# List of top-scoring protein chains for t04-100-30-bys-scores 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 5.37e-05 1ci0A b.45.1.1 25753 1g79A 218 7.17e-05 1ci0A b.45.1.1 25752 1nrgA 261 2.69e-04 b.45.1.1 80694 1t9mA 214 6.02e-04 1ty9A 222 8.30e-04 2fhqA 141 2.23e-03 1rfeA 162 1.31e-02 1vl7A 157 1.54e-02 b.45.1.1 108732 2aq6A 147 1.84e-02 1w9aA 147 2.31e-02 1xxoA 147 2.64e-02 2furA 209 1.42e+00 2asfA 137 1.99e+00 2fg9A 178 2.15e+00 1q7lA 198 4.01e+00 c.56.5.4 96044 1r6xA 395 4.48e+00 b.122.1.3,c.26.1.5 97167,97168 1tueA 212 4.92e+00 c.37.1.20 107323 1lid 131 5.12e+00 1hmt b.60.1.2 27184 1g8fA 511 5.85e+00 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 2g09A 297 5.90e+00 2bduA 297 6.12e+00 1q1aA 289 6.36e+00 c.31.1.5 95561 1kewA 361 7.02e+00 c.2.1.2 68544 1p5dX 463 7.38e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2fcjA 119 8.07e+00 1k2yX 463 1.02e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1cjxA 357 1.06e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1nf2A 268 1.07e+01 c.108.1.10 91849 2ai4A 119 1.20e+01 2giyA 191 1.28e+01 1rw7A 243 1.28e+01 c.23.16.2 97963 1mwwA 128 1.31e+01 d.80.1.4 91483 2chnA 716 1.37e+01 1zxtA 76 1.44e+01 1j6wA 175 1.45e+01 1j98A d.185.1.2 62663 1mh9A 197 1.48e+01 c.108.1.8 79118 1qvzA 237 1.49e+01 c.23.16.2 96453 1cwvA 492 1.50e+01 1cwvA b.1.14.1,b.1.14.1,b.1.14.1,b.1.14.1,d.169.1.3 22373,22374,22375,22376,42442 1v5rA 97 1.54e+01 1u9cA 224 1.58e+01 1g7nA 131 1.58e+01 b.60.1.2 83274 1kapP 479 1.62e+01 1sat b.80.7.1,d.92.1.6 28012,40298 1u7eB 154 1.72e+01 1gewA 356 1.88e+01 1gewA c.67.1.1 60470 1kr7A 110 2.05e+01 a.1.1.4 72890 1b8aA 438 2.07e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1y3tA 337 2.14e+01 1kdxB 28 2.14e+01 1fg7A 356 2.15e+01 1gewA c.67.1.1 59819 1wd5A 208 2.21e+01 1ejeA 192 2.25e+01 1ejeA b.45.1.2 25757 1s1dA 331 2.27e+01 b.67.3.1 98344 1xfcA 384 2.27e+01 1xw4X 110 2.28e+01 2acvA 463 2.29e+01 1myt 146 2.31e+01 1a6m a.1.1.2 15207 1u0kA 288 2.32e+01 d.21.1.2,d.21.1.2 107547,107548 1ciy 590 2.33e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1wdtA 665 2.40e+01 1hz6A 72 2.41e+01 2ptl d.15.7.1 61429 1zhxA 438 2.48e+01 2vhbA 146 2.51e+01 2vhbA a.1.1.2 15629 1yzsA 121 2.54e+01 3pvaA 335 2.54e+01 3pvaA d.153.1.3 41854 1h4uA 265 2.60e+01 1h4uA d.22.1.2,g.3.11.5 60622,60623 1lr7A 74 2.61e+01 g.3.11.3,g.68.1.1 84679,84680 1hdr 244 2.70e+01 1dhr c.2.1.2 29837 1ne6A 283 2.71e+01 b.82.3.2,b.82.3.2 91831,91832 1di2A 69 2.82e+01 1di2A d.50.1.1 38780 1z0wA 207 2.85e+01 1p1xA 260 2.86e+01 c.1.10.1 104060 1hlgA 371 2.88e+01 1hlgA c.69.1.6 34656 1oj7A 408 2.90e+01 e.22.1.2 103971 1pvtA 238 2.94e+01 c.74.1.1 95189 1mu5A 471 2.95e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1u2hA 