# 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 2trxA 108 3.04e-13 1thx c.47.1.1 32719 1nw2A 105 2.23e-12 1fb6A 105 3.25e-12 1thx c.47.1.1 32739 1h75A 81 8.22e-11 1h75A c.47.1.1 60716 1thx 115 8.62e-11 1thx c.47.1.1 32732 1erv 105 5.75e-10 1erv c.47.1.1 32743 1aiu 105 1.32e-09 1erv c.47.1.1 32746 1kte 105 4.02e-09 1kte c.47.1.1 32771 1r26A 125 1.47e-08 1j08A 226 1.04e-07 c.47.1.2 83855 c.47.1.2 83856 1g7oA 215 1.27e-07 1g7oA a.45.1.1 60332 c.47.1.5 60333 1a8l 226 1.42e-07 1a8l c.47.1.2 32777 c.47.1.2 32778 1f9mA 112 1.65e-07 1erv c.47.1.1 32736 1faaA 124 1.99e-07 1erv c.47.1.1 32738 1aba 87 6.00e-07 1aba c.47.1.1 32760 1kngA 156 9.29e-07 c.47.1.10 72777 1iloA 77 2.34e-06 c.47.1.1 66205 1uc7A 125 2.47e-05 1st9A 143 2.86e-05 1jfuA 186 6.89e-05 c.47.1.10 62940 1lu4A 136 9.99e-05 1grx 85 1.06e-04 1kte c.47.1.1 32766 1eemA 241 1.43e-04 1eemA a.45.1.1 17717 c.47.1.5 33011 1eejA 216 3.23e-04 1eejA c.47.1.9 33057 d.17.3.1 38071 1qk8A 146 3.35e-04 1ewxA c.47.1.10 33061 1k0mA 241 1.44e-03 a.45.1.1 67949 c.47.1.5 67950 1j0fA 100 3.13e-03 1pqnA 127 6.86e-03 1a8y 367 1.75e-02 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1jlvA 209 2.51e-02 a.45.1.1 71729 c.47.1.5 71730 1f3aA 222 2.61e-02 1pgtA a.45.1.1 17701 c.47.1.5 32995 1fw1A 216 2.69e-02 a.45.1.1 60051 c.47.1.5 60052 1qgvA 142 2.85e-02 1qgvA c.47.1.8 33056 1o8xA 146 2.86e-02 c.47.1.10 86681 1bjx 110 2.94e-02 1bjx c.47.1.2 32774 1k3yA 221 5.06e-02 a.45.1.1 77245 c.47.1.5 77246 1n2aA 201 5.07e-02 1a0fA 201 5.17e-02 1a0fA a.45.1.1 17737 c.47.1.5 33031 1oyjA 231 6.09e-02 a.45.1.1 87597 c.47.1.5 87598 1i5gA 144 6.56e-02 1ewxA c.47.1.10 61784 1j9bA 141 9.14e-02 c.47.1.12 66459 1dekA 241 1.97e-01 1dekA c.37.1.1 31842 1j3mA 129 2.01e-01 1qydA 313 3.78e-01 1e6bA 221 3.81e-01 1e6bA a.45.1.1 59294 c.47.1.5 59295 1f2eA 201 4.23e-01 1a0fA a.45.1.1 17745 c.47.1.5 33039 1k0dA 260 4.37e-01 a.45.1.1 67930 c.47.1.5 67931 1bed 181 4.99e-01 1fvkA a.44.1.1 17514 c.47.1.4 32808 1oe8A 211 5.47e-01 a.45.1.1 86905 c.47.1.5 86906 1oktA 211 5.52e-01 1p6oA 161 5.72e-01 1fe0A 68 6.08e-01 1cc8A d.58.17.1 39345 1bd3A 243 6.27e-01 1bd3A c.61.1.1 34098 1o4vA 183 6.76e-01 c.23.8.1 86628 1o4sA 389 6.93e-01 c.67.1.1 86620 1pud 386 7.31e-01 1pud c.1.20.1 29658 1r5yA 386 7.80e-01 1pxgA 382 8.14e-01 1c3pA 375 8.72e-01 1c3pA c.42.1.2 32606 1iyhA 198 9.31e-01 a.45.1.1 83790 c.47.1.5 83791 1m0uA 249 9.65e-01 a.45.1.1 78359 c.47.1.5 78360 1oz9A 150 1.04e+00 1hywA 68 1.11e+00 1hywA d.186.1.1 61425 1o5iA 249 1.15e+00 1i9sA 210 1.16e+00 1i9sA c.45.1.1 62099 1axdA 209 1.41e+00 1gnwA a.45.1.1 