# List of top-scoring protein chains for t04-100-30-alpha 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 1rz1A 161 1.69e-27 b.45.1.2 -4088 1ejeA 192 6.12e-25 1ejeA b.45.1.2 25757 1uscA 178 1.76e-23 b.45.1.2 -4074 1i0rA 169 1.08e-22 1i0rA b.45.1.2 61489 1i0sA 169 1.45e-22 1i0rA b.45.1.2 61491 1d1gA 168 6.97e-03 1d1gA c.71.1.1 34889 1flmA 122 2.75e-02 1axj b.45.1.1 25747 1fthA 122 7.93e-02 d.150.1.2 60028 1ne2A 200 9.15e-02 c.66.1.32 85586 1tlk 154 2.03e-01 1tlk b.1.1.4 21707 1fhgA 154 2.83e-01 1tlk b.1.1.4 21706 1rxxA 421 2.96e-01 unknown_sccs -10982 1go3E 187 3.34e-01 b.40.4.5 83054 d.230.1.1 83055 1gt6A 269 3.80e-01 c.69.1.17 76342 1mkyA 439 3.89e-01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1p6oA 161 6.45e-01 c.97.1.2 -8774 1vcaA 202 7.06e-01 1vcaA b.1.1.3 21649 b.1.1.4 21685 1t0hB 224 1.06e+00 1hywA 68 1.21e+00 1hywA d.186.1.1 61425 1pswA 348 1.36e+00 c.87.1.7 88287 1poiA 317 1.42e+00 1poiA unknown_sccs 34153 1eqjA 511 1.79e+00 1ejjA c.105.1.1 59495 c.76.1.3 59496 1o98A 511 1.80e+00 c.105.1.1 86684 c.76.1.3 86685 1jnyA 435 2.06e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1i2aA 219 2.38e+00 e.24.1.1 -12012 1i3cA 149 2.53e+00 c.23.1.1 71112 2bltA 361 2.60e+00 1gceA e.3.1.1 42739 1kwmA 402 3.02e+00 c.56.5.1 73079 d.58.3.1 73080 1dcfA 136 3.05e+00 1dcfA c.23.1.2 31124 1kkcA 221 3.35e+00 a.2.11.1 68660 d.44.1.1 68661 1iakA 199 3.45e+00 1iakA b.1.1.2 21625 d.19.1.1 38199 1krhA 338 3.51e+00 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1pxfA 111 3.67e+00 b.40.4.4 88341 1b1cA 181 3.76e+00 1amoA c.23.5.2 31212 1zpdA 568 4.00e+00 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1ixlA 131 4.06e+00 d.38.1.5 -9705 1tib 269 4.23e+00 3tgl c.69.1.17 34738 1gmxA 108 4.53e+00 c.46.1.3 65355 1jdw 423 4.75e+00 1jdw d.126.1.2 41129 1qf9A 194 4.79e+00 1zin c.37.1.1 31848 1rgyA 360 4.81e+00 e.3.1.1 -11768 1n3gA 113 4.91e+00 d.204.1.1 79962 1mqsA 671 5.00e+00 e.25.1.1 79414 1smvA 260 5.05e+00 1smvA b.121.4.7 23288 1ekeA 230 5.22e+00 1ekeA c.55.3.1 33572 1ga0A 364 5.24e+00 1gceA e.3.1.1 60410 1n1bA 549 5.32e+00 a.102.4.1 79799 a.128.1.3 79800 1i58A 189 5.33e+00 1b3qA d.122.1.3 61773 1jb3A 131 5.44e+00 1jc7A b.40.3.2 62833 1devB 41 5.53e+00 1devB j.64.1.1 46354 1cydA 244 5.55e+00 1cydA c.2.1.2 29825 2reb 352 5.90e+00 2reb c.37.1.11 32282 d.48.1.1 38767 1p0kA 349 5.99e+00 c.1.4.1 87648 1qamA 244 6.57e+00 2ercA c.66.1.24 34220 1rgzA 363 6.95e+00 e.3.1.1 -11771 1zxq 192 7.25e+00 1zxq b.1.1.3 21657 b.1.1.4 21693 1ax4A 467 7.27e+00 1ax4A c.67.1.2 34391 5ukdA 194 7.75e+00 1zin c.37.1.1 31851 1aohA 147 8.34e+00 1aohA b.2.2.2 22401 1obpA 159 