99 2.99e+01 2gc9A 179 3.04e+01 1gl4A 285 3.09e+01 d.22.1.2,g.3.11.5 65286,65287 2f96A 224 3.13e+01 1a92A 50 3.17e+01 1a92A h.4.6.1 45791 2gr8A 99 3.21e+01 1sskA 158 3.22e+01 b.148.1.1 105986 1q92A 197 3.23e+01 c.108.1.8 96250 1dzkA 157 3.31e+01 1obpA b.60.1.1 27096 1d2mA 665 3.32e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1jyhA 157 3.33e+01 d.60.1.3 71956 2lhb 149 3.34e+01 2fal a.1.1.2 15597 1z5bA 469 3.34e+01 4enl 436 3.44e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1qa7A 217 3.51e+01 1havA b.47.1.4 26425 1gvhA 396 3.51e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1qxrA 189 3.59e+01 b.82.1.7 96552 2al1A 436 3.63e+01 1f5mA 180 3.71e+01 1f5mB d.110.2.1 40895 2pvaA 345 3.73e+01 3pvaA d.153.1.3 41850 1fljA 260 3.85e+01 2cba b.74.1.1 27954 4dfrA 159 3.87e+01 1vdrA c.71.1.1 34822 1rmg 422 3.88e+01 1rmg b.80.1.3 28029 1dhr 241 3.90e+01 1dhr c.2.1.2 29832 1ut7A 171 3.90e+01 b.143.1.1 99906 1ri6A 343 3.96e+01 b.69.11.1 97503 1byyA 53 3.97e+01 j.12.1.1 46147 1x82A 190 4.03e+01 1k0wA 231 4.05e+01 c.74.1.1 77220 1tl0D 103 4.11e+01 2av5A 120 4.18e+01 1i24A 404 4.19e+01 c.2.1.2 83663 1wkcA 184 4.19e+01 1yvcA 70 4.19e+01 2fa8A 105 4.25e+01 1jclA 260 4.38e+01 c.1.10.1 66501 1xwl 580 4.38e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1khcA 147 4.42e+01 b.34.9.2 68608 1akz 223 4.54e+01 3eugA c.18.1.1 31007 2b3wA 168 4.54e+01 1aqb 183 4.56e+01 1aqb b.60.1.1 27084 1egwA 77 4.59e+01 1mnmA d.88.1.1 40234 1j5sA 463 4.66e+01 c.1.9.8 71580 2asuB 234 4.68e+01 1oneA 436 4.70e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1m0wA 491 4.72e+01 c.30.1.4,d.142.1.6 78363,78364 2sak 121 4.76e+01 2sak d.15.5.1 37711 1sqiA 393 4.87e+01 d.32.1.3,d.32.1.3 105914,105915 1wj9A 211 4.92e+01 2aefA 234 5.01e+01 1a4yA 460 5.08e+01 1a4yA c.10.1.1 30852 1g6oA 330 5.08e+01 1g6oA c.37.1.11 32430 1oapA 109 5.13e+01 d.79.7.1 92706 1c4oA 664 5.18e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1v33A 366 5.18e+01 d.264.1.1 100278 1r9hA 135 5.19e+01 d.26.1.1 97260 1ilr1 152 5.20e+01 1irp 1k8qA 377 5.21e+01 c.69.1.6 72177 1yirA 408 5.27e+01 1ej6D 418 5.30e+01 i.7.1.1 45970 1k0sA 151 5.31e+01 b.40.7.1 67969 1vajA 214 5.34e+01 1pyoA 167 5.41e+01 c.17.1.1 95370 1kepA 348 5.44e+01 c.2.1.2 68536 1yn9A 169 5.49e+01 1g57A 217 5.50e+01 1g57A d.115.1.2 60253 1od3A 168 5.53e+01 b.18.1.10 86825 1ux8A 132 5.53e+01 1oc2A 348 5.54e+01 c.2.1.2 92765 1gskA 513 5.55e+01 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1u4bA 580 5.55e+01 c.55.3.5,e.8.1.1 107664,107665 2f7tA 227 5.57e+01 1xbrA 184 5.61e+01 1xbrA b.2.5.4 22458 2aumA 317 5.65e+01 1h65A 270 5.70e+01 c.37.1.8 65640 1ympA 135 5.75e+01 2aibA 98 5.79e+01 1nk4A 580 