17730 c.47.1.5 33024 1thfD 253 1.51e+00 1thfD c.1.2.1 28535 1k0rA 366 1.59e+00 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1orrA 347 1.72e+00 1dvjA 246 1.76e+00 1dvjA c.1.2.3 28546 1uch 230 1.78e+00 1uch d.3.1.6 37129 1r4wA 226 1.78e+00 1km4A 247 2.11e+00 c.1.2.3 72740 1vh7A 265 2.11e+00 1pd21 199 2.38e+00 1pd21 1g71A 347 2.74e+00 1g71A e.16.1.1 43268 1ltzA 297 2.76e+00 d.178.1.1 74254 1g2qA 187 2.97e+00 c.61.1.1 65117 2gsq 202 2.99e+00 1pd21 a.45.1.1 17715 c.47.1.5 33009 1cc8A 73 3.16e+00 1cc8A d.58.17.1 39343 1gnwA 211 3.22e+00 1gnwA a.45.1.1 17727 c.47.1.5 33021 1q7bA 244 3.30e+00 1g8lA 411 3.58e+00 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1dbxA 158 3.89e+00 1dbuA d.116.1.1 40928 1dfwA 25 3.92e+00 j.35.1.1 46255 1q9uA 130 4.14e+00 1ha1 184 4.16e+00 1ha1 d.58.7.1 39147 d.58.7.1 39148 1fvkA 189 4.17e+00 1fvkA a.44.1.1 17490 c.47.1.4 32784 1okgA 373 4.18e+00 1mkp 144 4.33e+00 1vhrA c.45.1.1 32654 1pgtA 210 4.40e+00 1pgtA a.45.1.1 17515 c.47.1.5 32809 1v5xA 203 4.80e+00 1qo2A 241 5.06e+00 1qo2A c.1.2.1 28533 1sur 215 5.18e+00 1sur c.26.2.2 31620 1obbA 480 5.20e+00 c.2.1.5 86760 d.162.1.2 86761 1sdsA 117 5.22e+00 1oi6A 205 5.36e+00 1ofnA 205 5.41e+00 1ns5A 155 5.50e+00 c.116.1.3 80705 1omzA 293 5.55e+00 c.68.1.15 87093 1qysA 106 5.57e+00 1bkpA 278 5.59e+00 1bkpA d.117.1.1 41029 1mp9A 198 5.65e+00 1oxkB 134 5.80e+00 1f6bA 198 5.99e+00 c.37.1.8 64986 1ockA 412 6.01e+00 c.117.1.1 86802 1m22A 503 6.19e+00 c.117.1.1 78464 1qhtA 775 6.28e+00 1tgoA c.55.3.5 33722 e.8.1.1 43011 1k7jA 206 6.35e+00 d.115.1.1 72103 1pg5A 299 6.53e+00 1gegA 256 6.72e+00 1ybvA c.2.1.2 29888 1lkdA 297 6.73e+00 d.32.1.3 78059 d.32.1.3 78060 1han 297 6.75e+00 1han d.32.1.3 38506 d.32.1.3 38507 1gnuA 117 6.94e+00 d.15.1.3 65403 1d2fA 390 7.26e+00 1d2fA c.67.1.3 34411 1vhsA 175 7.60e+00 1f37A 110 7.63e+00 1f37A c.47.1.11 33088 1f4pA 147 7.71e+00 5nul c.23.5.1 59651 1kw3B 292 7.81e+00 d.32.1.3 77549 d.32.1.3 77550 1m2dA 110 8.10e+00 c.47.1.11 78476 1jbeA 128 8.28e+00 3chy c.23.1.1 62845 1f6dA 376 8.51e+00 1f6dA c.87.1.3 35467 1a53 247 8.99e+00 1a53 c.1.2.4 28564 1igs 248 9.13e+00 1a53 c.1.2.4 28565 1jx6A 342 9.20e+00 c.93.1.1 67406 1s0uA 408 9.22e+00 1o0uA 429 9.28e+00 c.118.1.1 80743 1q7sA 117 9.33e+00 1hkkA 364 9.40e+00 1xjo 284 9.40e+00 1xjo c.56.5.4 33843 1i60A 278 9.69e+00 c.1.15.4 71118 1l6rA 227 9.76e+00 c.108.1.10 77768 1vheA 373 9.83e+00 1l3kA 196 9.86e+00 d.58.7.1 73539 d.58.7.1 73540 1lssA 140 9.98e+00 c.2.1.9 74246 1j2rA 199 1.02e+01 1ufyA 122 1.03e+01 d.79.1.2 88489 1aisA 182 1.04e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1goiA 