# List of top-scoring protein chains for t04-100-30-str2 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 1.66e-01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1dat 174 5.42e-01 2fha a.25.1.1 16677 1aisB 200 5.82e-01 1aisB a.74.1.2 18384 a.74.1.2 18385 1mun 225 6.31e-01 1mun a.96.1.2 18744 1g1eB 89 6.67e-01 1g1eB a.59.1.1 17931 1kaeA 434 1.01e+00 c.82.1.2 72247 1lvwA 295 1.31e+00 c.68.1.6 84723 1top 162 1.45e+00 1ncx a.39.1.5 17223 1ehkC 33 1.46e+00 1ehkC f.23.9.1 43626 1aj8A 371 1.83e+00 1aj8A a.103.1.1 18900 1gs5A 258 2.05e+00 c.73.1.2 70395 1ggzA 148 2.77e+00 a.39.1.5 70176 1ithA 141 2.86e+00 1ithA a.1.1.2 15623 1k5nA 276 2.96e+00 b.1.1.2 77266 d.19.1.1 77267 1lvfA 110 3.17e+00 a.47.2.1 74280 1jggA 60 3.31e+00 2hddA a.4.1.1 62950 1ee8A 266 3.35e+00 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1pufA 77 3.56e+00 a.4.1.1 -191 1i50A 1733 3.70e+00 e.29.1.2 61754 1g4yR 148 3.77e+00 1cll a.39.1.5 60252 1h96A 182 3.79e+00 2fha a.25.1.1 60811 1lb3A 182 3.79e+00 a.25.1.1 77873 1e9lA 377 4.13e+00 1e9lA c.1.8.5 59395 d.26.3.1 59396 1hkhA 279 4.32e+00 c.69.1.12 -8342 1eexB 224 4.44e+00 1dioB c.51.3.1 33213 1io2A 213 4.45e+00 1ekeA c.55.3.1 62612 1odoA 408 4.53e+00 a.104.1.1 -1463 1j1jA 240 4.62e+00 a.118.16.1 -1637 1gpuA 680 4.67e+00 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1i45A 248 4.80e+00 1amk c.1.1.1 61665 1ekeA 230 4.88e+00 1ekeA c.55.3.1 33572 1ei9A 279 5.10e+00 1ei9A c.69.1.13 34713 1trkA 680 5.49e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1ucpA 91 5.75e+00 unknown_sccs -1193 1bgf 124 5.90e+00 1bgf a.90.1.1 18537 2occJ 59 5.96e+00 2occJ f.23.4.1 43524 1v54J 59 6.12e+00 f.23.4.1 -12112 1neyA 247 6.19e+00 c.1.1.1 80449 1dxrM 323 6.39e+00 6prcM f.26.1.1 43432 1i39A 225 6.95e+00 1ekeA c.55.3.1 61585 1e3dB 542 7.17e+00 1h2rL e.18.1.1 59189 1cfzA 162 7.28e+00 1cfzA c.56.1.1 33754 1foeA 377 7.81e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1pyaB 228 7.94e+00 1pyaB 1n55A 251 8.37e+00 c.1.1.1 80007 1oivA 191 8.62e+00 c.37.1.8 -7074 1j30A 144 8.62e+00 a.25.1.1 -650 1m1eB 81 8.68e+00 a.161.1.1 78400 2fha 183 9.07e+00 2fha a.25.1.1 16674 1e5eA 404 9.19e+00 1ibjA c.67.1.3 59265 3ygsP 97 9.42e+00 3ygsP a.77.1.3 18435 1i2sA 282 9.56e+00 e.3.1.1 71104 1thg 544 9.57e+00 1thg c.69.1.17 34763 1t0gA 109 9.71e+00 unknown_sccs -10955 1chuA 540 1.03e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1ac5 483 1.04e+01 1ac5 c.69.1.5 34653 1amk 251 1.15e+01 1amk c.1.1.1 28503 4blmA 265 1.18e+01 1btl e.3.1.1 42721 1fpoA 171 1.18e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487 1exrA 148 1.18e+01 1cll a.39.1.5 17299 1s9aA 257 1.23e+01 1ockA 412 1.24e+01 c.117.1.1 86802 1g8iA 190 1.24e+01 1rec a.39.1.5 60363 1kepA 348 1.30e+01 c.2.1.2 68536 2pvbA 107 1.30e+01 1a75A a.39.1.4 17205 1musA 477 1.34e+01 c.55.3.4 79494 1v54M 46 1.40e+01 f.23.7.1 -12124 1q8iA 783 1.46e+01 c.55.3.5 -7635 e.8.1.1 -11885 1kv9A 668 1.53e+01 a.3.1.6 73056 b.70.1.1 73057 1nxcA 478 1.53e+01 a.102.2.1 -1333 1r4pA 297 1.54e+01 