8.57e+00 1obpA b.60.1.1 27092 2dkb 433 8.67e+00 2dkb c.67.1.4 34438 1epwA 1290 8.97e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1kpgA 287 9.02e+00 c.66.1.18 68735 1v5xA 203 9.04e+00 c.1.2.4 -5169 1ooeA 236 9.04e+00 c.2.1.2 87196 1o8uA 257 9.05e+00 c.14.1.3 81194 1t62A 166 9.06e+00 1o13A 136 9.09e+00 c.55.5.1 80762 1stfI 98 9.22e+00 1stfI d.17.1.2 38006 1s72Q 96 9.37e+00 1jj2P 95 9.39e+00 1ffkN b.34.5.1 63101 1f06A 320 9.44e+00 1dapA c.2.1.3 59556 d.81.1.3 59557 1h2rL 534 9.52e+00 1h2rL e.18.1.1 43298 1gmlA 178 9.55e+00 c.8.5.2 70273 1oaiA 59 9.56e+00 a.5.2.3 81255 1d7uA 433 9.57e+00 2dkb c.67.1.4 34439 1e19A 314 9.74e+00 1b7bA c.73.1.1 34967 2prd 174 9.77e+00 2prd b.40.5.1 25435 1gt1A 159 1.00e+01 b.60.1.1 -4436 1j1yA 136 1.02e+01 d.38.1.5 -9671 1iscA 192 1.04e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1is2A 661 1.06e+01 a.29.3.2 71382 a.29.3.2 71383 e.6.1.2 71384 1rl2A 137 1.08e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1iqoA 88 1.10e+01 d.214.1.1 71277 1kk1A 410 1.12e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1bdo 80 1.13e+01 1bdo b.84.1.1 28214 1q8iA 783 1.14e+01 c.55.3.5 -7635 e.8.1.1 -11885 1szoA 257 1.18e+01 1nktA 922 1.26e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1cqqA 180 1.26e+01 1cqqA b.47.1.4 26422 1v6fA 151 1.32e+01 1cz4A 185 1.32e+01 1cz4A b.52.2.3 26934 d.31.1.1 38468 1nnwA 252 1.34e+01 d.159.1.5 80674 1s9rA 410 1.37e+01 unknown_sccs -10989 1vk9A 151 1.38e+01 1pg6A 243 1.38e+01 unknown_sccs -4997 1k9sA 237 1.40e+01 c.56.2.1 68359 1kn7A 78 1.43e+01 j.12.1.1 84413 1bg2 325 1.45e+01 1bg2 c.37.1.9 32189 1a53 247 1.48e+01 1a53 c.1.2.4 28564 1lswA 131 1.49e+01 d.110.3.2 78181 1h1wA 289 1.53e+01 d.144.1.7 83460 1tvfA 369 1.55e+01 1kzlA 208 1.62e+01 b.43.4.3 77635 b.43.4.3 77636 1ei6A 406 1.68e+01 unknown_sccs -8436 1l0gA 358 1.74e+01 e.3.1.1 73400 1sl4A 155 1.76e+01 1h6hA 143 1.78e+01 d.189.1.1 65681 1din 236 1.78e+01 1din c.69.1.9 34682 1knvA 293 1.79e+01 c.52.1.7 68707 1hfuA 503 1.87e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1ecpA 238 1.89e+01 1ecpA c.56.2.1 33775 1v92A 46 1.92e+01 a.5.2.3 -357 1hruA 188 1.96e+01 1hruA d.115.1.1 40926 1hn2A 159 2.01e+01 b.60.1.1 65890 1gr3A 160 2.02e+01 b.22.1.1 65476 1io7A 368 2.04e+01 1f4tA a.104.1.1 18971 2eifA 136 2.07e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1fc6A 388 2.10e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1vi2A 300 2.11e+01 c.2.1.7 -5960 c.58.1.5 -6366 1i2kA 269 2.13e+01 e.17.1.1 -11995 1vjqA 79 2.18e+01 unknown_sccs -13478 1q44A 326 2.19e+01 c.37.1.5 -7037 1ei5A 520 2.21e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1c4eA 