499 1.08e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1e6pA 499 1.08e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1gc5A 467 1.11e+01 1gc5A c.72.1.3 60429 1ovnA 248 1.12e+01 1jyeA 349 1.17e+01 c.93.1.1 67455 1e19A 314 1.19e+01 1b7bA c.73.1.1 34967 3chy 128 1.21e+01 3chy c.23.1.1 31038 1d02A 202 1.23e+01 1d02A c.52.1.8 33313 1egaA 301 1.26e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1kv7A 488 1.27e+01 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 1dcfA 136 1.27e+01 1dcfA c.23.1.2 31124 1jilA 420 1.28e+01 c.26.1.1 66745 1hwxA 501 1.29e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1mgtA 174 1.31e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1ur5A 309 1.32e+01 7odcA 424 1.33e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1qsgA 265 1.34e+01 1eny c.2.1.2 29935 1qisA 396 1.36e+01 1ajsA c.67.1.1 34284 1gca 309 1.36e+01 1gca c.93.1.1 35659 1m2eA 135 1.38e+01 c.23.1.5 78478 1jj2R 84 1.40e+01 1ffkP d.12.1.1 63103 1b0uA 262 1.44e+01 1b0uA c.37.1.12 32370 1ahxA 396 1.48e+01 1ajsA c.67.1.1 34293 1pjqA 457 1.50e+01 1h9sA 140 1.51e+01 1b9mA b.40.6.2 60843 b.40.6.2 60844 1vypX 364 1.53e+01 1jykA 254 1.56e+01 c.68.1.13 67458 1i1qB 192 1.62e+01 1qdlB c.23.16.1 61544 1db3A 372 1.64e+01 1db3A c.2.1.2 29813 1im8A 244 1.65e+01 c.66.1.14 66212 1kao 167 1.65e+01 1ctqA c.37.1.8 32014 1l7mA 211 1.67e+01 c.108.1.4 73664 1r6dA 337 1.67e+01 1ars 396 1.68e+01 1ajsA c.67.1.1 34287 1b4pA 217 1.70e+01 a.45.1.1 83158 c.47.1.5 83159 1oxsC 353 1.72e+01 b.40.6.3 87519 c.37.1.12 87520 1bj4A 470 1.72e+01 1bj4A c.67.1.4 34479 1lt8A 406 1.72e+01 c.1.26.1 78186 1r2fA 319 1.73e+01 1r2fA a.25.1.2 16800 1lsuA 147 1.75e+01 c.2.1.9 74250 1ru8A 232 1.75e+01 1dugA 234 1.78e+01 1b8xA a.45.1.1 17718 c.47.1.5 33012 1j97A 211 1.80e+01 1f5sA c.108.1.4 62753 1us5A 314 1.89e+01 1a7tA 232 1.93e+01 1a7tA d.157.1.1 42041 1nrzA 164 1.95e+01 c.38.1.1 86131 1j8fA 323 1.96e+01 1j8fA c.31.1.5 62738 1rjdA 334 2.02e+01 1ufoA 238 2.11e+01 4pfk 319 2.12e+01 3pfk c.89.1.1 35582 1vsd 152 2.12e+01 1cxqA c.55.3.2 33625 1g4wR 383 2.15e+01 1g4uS a.24.11.1 16644 c.45.1.2 32692 1tvxA 75 2.18e+01 1tvxA d.9.1.1 37441 1dosA 358 2.20e+01 1dosA c.1.10.2 29175 1fjhA 257 2.20e+01 1fjhB c.2.1.2 29870 1h61A 364 2.20e+01 1oyc c.1.4.1 60657 1pii 452 2.22e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1kk1A 410 2.22e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1fmcA 255 2.27e+01 1cydA c.2.1.2 29856 1i74A 309 2.27e+01 1i74A c.107.1.1 61867 1oxxK 353 2.28e+01 1v02A 565 2.28e+01 6gsvA 217 