# List of top-scoring protein chains for t06-100-30-str2-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 1rlzA 369 6.08e-02 c.31.1.1 104989 1g26A 31 1.34e-01 1g26A g.3.16.1 44381 1a12A 413 1.66e-01 1a12A b.69.5.1 27663 1sjdA 368 1.90e-01 c.1.11.2,d.54.1.1 105632,105633 1i4jA 110 1.97e-01 d.55.1.1 76734 1wyuB 474 2.10e-01 1jtdB 273 5.97e-01 b.69.5.2 67265 1ew6A 137 6.88e-01 1ewaA a.1.1.2 15637 1sazA 381 7.40e-01 2bkyA 97 7.42e-01 2dcnA 311 8.32e-01 2cqsA 842 1.19e+00 1s7iA 124 1.24e+00 d.58.4.9 105353 1vhxA 150 1.25e+00 c.55.3.8 100712 1x3mA 415 1.34e+00 1twiA 434 1.47e+00 b.49.2.3,c.1.6.1 107399,107400 1s5dA 240 1.71e+00 d.166.1.1 98541 2bv2A 83 1.78e+00 1cnzA 363 2.13e+00 1cnzA c.77.1.1 35061 1s14A 194 2.15e+00 d.122.1.2 98329 1t4aA 84 2.37e+00 d.284.1.1 106404 1cyx 205 2.60e+00 1cyx b.6.1.2 23023 1rwzA 245 2.83e+00 d.131.1.2,d.131.1.2 98005,98006 1vquA 374 3.22e+00 1r0mA 375 3.26e+00 c.1.11.2,d.54.1.1 104747,104748 1xxaA 78 3.40e+00 1xxaA d.74.2.1 39700 1mugA 168 3.55e+00 1mugA c.18.1.2 31030 1guqA 348 3.61e+00 1guqA d.13.1.2,d.13.1.2 37522,37523 1neiA 60 3.79e+00 d.253.1.1 91843 1eyqA 222 3.86e+00 1eypA d.36.1.1 38534 1zkiA 133 3.97e+00 1mgtA 174 4.07e+00 1mgtA a.4.2.1,c.55.7.1 16078,33753 1fc6A 388 4.15e+00 1fc6A b.36.1.3,c.14.1.2 64738,64739 2fymA 431 4.27e+00 1xuqA 212 4.78e+00 1n8vA 112 4.93e+00 a.118.21.1 85457 1yeyA 444 4.98e+00 2fsjA 346 5.86e+00 1yn8A 59 5.96e+00 1lnsA 763 6.22e+00 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1ihgA 370 6.64e+00 2cpl a.118.8.1,b.62.1.1 62380,62381 1pmnA 364 7.05e+00 d.144.1.7 94907 1xqoA 256 7.09e+00 1y43A 39 7.15e+00 1wwiA 148 7.87e+00 1to2I 64 7.89e+00 1zmmA 33 8.00e+00 1wxrA 1048 8.02e+00 1twuA 139 8.03e+00 d.32.1.8 107413 1id0A 152 8.33e+00 d.122.1.3 66111 2gmyA 153 8.89e+00 1nm8A 616 9.12e+00 c.43.1.3,c.43.1.3 85872,85873 2a5lA 200 9.14e+00 1o17A 345 9.47e+00 a.46.2.1,c.27.1.1 80765,80766 1r9kA 172 9.53e+00 a.168.1.1 104869 2au5A 139 1.02e+01 1tkkA 366 1.07e+01 c.1.11.2,d.54.1.1 107089,107090 1xmxA 385 1.09e+01 1q15A 503 1.14e+01 c.26.2.1,d.153.1.1 95538,95539 1iscA 192 1.15e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1rvkA 382 1.18e+01 c.1.11.2,d.54.1.1 97928,97929 1y60A 169 1.20e+01 2azpA 318 1.21e+01 1i2tA 61 1.24e+01 1i2tA a.144.1.1 61582 1kaeA 434 1.25e+01 c.82.1.2 72247 1p4oA 322 1.26e+01 d.144.1.7 87775 1wba 175 1.29e+01 1wba b.42.4.1 25591 2al6A 375 1.37e+01 1to6A 371 1.37e+01 c.141.1.1 107170 1v54G 85 1.39e+01 f.23.2.1 100328 1eh8A 207 1.41e+01 1sfe a.4.2.1,c.55.7.1 16077,33752 2b1xA 