# 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 2gkeA 274 3.45e-02 1gqzA 274 4.09e-02 d.21.1.1,d.21.1.1 83311,83312 1bwzA 274 5.05e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 1w61A 414 1.86e-01 1usyA 275 2.03e-01 1sdjA 310 2.80e-01 d.21.1.2,d.21.1.2 98807,98808 2g6yA 217 1.26e+00 1s7jA 262 1.65e+00 d.21.1.2 98647 1qyaA 307 1.80e+00 d.21.1.2,d.21.1.2 104653,104654 1lm4A 194 3.70e+00 d.167.1.1 84626 1rec 201 5.55e+00 1rec a.39.1.5 17326 1lj5A 379 5.90e+00 e.1.1.1 73928 2g1lA 104 7.02e+00 1omrA 201 7.08e+00 a.39.1.5 93349 1mqoA 227 7.36e+00 d.157.1.1 103846 1ci3M 249 8.19e+00 1hcz b.2.6.1,b.84.2.2 22480,28266 1q47A 495 8.56e+00 b.69.12.1 104532 1gyvA 120 8.97e+00 b.1.10.2 70790 1prxA 224 9.17e+00 1prxA c.47.1.10 33076 2a7bA 120 9.75e+00 1ca1 370 1.01e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1x6zA 123 1.15e+01 1ym5A 300 1.18e+01 1gjwA 637 1.19e+01 b.71.1.1,c.1.8.1 60582,60583 1xubA 298 1.21e+01 1a02N 301 1.31e+01 1a02N b.1.18.1,b.2.5.3 21923,22440 1dhkB 223 1.34e+01 1led b.29.1.1 24157 1tm0A 350 1.39e+01 d.21.1.3 107147 1e2wA 251 1.40e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1kdgA 546 1.41e+01 c.3.1.2,d.16.1.1 77337,77338 1xfjA 261 1.41e+01 d.194.1.2 109585 1e42A 258 1.45e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1iu1A 146 1.49e+01 b.1.10.2 71428 1led 243 1.51e+01 1led b.29.1.1 24039 1lcl 142 1.52e+01 1lcl b.29.1.3 24216 1wgoA 123 1.62e+01 1ejxC 567 1.68e+01 b.92.1.1,c.1.9.2 83184,83185 1ll7A 392 1.78e+01 c.1.8.5,d.26.3.1 78085,78086 1xqbA 247 1.79e+01 1ut8A 291 1.82e+01 a.60.7.1,c.120.1.2 99908,99909 1n26A 325 1.85e+01 b.1.1.4,b.1.2.1,b.1.2.1 79850,79851,79852 1ffa 214 1.87e+01 1cex c.69.1.30 31289 1p4uA 153 1.87e+01 b.1.10.2 87780 1hdkA 141 1.87e+01 b.29.1.3 65807 2amhA 207 1.91e+01 1u1wA 298 1.99e+01 1cex 214 2.06e+01 1cex c.69.1.30 31285 1g291 372 2.08e+01 1g291 1t6kA 278 2.13e+01 1lm8V 160 2.19e+01 b.3.3.1 74035 1xo1A 291 2.22e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1a8d 452 2.23e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1dzoA 123 2.24e+01 1dzoA d.24.1.1 38378 1t0pB 86 2.27e+01 1umzA 278 2.32e+01 b.29.1.2 99639 2fggA 101 2.40e+01 2cxkA 95 2.47e+01 2bgiA 272 2.52e+01 1d2sA 170 2.53e+01 1d2sA b.29.1.4 24221 1jbwA 428 2.56e+01 c.59.1.2,c.72.2.2 62860,62861 1ciy 590 2.58e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1xssA 225 2.60e+01 1n3gA 113 2.64e+01 d.204.1.1 79962 1cojA 212 2.69e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1ut9A 609 2.74e+01 a.102.1.2,b.1.18.2 99912,99913 1xgyL 216 2.81e+01 1wb9A 800 2.96e+01 2azpA 318 3.05e+01 1qi9A 556 3.07e+01 1qhbA a.111.1.2 19053 1kk1A 410 3.07e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1js8A 394 3.09e+01 a.86.1.1,b.112.1.1 67219,67220 1qexA 288 3.10e+01 1qexA