# List of top-scoring protein chains for t04-100-30-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 1g99A 408 1.47e-01 1g99A c.55.1.2,c.55.1.2 33457,33458 1rlzA 369 3.74e-01 c.31.1.1 104989 1a12A 413 4.69e-01 1a12A b.69.5.1 27663 1i4jA 110 5.24e-01 d.55.1.1 76734 1dhs 344 6.18e-01 1dhs c.31.1.1 31727 1oo4A 111 6.37e-01 d.93.1.1 87185 1jtdB 273 9.54e-01 b.69.5.2 67265 1x3mA 415 9.72e-01 1bxeA 113 1.01e+00 1bxeA d.55.1.1 38898 1twiA 434 1.27e+00 b.49.2.3,c.1.6.1 107399,107400 2dcnA 311 1.37e+00 1sazA 381 1.47e+00 2bzpA 226 1.69e+00 1tufA 434 1.73e+00 b.49.2.3,c.1.6.1 107335,107336 2bkyA 97 1.76e+00 1ew6A 137 1.84e+00 1ewaA a.1.1.2 15637 1g26A 31 2.38e+00 1g26A g.3.16.1 44381 1neiA 60 2.59e+00 d.253.1.1 91843 1twjA 84 2.71e+00 d.284.1.1 107407 1wp1A 474 2.79e+00 1s14A 194 2.81e+00 d.122.1.2 98329 1s7iA 124 3.40e+00 d.58.4.9 105353 1t4aA 84 4.13e+00 d.284.1.1 106404 1cnzA 363 4.25e+00 1cnzA c.77.1.1 35061 1mgtA 174 4.50e+00 1mgtA a.4.2.1,c.55.7.1 16078,33753 1vhxA 150 4.51e+00 c.55.3.8 100712 2cqsA 842 4.91e+00 1nh9A 87 4.99e+00 d.68.6.1 91878 1guqA 348 5.19e+00 1guqA d.13.1.2,d.13.1.2 37522,37523 1y43A 39 5.60e+00 1xuqA 212 7.00e+00 2aehA 369 7.29e+00 1cyx 205 7.89e+00 1cyx b.6.1.2 23023 1cyw 205 8.14e+00 1cyx b.6.1.2 23024 1sjdA 368 8.96e+00 c.1.11.2,d.54.1.1 105632,105633 1zkiA 133 9.18e+00 1s5dA 240 9.92e+00 d.166.1.1 98541 1fc6A 388 1.03e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1ir3A 306 1.04e+01 1fmk d.144.1.7 41702 1iscA 192 1.06e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1xreA 217 1.16e+01 1zmmA 33 1.18e+01 1vquA 374 1.19e+01 1xqoA 256 1.22e+01 1h0xA 100 1.23e+01 d.68.6.1 76451 1wyuB 474 1.33e+01 1c7qA 445 1.36e+01 2pgi c.80.1.2 35307 1hxiA 121 1.36e+01 1hxiA a.118.8.1 61366 1yn8A 59 1.39e+01 1to2I 64 1.50e+01 2au5A 139 1.52e+01 1sx5A 244 1.57e+01 c.52.1.2 99023 1hdhA 536 1.59e+01 c.76.1.2 65805 1wwiA 148 1.62e+01 1ryp2 233 1.62e+01 1ryp2 1r9kA 172 1.63e+01 a.168.1.1 104869 2aa4A 289 1.70e+01 2al6A 375 1.74e+01 1m5yA 408 1.82e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1ehiA 377 1.93e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1i2tA 61 1.94e+01 1i2tA a.144.1.1 61582 2a5lA 200 2.01e+01 1itwA 741 2.08e+01 c.77.1.2 76793 1axn 323 2.08e+01 1avc a.65.1.1 18149 2fymA 431 2.12e+01 1ctn 540 2.13e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 2bv2A 83 2.19e+01 1ix9A 205 2.19e+01 a.2.11.1,d.44.1.1 76899,76900 1p4oA 322 2.22e+01 d.144.1.7 87775 1ryp1 222 2.25e+01 1ryp1 1edqA 540 2.25e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1ihgA 370 2.35e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1q0qA 406 2.38e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 2bkkA 264 2.39e+01 1r0mA 375 2.39e+01 c.1.11.2,d.54.1.1 104747,104748 1li5A 461 2.44e+01 a.27.1.1,c.26.1.1 73912,73913 1zc6A 305 2.45e+01 1v54G 85 2.49e+01 f.23.2.1 100328 1xxaA 78 2.54e+01 1xxaA d.74.2.1 39700 1i0hA 205 2.55e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 2bhvA 246 2.57e+01 2gmyA 153 2.62e+01 1suuA 312 2.63e+01 