470 1.41e+01 1yhvA 297 1.49e+01 1hyhA 309 1.54e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1wwkA 307 1.56e+01 2aa4A 289 1.57e+01 2bhvA 246 1.61e+01 1axn 323 1.62e+01 1avc a.65.1.1 18149 1rx0A 393 1.67e+01 a.29.3.1,e.6.1.1 98007,98008 1q0qA 406 1.69e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1ec7A 446 1.72e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1sgoA 139 1.72e+01 d.82.3.1 98857 1v58A 241 1.75e+01 c.47.1.9,d.17.3.1 108371,108372 1my6A 199 1.75e+01 a.2.11.1,d.44.1.1 85232,85233 1h6kZ 98 1.77e+01 d.58.7.1 60686 1j3wA 163 1.83e+01 d.110.7.1 90833 1oapA 109 1.84e+01 d.79.7.1 92706 2bdwA 362 1.85e+01 1xfsA 178 1.85e+01 d.129.3.5 109589 1vl4A 447 1.86e+01 d.283.1.1 108718 1d4tA 104 1.90e+01 1d4tA d.93.1.1 40537 1c7qA 445 1.90e+01 2pgi c.80.1.2 35307 1xreA 217 1.98e+01 1ruwA 69 2.02e+01 1akz 223 2.04e+01 3eugA c.18.1.1 31007 1qntA 176 2.08e+01 1sfe a.4.2.1,c.55.7.1 16074,33749 1sx5A 244 2.11e+01 c.52.1.2 99023 1nu5A 370 2.11e+01 c.1.11.2,d.54.1.1 92183,92184 1hxiA 121 2.14e+01 1hxiA a.118.8.1 61366 1suuA 312 2.14e+01 b.68.10.1 99006 3il8 72 2.15e+01 1tvxA d.9.1.1 37356 2trxA 108 2.23e+01 1thx c.47.1.1 32719 1ok7A 366 2.23e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1v9tA 166 2.23e+01 b.62.1.1 108451 1wdvA 152 2.25e+01 1u59A 287 2.25e+01 d.144.1.7 107681 1k1vA 41 2.31e+01 a.37.1.1 71999 1vlaA 150 2.37e+01 d.227.1.2 108735 1qh8A 478 2.38e+01 1qguA c.92.2.3 35633 1yw5A 177 2.38e+01 2axwA 134 2.38e+01 2cwcA 303 2.40e+01 1kllA 130 2.43e+01 d.32.1.2 72720 2d81A 318 2.46e+01 1pinA 163 2.47e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1csn 298 2.53e+01 1csn d.144.1.7 41664 1s68A 249 2.55e+01 d.142.2.4 98591 1m6yA 301 2.58e+01 a.60.13.1,c.66.1.23 78716,78717 1rypJ 204 2.63e+01 d.153.1.4 41878 1h8dL 29 2.81e+01 b.47.1.2 60737 1a2yB 116 2.81e+01 1gc1H b.1.1.1 19927 1fr3A 67 2.83e+01 1fr3A b.40.6.1 25436 1hdhA 536 2.86e+01 c.76.1.2 65805 2d4rA 147 2.86e+01 1r6wA 322 2.87e+01 c.1.11.2,d.54.1.1 97165,97166 1mucA 373 2.88e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1uwkA 557 2.89e+01 e.51.1.1 108065 1ir6A 424 2.90e+01 c.107.1.2 71342 1v9nA 360 2.92e+01 1ykdA 398 2.95e+01 1zc6A 305 2.97e+01 1gntA 553 2.97e+01 e.26.1.1 70290 1cqtI 44 2.98e+01 1r6vA 671 3.00e+01 2gtsA 86 3.12e+01 2ghjA 118 3.15e+01 1uz8B 212 3.15e+01 b.1.1.1,b.1.1.2 108168,108169 1h9oA 112 3.16e+01 1qadA d.93.1.1 60837 1io1A 398 3.19e+01 1io1A e.32.1.1 62611 1iznB 277 3.28e+01 e.43.1.2 83848 1xm9A 457 3.30e+01 1qz8A 113 3.33e+01 b.140.1.1 96619 1li5A 461 3.34e+01 