pte 349 3.75e+01 3pte e.3.1.1 42687 1pwgA 349 3.77e+01 1hvbA 349 3.77e+01 3pte e.3.1.1 42686 1d2tA 231 3.80e+01 1d2tA a.111.1.1 19052 1afwA 393 3.81e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1m0uA 249 3.81e+01 a.45.1.1 78359 c.47.1.5 78360 1ng6A 148 3.86e+01 a.182.1.1 85670 1j30A 144 3.88e+01 a.25.1.1 -650 1jj2I 145 3.88e+01 1ffkG c.21.1.1 63094 1jboA 162 3.89e+01 a.1.1.3 84150 1i45A 248 3.95e+01 1amk c.1.1.1 61665 1t4hA 290 3.97e+01 1mplA 349 3.98e+01 e.3.1.1 79387 2pvbA 107 3.99e+01 1a75A a.39.1.4 17205