b.68.10.1 99006 1my6A 199 2.76e+01 a.2.11.1,d.44.1.1 85232,85233 1rwzA 245 2.76e+01 d.131.1.2,d.131.1.2 98005,98006 1y60A 169 2.86e+01 1hjxA 362 2.89e+01 c.1.8.5,d.26.3.1 83512,83513 1nm8A 616 2.91e+01 c.43.1.3,c.43.1.3 85872,85873 1xfsA 178 2.92e+01 d.129.3.5 109589 1gv3A 248 2.98e+01 a.2.11.1,d.44.1.1 70585,70586 1lw6I 64 3.01e+01 d.40.1.1 74294 1jvsA 400 3.02e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1eyqA 222 3.02e+01 1eypA d.36.1.1 38534 1th1C 179 3.13e+01 1xmxA 385 3.18e+01 1th8A 145 3.19e+01 d.122.1.3 106908 1gz8A 299 3.25e+01 d.144.1.7 83405 1id0A 152 3.26e+01 d.122.1.3 66111 1h6kZ 98 3.31e+01 d.58.7.1 60686 1z7yA 322 3.35e+01 1womA 271 3.42e+01 1yhvA 297 3.51e+01 1hcl 298 3.57e+01 1hcl d.144.1.7 41593 1yeyA 444 3.57e+01 2ghjA 118 3.59e+01 2azpA 318 3.60e+01 2fsjA 346 3.63e+01 1owqA 361 3.64e+01 c.1.8.5,d.26.3.1 104041,104042 1n8vA 112 3.68e+01 a.118.21.1 85457 1z7wA 322 3.69e+01 1pmnA 364 3.71e+01 d.144.1.7 94907 2f9dA 125 3.72e+01 3il8 72 3.77e+01 1tvxA d.9.1.1 37356 1to6A 371 3.82e+01 c.141.1.1 107170 1wv8A 73 3.85e+01 1pfvA 551 3.86e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1t5oA 351 3.90e+01 c.124.1.5 106459 2gtsA 86 3.93e+01 1io1A 398 3.94e+01 1io1A e.32.1.1 62611 1f4lA 551 3.95e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1h8dL 29 3.97e+01 b.47.1.2 60737 1eh6A 207 4.00e+01 1sfe a.4.2.1,c.55.7.1 16076,33751 1vlaA 150 4.02e+01 d.227.1.2 108735 1e94F 449 4.07e+01 1do0A c.37.1.20 32443 1j3wA 163 4.13e+01 d.110.7.1 90833 1i0cA 60 4.20e+01 1aojA b.34.2.1 61485 1ok7A 366 4.21e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2au3A 407 4.26e+01 1dd3C 32 4.31e+01 1dd3C a.108.1.1 19033 1rvkA 382 4.32e+01 c.1.11.2,d.54.1.1 97928,97929 1przA 252 4.35e+01 d.265.1.3 95064 2cu6A 103 4.41e+01 1eh8A 207 4.43e+01 1sfe a.4.2.1,c.55.7.1 16077,33752 2a19B 284 4.43e+01 1fus 106 4.44e+01 9rnt d.1.1.4 36050 1oaqH 121 4.45e+01 b.1.1.1 92707 1zvnA 99 4.51e+01 2bvaA 292 4.54e+01 1wba 175 4.65e+01 1wba b.42.4.1 25591 1pvgA 418 4.65e+01 d.14.1.3,d.122.1.2 95161,95162 1mugA 168 4.66e+01 1mugA c.18.1.2 31030 1pp7U 131 4.69e+01 a.4.5.44 94973 1a44 185 4.71e+01 1a44 b.17.1.1 23704 1xsnA 335 4.82e+01 1e4fT 419 4.84e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1sur 215 4.86e+01 1sur c.26.2.2 31620 1li5B 461 4.90e+01 a.27.1.1,c.26.1.1 73914,73915 1hyeA 313 4.93e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1cqtI 44 4.94e+01 1s12A 94 5.00e+01 2cwcA 303 5.00e+01 2occG 84 5.00e+01 2occG f.23.2.1 43522 1laxA 370 5.05e+01 c.94.1.1 84576 1ytvA 366 5.06e+01 1qlmA 316 5.07e+01 1qlmA d.147.1.1 41765 1k1vA 41 5.09e+01 a.37.1.1 71999 1pinA 163 5.13e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1rvaA 244 5.15e+01 1rvaA c.52.1.2 33240 1rypJ 204 5.19e+01 d.153.1.4 41878 2axwA 134 5.21e+01 1yoaA 159 5.25e+01 1syyA 346 5.31e+01 a.25.1.2 106126 1iyxA 432 5.34e+01 c.1.11.1,d.54.1.1 83815,83816 1mmiA 366 5.35e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1yzfA 195 5.40e+01 1l2uA 245 5.41e+01 c.1.2.3 73516 1m70A 190 