5.80e+01 c.55.3.5,e.8.1.1 91923,91924 1jx4A 352 5.82e+01 d.240.1.1,e.8.1.7 90378,90379 1ws0A 156 5.86e+01 1zrsA 317 6.03e+01 1wdjA 187 6.11e+01 1vmaA 306 6.12e+01 a.24.13.1,c.37.1.10 108887,108888 1z7xW 461 6.21e+01 1gy8A 397 6.22e+01 c.2.1.2 83376 1oe4A 247 6.30e+01 c.18.1.3 86895 2aunA 317 6.32e+01 1f2tB 148 6.33e+01 1f2tB 1jwqA 179 6.36e+01 c.56.5.6 90921 1d1gA 168 6.37e+01 1d1gA c.71.1.1 34889 1r4pB 70 6.40e+01 b.40.2.1 97026 1ykdA 398 6.42e+01 1zl0A 311 6.43e+01 1gw0A 559 6.52e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 1yl36 82 6.54e+01 1pkp 150 6.54e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1h6lA 353 6.62e+01 b.68.3.1 60687 1wruA 379 6.67e+01 2etjA 250 6.71e+01 2d37A 176 6.72e+01 2bv2A 83 6.76e+01 1us5A 314 6.77e+01 c.94.1.1 99856 1tmxA 293 6.88e+01 2pooA 355 6.89e+01 1qlgA b.68.3.1 27626 1am2 199 6.90e+01 1am2 b.86.1.2 28381 1zu4A 320 6.96e+01 2abqA 306 6.98e+01 1qrrA 394 7.01e+01 1qrrA c.2.1.2 29824 1x0tA 120 7.03e+01 2bvfA 459 7.11e+01 1vfsA 386 7.11e+01 b.49.2.2,c.1.6.1 108584,108585 1havA 217 7.21e+01 1havA b.47.1.4 26423 1vc1A 110 7.32e+01 c.13.2.1 108493 2d13A 227 7.34e+01 2cu3A 64 7.40e+01 1mhyD 521 7.41e+01 1mhyD a.25.1.2 16780 1go7P 462 7.43e+01 b.80.7.1,d.92.1.6 76245,76246 1nc7A 138 7.48e+01 b.123.1.1 85549 1ouwA 152 7.53e+01 b.77.3.1 93571 1n08A 163 7.56e+01 b.43.5.1 79730 1bco 327 7.69e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1l3sA 580 7.82e+01 c.55.3.5,e.8.1.1 84521,84522 1l2mA 118 7.90e+01 d.89.1.4 77657 2awaA 390 7.93e+01 1nqeA 594 7.94e+01 f.4.3.3 86027 1cbs 137 8.00e+01 1hmt b.60.1.2 27201 1jjeA 222 8.01e+01 1a7tA d.157.1.1 63117 1f0iA 504 8.08e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1z5zA 271 8.11e+01 1p4kA 295 8.13e+01 d.153.1.5 87772 1qtnA 164 8.13e+01 1pauA c.17.1.1 30999 2cxvA 219 8.14e+01 1sbxA 106 8.15e+01 a.6.1.4 105414 1ha3A 405 8.26e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1zs7A 190 8.27e+01 1xw3A 110 8.27e+01 1rgyA 360 8.37e+01 e.3.1.1 97456 1lriA 98 8.44e+01 a.134.1.1 74223 1ukmB 128 8.46e+01 d.169.1.1 99500 1e2uA 553 8.54e+01 1e1dA e.26.1.1 43362 2ffyA 358 8.58e+01 1v0wA 506 8.60e+01 d.136.1.2,d.136.1.2 108220,108221 1a65A 504 8.63e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1s68A 249 8.70e+01 d.142.2.4 98591 1wsrA 375 8.70e+01 1gr0A 367 8.73e+01 c.2.1.3,d.81.1.3 70379,70380 1acx 108 8.73e+01 2mcm b.1.7.1 22211 2f06A 144 8.75e+01 1rgzA 363 8.76e+01 e.3.1.1 97457 1fgs 428 8.81e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1pi4A 358 8.85e+01 e.3.1.1 94700 1v72A 356 8.88e+01 1l7aA 318 8.93e+01 c.69.1.25 77772 1qkkA 155 8.95e+01 1dbwA c.23.1.1 31104 1jjtA 228 8.96e+01 1a7tA d.157.1.1 63139 1kt6A 183 8.98e+01 b.60.1.1 84466