a.27.1.1,c.26.1.1 73912,73913 1pfvA 551 3.38e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 2gdqA 382 3.40e+01 1sdjA 310 3.52e+01 d.21.1.2,d.21.1.2 98807,98808 1oaqH 121 3.54e+01 b.1.1.1 92707 1i07A 60 3.73e+01 1aojA b.34.2.1 61477 1xppA 115 3.78e+01 1v98A 140 3.79e+01 2cvjA 180 3.98e+01 1gz8A 299 3.99e+01 d.144.1.7 83405 1ehiA 377 3.99e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1ix9A 205 4.00e+01 a.2.11.1,d.44.1.1 76899,76900 1ayaA 101 4.00e+01 1qadA d.93.1.1 40460 1womA 271 4.04e+01 1hyeA 313 4.06e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1mbyA 88 4.06e+01 d.223.1.1 78931 1ryp2 233 4.06e+01 1ryp2 1vq3A 94 4.08e+01 1ou8A 111 4.13e+01 b.136.1.1 93543 1xbbA 291 4.15e+01 1v9fA 325 4.18e+01 d.265.1.3 108448 1vzoA 355 4.18e+01 d.144.1.7 108971 1qyaA 307 4.19e+01 d.21.1.2,d.21.1.2 104653,104654 1lfkA 398 4.21e+01 a.104.1.1 77926 2c8mA 262 4.31e+01 1nb9A 147 4.31e+01 b.43.5.1 85515 1t61A 229 4.34e+01 d.169.1.6,d.169.1.6 106529,106530 1pzgA 331 4.35e+01 c.2.1.5,d.162.1.1 95425,95426 1rkd 309 4.36e+01 1rkd c.72.1.1 34928 1prxA 224 4.37e+01 1prxA c.47.1.10 33076 1p2xA 159 4.44e+01 a.40.1.1 104062 1eceA 358 4.46e+01 1eceA c.1.8.3 28813 1m70A 190 4.47e+01 a.3.1.4,a.3.1.4 91200,91201 2f2sA 406 4.54e+01 1lldA 319 4.60e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1augA 215 4.60e+01 1a2zA c.56.4.1 33798 1va4A 279 4.63e+01 c.69.1.12 108458 1edqA 540 4.65e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1z6fA 363 4.67e+01 2gshA 414 4.68e+01 2f57A 317 4.71e+01 1hgxA 183 4.71e+01 1tc1A c.61.1.1 34027 1x65A 89 4.75e+01 1qamA 244 4.77e+01 2ercA c.66.1.24 34220 1rm6B 324 4.80e+01 1xeeA 91 4.85e+01 1udh 244 4.91e+01 3eugA c.18.1.1 31015 1wv8A 73 4.93e+01 1m1nA 491 4.93e+01 c.92.2.3 78417 1hm6A 346 4.96e+01 1avc a.65.1.1 18147 1bbzA 58 5.00e+01 1bbzA b.34.2.1 24477 1tp5A 119 5.17e+01 2au3A 407 5.18e+01 1dun 134 5.22e+01 1dun b.85.4.1 28371 1icpA 376 5.23e+01 1oyc c.1.4.1 62270 1e4fT 419 5.24e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1r7jA 95 5.29e+01 a.4.5.49 104836 2amxA 376 5.29e+01 1uv0A 149 5.41e+01 d.169.1.1 100028 2f4nA 273 5.45e+01 2bkyX 89 5.50e+01 1jykA 254 5.50e+01 c.68.1.13 67458 2pth 193 5.53e+01 2pth c.56.3.1 33793 1w2lA 99 5.53e+01 1xhkA 187 5.57e+01 1winA 143 5.57e+01 1pgl2 370 5.63e+01 1zvnA 99 5.68e+01 1egpA 45 5.74e+01 1egpA d.40.1.1 38561 2fdoA 94 5.77e+01 2cbzA 237 5.78e+01 1iktA 120 5.82e+01 d.106.1.1 66188 1d0qA 103 5.88e+01 1d0qA g.41.3.2 45208 1mv8A 436 5.89e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2f9dA 125 