2.30e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1vi2A 300 2.32e+01 1jqlB 140 2.36e+01 c.37.1.20 63234 1btn 106 2.42e+01 1btn b.55.1.1 26952 1kwiA 101 2.44e+01 d.17.1.3 77564 1cxqA 162 2.44e+01 1cxqA c.55.3.2 33621 1b5pA 385 2.50e+01 1qvbA 481 2.51e+01 1qvbA c.1.8.4 28983 1ig3A 263 2.53e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1pvvA 315 2.58e+01 1ebmA 317 2.60e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1of9A 77 2.64e+01 1v39 322 2.68e+01 3mag c.66.1.25 34206 1e5eA 404 2.68e+01 1ibjA c.67.1.3 59265 1eo6A 117 2.70e+01 1eo6A d.15.1.3 37609 1kqfB 294 2.76e+01 d.58.1.5 75900 f.23.22.1 75901 1qmvA 197 2.76e+01 1qq2A c.47.1.10 33066 1bjwA 382 2.77e+01 1bjwA c.67.1.1 34349 1nox 205 2.79e+01 1nox d.90.1.1 40242 1nd7A 374 2.80e+01 2trcP 217 2.82e+01 1b9yC c.47.1.6 33051 1m3qA 317 2.83e+01 2tpsA 227 2.83e+01 2tpsA c.1.3.1 28591 1pc6A 146 2.86e+01 1tlfA 301 2.88e+01 1tlfA c.93.1.1 35687 3mag 307 2.90e+01 3mag c.66.1.25 34205 1ex2A 189 2.90e+01 1ex2A c.51.4.2 33225 1rcuA 195 2.93e+01 1s48A 609 2.94e+01 1ispA 181 2.96e+01 c.69.1.18 76778 1p1mA 406 2.96e+01 b.92.1.4 87696 c.1.9.9 87697 1j6pA 418 2.98e+01 b.92.1.4 77089 c.1.9.9 77090 1btkA 169 2.99e+01 1btkA b.55.1.1 26959 1lwjA 441 2.99e+01 b.71.1.1 74303 c.1.8.1 74304 1jg5A 83 3.01e+01 d.205.1.1 66666 1j0aA 325 3.03e+01 c.79.1.1 83871 1bvyF 191 3.10e+01 1bvyF c.23.5.1 31207 1j3vA 289 3.10e+01 1gvoA 364 3.12e+01 c.1.4.1 76357 1i6wA 181 3.14e+01 1i6wA c.69.1.18 61859 1cb0A 283 3.14e+01 1cb0A c.56.2.1 33790 1tml 286 3.16e+01 1tml c.6.1.1 30656 1esc 306 3.19e+01 1esc c.23.10.1 31334 1b1cA 181 3.22e+01 1amoA c.23.5.2 31212 2mnr 357 3.26e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1b8oA 284 3.26e+01 1b8oA c.56.2.1 33762 1v84A 253 3.27e+01 1ojxA 263 3.27e+01 1ro0A 216 3.28e+01 1o2dA 371 3.32e+01 e.22.1.2 86591 1j4aA 333 3.39e+01 c.2.1.4 71502 c.23.12.1 71503 1uc2A 481 3.42e+01 1pixA 587 3.48e+01 1g8aA 227 3.52e+01 1f2tB 148 3.58e+01 1f2tB 1qh8B 519 3.61e+01 1qguB c.92.2.3 35634 1q9jA 422 3.63e+01 1ro2A 216 3.66e+01 1uayA 242 3.68e+01 c.2.1.2 88390 1bmtA 246 3.73e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1ek1A 554 3.76e+01 1cr6B c.108.1.2 43335 c.69.1.11 34685 1esmA 316 3.77e+01 1esmA c.37.1.6 31953 1vp9 322 3.83e+01 3mag c.66.1.25 34210 1ivyA 452 3.87e+01 1ivyA c.69.1.5 34654 1ubeA 349 3.91e+01 c.37.1.11 88412 d.48.1.1 88413 3eipA 84 3.94e+01 3eipA d.26.2.1 38434 1h16A 759 3.96e+01 c.7.1.1 76462 1nbwB 117 3.96e+01 c.51.3.2 80396 1vpt 348 3.97e+01 3mag c.66.1.25 34207 1tfr 305 3.98e+01 1tfr a.60.7.1 18081 c.120.1.2 33351 1osdA 72 3.99e+01