d.165.1.2 -11560 1us7B 265 1.59e+01 unknown_sccs -1518 1r12A 258 1.60e+01 e.4.1.1 -11807 1pq1B 33 1.61e+01 1oc2A 348 1.67e+01 c.2.1.2 -5753 1a6m 151 1.81e+01 1a6m a.1.1.2 15018 1pufB 73 1.89e+01 a.4.1.1 -192 2cro 71 1.93e+01 1r69 a.35.1.2 17038 1elkA 157 1.97e+01 1dvpA a.118.9.2 19217 1enh 54 2.00e+01 2hddA a.4.1.1 15973 1jo0A 98 2.14e+01 d.68.4.1 77140 1kqqA 139 2.14e+01 a.4.3.1 72885 1a8i 842 2.15e+01 1a8i c.87.1.4 35490 1b79A 119 2.15e+01 1b79A a.81.1.1 18451 1svsA 353 2.17e+01 2occM 46 2.18e+01 2occM f.23.7.1 43527 1vjnA 220 2.22e+01 unknown_sccs -11458 1tph1 247 2.29e+01 1amk 1ui7A 638 2.29e+01 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1p7gA 222 2.30e+01 a.2.11.1 -108 d.44.1.1 -9742 1ej0A 180 2.30e+01 1ej0A c.66.1.2 34179 1l0iA 78 2.30e+01 a.28.1.1 77643 1b25A 619 2.33e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1nv8A 284 2.35e+01 c.66.1.30 86224 1ll7A 392 2.42e+01 c.1.8.5 78085 d.26.3.1 78086 1f3iA 481 2.43e+01 1b7eA 1kxu 333 2.44e+01 1jkw a.74.1.1 18358 a.74.1.1 18359 1n93X 375 2.44e+01 unknown_sccs -1540 1p65A 73 2.50e+01 unknown_sccs -10331 1r2rA 248 2.52e+01 c.1.1.1 -5147 1gc0A 398 2.56e+01 c.67.1.3 70168 1broA 277 2.58e+01 1brt c.69.1.12 34700 1r03A 182 2.59e+01 1v54C 261 2.63e+01 f.25.1.1 -12239 1ehyA 294 2.63e+01 1ehyA c.69.1.11 34693 1b72B 87 2.67e+01 1akhA a.4.1.1 16001 1j24A 143 2.71e+01 c.52.1.20 84008 1h5uA 842 2.72e+01 1a8i c.87.1.4 60655 1j33A 335 2.72e+01 c.39.1.1 77069 1ui8A 638 2.73e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1jssA 224 2.73e+01 d.129.3.2 71844 1lk2A 274 2.74e+01 b.1.1.2 -2610 d.19.1.1 -9365 1sqgA 429 2.80e+01 1s0pA 176 2.81e+01 unknown_sccs -1156 1afwA 393 2.81e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1d2kA 392 2.97e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 2hddA 61 3.01e+01 2hddA a.4.1.1 15971 1fzoA 274 3.06e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1acf 125 3.10e+01 3nul d.110.1.1 40882 1nkd 65 3.17e+01 1nkd a.30.1.1 16974 1m55A 197 3.19e+01 d.89.1.3 74469 2occC 261 3.25e+01 1ocrC f.25.1.1 43520 1izmA 184 3.26e+01 unknown_sccs -1233 2dkb 433 3.35e+01 2dkb c.67.1.4 34438 1n2eA 300 3.39e+01 c.26.1.4 85268 1va4A 279 3.41e+01 1lnsA 763 3.42e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1e0cA 271 3.42e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1h6pA 203 3.44e+01 a.146.1.1 60690 1alu 186 3.46e+01 1alu a.26.1.1 16826 1f46A 140 3.48e+01 1f46A d.129.4.1 59643 1nt4A 391 3.57e+01 c.60.1.2 -7942 1j6rA 214 3.71e+01 d.173.1.2 71598 1omrA 201 3.71e+01 a.39.1.5 -854 1dkqA 410 3.76e+01 1dklA c.60.1.2 33998 1brt 277 3.78e+01 1brt c.69.1.12 34699 1r2qA 170 3.80e+01 c.37.1.8 -7071 1p3qQ 54 3.81e+01 a.5.2.4 87748 1d7uA 433 3.81e+01 2dkb c.67.1.4 34439 1jf2A 195 3.84e+01 1ej3A a.39.1.5 62930 1m98A 317 3.85e+01 a.175.1.1 78866 d.17.4.6 78867 1es5A 262 3.88e+01 1skf e.3.1.1 42679 1j7gA 144 3.90e+01 c.110.1.1 84130 1ln4A 104 3.94e+01 d.68.4.1 74043 1n9bA 265 3.97e+01 e.3.1.1 85463 2ccyA 128 4.00e+01 2ccyA a.24.3.2 16544