b.32.1.1 24425 1mkeA 152 3.12e+01 b.55.1.4 79231 1d2kA 392 3.13e+01 1d2kA c.1.8.5,d.26.3.1 29008,38442 1uisA 231 3.14e+01 d.22.1.1 99431 2dddA 225 3.16e+01 1p7hL 286 3.18e+01 b.1.18.1,b.2.5.3 94271,94272 2sak 121 3.19e+01 2sak d.15.5.1 37711 1b6a 478 3.22e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1avbA 226 3.36e+01 1led b.29.1.1 24158 1xbrA 184 3.36e+01 1xbrA b.2.5.4 22458 1erjA 393 3.37e+01 1erjA b.69.4.1 27660 1q48A 134 3.38e+01 d.224.1.2 95783 2g30A 258 3.49e+01 1gzcA 239 3.51e+01 b.29.1.1 70803 1klfB 279 3.53e+01 b.2.3.2,b.2.3.2 72684,72685 1r7lA 110 3.54e+01 d.277.1.1 104837 1mjuL 219 3.58e+01 b.1.1.1,b.1.1.2 91304,91305 1ov3A 138 3.58e+01 b.34.2.1,b.34.2.1 87451,87452 1bg1A 722 3.58e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1o91A 178 3.58e+01 b.22.1.1 92656 1wucA 250 3.59e+01 1n9pA 207 3.62e+01 b.1.18.16 80343 1suwA 249 3.64e+01 e.52.1.1 106027 1d3bA 75 3.65e+01 1d3bA b.38.1.1 24798 1qopB 396 3.68e+01 2tysB c.79.1.1 35270 1v61A 132 3.73e+01 b.55.1.1 108389 2exrA 524 3.76e+01 1b12A 248 3.79e+01 1b12A b.87.1.2 28388 1tg7A 971 3.90e+01 1voqa 90 3.91e+01 1bs4A 168 4.00e+01 1bs4A d.167.1.1 42287 2a84A 300 4.09e+01 1yqfA 203 4.12e+01 1ju3A 583 4.19e+01 b.18.1.13,c.69.1.21 67300,67301 1h4aX 173 4.25e+01 b.11.1.1,b.11.1.1 83479,83480 1ncwH 222 4.33e+01 b.1.1.1,b.1.1.2 85555,85556 1gr3A 160 4.39e+01 b.22.1.1 65476 1y0zA 330 4.41e+01 2ew2A 316 4.47e+01 1vzyA 291 4.47e+01 2bjrA 368 4.50e+01 2fhzB 108 4.53e+01 1y3nA 490 4.55e+01 1sz2A 332 4.57e+01 1qwtA 255 4.58e+01 b.26.1.3 96501 1ac5 483 4.59e+01 1ac5 c.69.1.5 34653 1iq6A 134 4.61e+01 d.38.1.4 76755 1h0hB 214 4.63e+01 d.58.1.5 76437 1lf6A 684 4.70e+01 a.102.1.5,b.30.5.5 77918,77919 1ax0 239 4.70e+01 1led b.29.1.1 24042 1mpp 361 4.72e+01 2rmpA b.50.1.2 26856 1evhA 112 4.75e+01 1evhA b.55.1.4 26997 1rtu 114 4.79e+01 9rnt d.1.1.4 36139 2a8kA 108 4.86e+01 2ch4A 320 4.86e+01 1xeoA 168 4.87e+01 1qqsA 174 4.89e+01 1nglA b.60.1.1 27143 1iqoA 88 4.90e+01 d.214.1.1 71277 1yqzA 438 4.92e+01 1wnaA 131 4.94e+01 1qmyA 167 4.94e+01 1qmyA d.3.1.2 37094 1t0qC 86 4.96e+01 d.15.12.1 106222 1vcbC 160 4.99e+01 1vcbC b.3.3.1 22535 1u84A 90 5.00e+01 1m2xA 223 5.08e+01 d.157.1.1 84764 1z0sA 278 5.09e+01 1vk1A 242 5.11e+01 d.268.1.2 108634 1ev7A 317 5.18e+01 1ev7B c.52.1.9 33315 1n2eA 300 5.21e+01 c.26.1.4 85268 1l1jA 239 5.25e+01 b.47.1.1 84516 2fomB 185 5.35e+01 1tyv 542 5.43e+01 1tyv b.80.1.6 28038 1wkbA 810 5.48e+01 1g8iA 190 5.49e+01 1rec a.39.1.5 60363 1cruA 454 5.49e+01 1c9uA b.68.2.1 27617 1ukvY 206 5.51e+01 c.37.1.8 107918 1vrmA 325 5.54e+01 1nxb 62 5.55e+01 3ebx g.7.1.1 44395 1hyvA 166 5.58e+01 1b9dA c.55.3.2 61424 1fgs 428 5.61e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1bupA 386 5.74e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1fi4A 