35 2.27e+01 1c4eA g.3.4.1 44080 1k6dA 220 2.27e+01 unknown_sccs 72082 1p5jA 372 2.28e+01 1t3lA 337 2.31e+01 1shyB 551 2.32e+01 1ri5A 298 2.35e+01 unknown_sccs -8063 1r5yA 386 2.39e+01 c.1.20.1 -5626 1ny6A 267 2.47e+01 c.37.1.20 -7221 1ix9A 205 2.48e+01 a.2.11.1 76899 d.44.1.1 76900 1l7dA 384 2.49e+01 c.2.1.4 77774 c.23.12.2 77775 1rpxA 230 2.49e+01 1rpxA c.1.2.2 28536 1fsyA 358 2.51e+01 1gceA e.3.1.1 60016 1i0hA 205 2.51e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1j97A 211 2.53e+01 1f5sA c.108.1.4 62753 1ad3A 452 2.54e+01 1ad3A c.82.1.1 35335 1n2zA 245 2.55e+01 c.92.2.2 79865 1ubkL 534 2.55e+01 e.18.1.1 88422 1mngA 203 2.56e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1ja1A 622 2.63e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1yrgA 385 2.68e+01 1yrgA c.10.1.2 30854 1bmdA 327 2.69e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1uvqA 197 2.70e+01 b.1.1.2 -2649 d.19.1.1 -9336 1o4sA 389 2.72e+01 c.67.1.1 86620 1e3dB 542 2.72e+01 1h2rL e.18.1.1 59189 1pwhA 327 2.72e+01 c.79.1.1 -8524 1nytA 271 2.73e+01 c.2.1.7 86417 c.58.1.5 86418 1igs 248 2.73e+01 1a53 c.1.2.4 28565 1l7mA 211 2.75e+01 c.108.1.4 73664 1euvB 86 2.75e+01 1a5r d.15.1.1 37598 1cc8A 73 2.76e+01 1cc8A d.58.17.1 39343 1cuk 203 2.79e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 2bbkH 355 2.79e+01 2bbkH b.69.2.1 27634 1pi4A 358 2.87e+01 e.3.1.1 -11774 1a65A 504 2.90e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1fzkB 99 2.91e+01 1agdB b.1.1.2 60151 1qpxA 218 2.95e+01 1qpxA b.1.11.1 22318 b.7.2.1 23200 1twiA 434 2.97e+01 3pmgA 561 2.99e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1uylA 236 3.01e+01 1ue1A 164 3.03e+01 b.40.4.3 -3905 1s72T 120 3.05e+01 1pjqA 457 3.07e+01 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1jj2S 119 3.09e+01 1ffkQ b.34.5.1 63104 1f8gA 384 3.09e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1jksA 294 3.12e+01 d.144.1.7 71710 1eg5A 384 3.21e+01 1ecxA c.67.1.3 34429 1louA 101 3.22e+01 1ris d.58.14.1 39323 1nd4A 264 3.25e+01 d.144.1.6 -11381 1havA 217 3.28e+01 1havA b.47.1.4 26423 1fjgL 135 3.32e+01 1fjfL b.40.4.5 25346 1ass 159 3.39e+01 1a6dA c.8.5.2 30818 1quqB 121 3.43e+01 1quqB b.40.4.3 25305 1tufA 434 3.63e+01 1bdmA 327 3.65e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1o22A 170 3.66e+01 d.238.1.1 86557 1l9xA 315 3.68e+01 c.23.16.1 73762 1fl2A 310 3.75e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1v8cA 168 3.79e+01 d.15.3.1 -9175 unknown_sccs -11012 1jcfA 344 3.89e+01 c.55.1.1 62878 c.55.1.1 62879 1o4vA 183 3.89e+01 c.23.8.1 86628 1n5dA 288 3.93e+01 c.2.1.2 80030