5.44e+01 a.3.1.4,a.3.1.4 91200,91201 1s68A 249 5.47e+01 d.142.2.4 98591 2cvjA 180 5.47e+01 1iktA 120 5.54e+01 d.106.1.1 66188 1qntA 176 5.55e+01 1sfe a.4.2.1,c.55.7.1 16074,33749 1eu1A 780 5.57e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1n8jA 186 5.58e+01 c.47.1.10 85401 1oxnA 140 5.59e+01 g.52.1.1 93704 1vq3A 94 5.60e+01 1anf 370 5.66e+01 4mbp c.94.1.1 35776 2d81A 318 5.74e+01 1xm9A 457 5.77e+01 2b7nA 273 5.80e+01 1iicA 422 5.82e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1rx0A 393 5.85e+01 a.29.3.1,e.6.1.1 98007,98008 1uelB 48 5.86e+01 j.105.1.1 99266 1lnsA 763 5.88e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1ykdA 398 5.89e+01 1kaeA 434 5.94e+01 c.82.1.2 72247 1v54B 227 5.95e+01 b.6.1.2,f.17.2.1 100322,100323 1oahA 519 5.98e+01 a.138.1.3 86736 1omp 370 6.03e+01 4mbp c.94.1.1 35778 1oapA 109 6.04e+01 d.79.7.1 92706 1yxmA 303 6.07e+01 1va4A 279 6.14e+01 c.69.1.12 108458 1p2xA 159 6.16e+01 a.40.1.1 104062 1th0A 226 6.20e+01 d.3.1.7 106903 1udvA 89 6.20e+01 d.68.6.1 99224 1nu5A 370 6.31e+01 c.1.11.2,d.54.1.1 92183,92184 2bdwA 362 6.33e+01 4mbp 370 6.34e+01 4mbp c.94.1.1 35777 1jpmA 366 6.36e+01 c.1.11.2,d.54.1.1 67031,67032 1yliA 153 6.41e+01 1augA 215 6.45e+01 1a2zA c.56.4.1 33798 2f4nA 273 6.54e+01 1mbyA 88 6.54e+01 d.223.1.1 78931 1x3kA 152 6.61e+01 1egpA 45 6.68e+01 1egpA d.40.1.1 38561 1eudA 311 6.78e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1czaN 917 6.78e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1nj4A 363 6.83e+01 b.105.1.1,e.3.1.1 80545,80546 1u14A 172 6.84e+01 c.51.4.3 107579 1vf8A 377 6.95e+01 1vkjA 285 7.02e+01 c.37.1.5 108666 1fr3A 67 7.03e+01 1fr3A b.40.6.1 25436 1r7jA 95 7.09e+01 a.4.5.49 104836 2b1xA 470 7.12e+01 2fuvA 549 7.16e+01 1w2lA 99 7.16e+01 1tuc 63 7.19e+01 1tuc b.34.2.1 24492 1uesA 191 7.20e+01 a.2.11.1,d.44.1.1 107798,107799 1sdjA 310 7.23e+01 d.21.1.2,d.21.1.2 98807,98808 1yydA 357 7.24e+01 1nb9A 147 7.27e+01 b.43.5.1 85515 1skoB 130 7.29e+01 d.110.7.1 105677 2bkyX 89 7.30e+01 2aw4Q 117 7.33e+01 2d2mD 145 7.35e+01 1xhkA 187 7.38e+01 1j7lA 264 7.39e+01 d.144.1.6 62697 1azsB 212 7.40e+01 1azsA d.58.29.1 39423 1tkkA 366 7.41e+01 c.1.11.2,d.54.1.1 107089,107090 1be9A 119 7.42e+01 1pdr b.36.1.1 24774 1xbbA 291 7.52e+01 2gupA 292 7.56e+01 1wdvA 152 7.60e+01 1w6tA 444 7.64e+01 1v8gA 329 7.67e+01 a.46.2.1,c.27.1.1 100505,100506 2fdbM 164 7.70e+01 2trxA 108 7.71e+01 1thx c.47.1.1 32719 1d0qA 103 7.74e+01 1d0qA g.41.3.2 45208 2b0tA 738 7.77e+01 1s3iA 310 7.80e+01 b.46.1.1,c.65.1.1 98435,98436 1ruwA 69 7.81e+01 1jykA 254 8.15e+01 c.68.1.13 67458 1qz8A 113 8.28e+01 b.140.1.1 96619 1twuA 139 8.41e+01 d.32.1.8 107413 1pkhA 204 8.53e+01 b.85.4.1 94832 1a2yB 116 8.57e+01 1gc1H b.1.1.1 19927 1v3vA 333 8.57e+01 b.35.1.2,c.2.1.1 108345,108346 1mn1 357 8.59e+01 1arv a.93.1.1 18667 1zw0A 66 8.64e+01 1vzmA 45 8.71e+01 1yqeA 282 8.80e+01 1hyhA 309 8.80e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1vkcA 158 8.93e+01 1qqcA 773 8.95e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013