5.90e+01 1jetA 517 5.91e+01 1jevA c.94.1.1 35718 1r77A 103 5.93e+01 1vbvA 105 5.99e+01 2amdA 311 6.00e+01 1p0fA 373 6.02e+01 b.35.1.2,c.2.1.1 87642,87643 2ct7A 86 6.02e+01 1syyA 346 6.04e+01 a.25.1.2 106126 1kafA 108 6.12e+01 d.199.1.1 68372 1czaN 917 6.15e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1zo0A 126 6.18e+01 1l6pA 125 6.24e+01 b.1.17.1 73626 1n8jA 186 6.27e+01 c.47.1.10 85401 1qi9A 556 6.28e+01 1qhbA a.111.1.2 19053 1ydlA 79 6.32e+01 1eca 136 6.32e+01 1flp a.1.1.2 15209 1vetB 125 6.33e+01 d.110.7.1 108554 1g5bA 221 6.36e+01 1g5bA d.159.1.3 60261 1t5oA 351 6.45e+01 c.124.1.5 106459 2bf9A 36 6.46e+01 1utyA 187 6.46e+01 b.147.1.1 108036 2cu3A 64 6.57e+01 1y08A 323 6.68e+01 1tt7A 330 6.76e+01 1vkcA 158 6.85e+01 2b7nA 273 6.85e+01 1c4oA 664 6.89e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1t6eX 381 6.90e+01 b.50.1.2 106564 1pp7U 131 6.90e+01 a.4.5.44 94973 1wy6A 172 6.97e+01 1pdo 135 7.01e+01 1pdo c.54.1.1 33376 1js8A 394 7.08e+01 a.86.1.1,b.112.1.1 67219,67220 2b18A 164 7.09e+01 2fdbM 164 7.15e+01 1s12A 94 7.26e+01 1z9lA 128 7.30e+01 1gzsB 165 7.39e+01 a.168.1.1 76425 2gcuA 245 7.40e+01 1pvgA 418 7.45e+01 d.14.1.3,d.122.1.2 95161,95162 1m1hA 248 7.48e+01 b.114.1.1,d.58.42.1 78415,78416 1n7fA 97 7.50e+01 b.36.1.1 91692 1mtpB 43 7.54e+01 1zw0A 66 7.56e+01 1v7wA 807 7.60e+01 a.102.1.4,b.30.5.3 108411,108412 2a90A 240 7.63e+01 2fz0A 149 7.68e+01 1zroA 602 7.71e+01 1viaA 175 7.77e+01 c.37.1.2 100754 1ualA 274 7.77e+01 c.116.1.4 88383 1yrtA 364 7.77e+01 1x3kA 152 7.79e+01 1wr2A 238 7.83e+01 2bkkA 264 7.84e+01 1quuA 250 7.88e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1nswA 105 7.91e+01 c.47.1.1 92097 1n12A 138 7.92e+01 b.2.3.2 79779 1e12A 253 7.92e+01 1c3wA f.13.1.1 43428 1yzfA 195 7.93e+01 1yua 122 7.94e+01 1yua g.41.3.3,g.41.3.3 45210,45211 1chkA 238 7.96e+01 1chkA d.2.1.7 36999 1ryp1 222 7.98e+01 1ryp1 1d1gA 168 8.14e+01 1d1gA c.71.1.1 34889 1qlmA 316 8.22e+01 1qlmA d.147.1.1 41765 1ny1A 240 8.28e+01 c.6.2.3 86395 2c2aA 258 8.29e+01 1ro5A 201 8.32e+01 d.108.1.3 105023 1n7eA 97 8.36e+01 b.36.1.1 91691 1ckaA 57 8.40e+01 1ckaA b.34.2.1 24459 1f20A 435 8.51e+01 b.43.4.1,c.25.1.4 64932,64933 1z9zA 60 8.54e+01 1enfA 212 8.70e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1qhtA 775 8.74e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1mngA 203 8.80e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1wzlA 585 8.86e+01 1s6wA 21 8.90e+01 1v30A 124 8.94e+01 2g9zA 348 8.95e+01 2ajgA 196 8.96e+01 1aoeA 192 9.00e+01 1aoeA c.71.1.1 34923