416 5.76e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1j1nA 492 5.88e+01 c.94.1.1 83978 1dceA 567 6.02e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1kay 381 6.11e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1z5zA 271 6.11e+01 3ebx 62 6.13e+01 3ebx g.7.1.1 44389 1txoA 237 6.15e+01 1yf5L 254 6.17e+01 1o0xA 262 6.22e+01 d.127.1.1 80755 1o0wA 252 6.33e+01 a.149.1.1,d.50.1.1 80751,80752 2bjqA 345 6.46e+01 1cd9B 215 6.46e+01 1cto b.1.2.1,b.1.2.1 22041,22042 1havA 217 6.47e+01 1havA b.47.1.4 26423 1bl3A 160 6.48e+01 1b9dA c.55.3.2 33655 2f4lA 297 6.49e+01 1zc3B 113 6.52e+01 1exmA 405 6.57e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1v58A 241 6.58e+01 c.47.1.9,d.17.3.1 108371,108372 1ng2A 193 6.63e+01 b.34.2.1,b.34.2.1 85660,85661 1grj 158 6.67e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1dp0A 1023 6.69e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 1x3mA 415 6.70e+01 1jz8A 1023 6.71e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 2c78A 405 6.71e+01 1y43B 173 6.73e+01 1yfqA 342 6.74e+01 1yobA 179 6.78e+01 1fsoA 139 6.81e+01 1rhoA b.1.18.8 60007 1rz3A 201 6.84e+01 c.37.1.6 98132 1e3mA 800 6.87e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1z0nA 96 6.90e+01 1vqoT 120 6.91e+01 1w8kA 447 6.95e+01 1k12A 158 6.99e+01 b.18.1.15 71978 1m7xA 617 7.00e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1qunB 279 7.02e+01 b.2.3.2,b.2.3.2 22411,22412 1aym2 261 7.05e+01 1aym2 2bvlA 543 7.10e+01 1v7wA 807 7.19e+01 a.102.1.4,b.30.5.3 108411,108412 1p49A 562 7.26e+01 c.76.1.2 94089 1ncwL 219 7.29e+01 b.1.1.1,b.1.1.2 85557,85558 2fuqA 747 7.32e+01 1s31A 273 7.34e+01 1v5tA 90 7.34e+01 d.15.1.1 108385 1w97L 246 7.34e+01 7fd1A 106 7.34e+01 1a6l d.58.1.2 38953 1x1nA 524 7.34e+01 1n7eA 97 7.49e+01 b.36.1.1 91691 1z0mA 96 7.70e+01 1qa7A 217 7.80e+01 1havA b.47.1.4 26425 2ab5A 269 7.81e+01 2ajuL 216 7.83e+01 1nlnA 204 7.95e+01 d.3.1.7 91962 2fgtA 417 8.04e+01 1zuxA 224 8.09e+01 1mp9A 198 8.12e+01 d.129.1.1,d.129.1.1 91385,91386 1yua 122 8.14e+01 1yua g.41.3.3,g.41.3.3 45210,45211 1a7cA 379 8.18e+01 1sek e.1.1.1 42660 1vlrA 350 8.23e+01 d.13.1.3,d.246.1.1 108860,108861 1v54F 98 8.27e+01 g.41.5.3 100327 1r5mA 425 8.31e+01 1vrtA 560 8.36e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 2a46A 238 8.43e+01 1yg9A 330 8.43e+01 1abrA 251 8.50e+01 1mrj d.165.1.1 42196 1f5fA 205 8.52e+01 1d2sA b.29.1.4 24222 1o5zA 442 8.53e+01 c.59.1.2,c.72.2.2 92530,92531 1hl9A 449 8.66e+01 b.71.1.3,c.1.8.11 90650,90651 2bcgY 206 8.67e+01 2gaeA 346 8.73e+01 1iq9A 61 8.73e+01 g.7.1.1 90669 1dykA 394 8.78e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1jj2S 119 8.79e+01 1ffkQ b.34.5.1 63104 1s72T 120 8.80e+01 b.34.5.1 105339 2f6uA 234 8.85e+01 1ea5A 537 8.86e+01 2bce c.69.1.1 34592 1xe1A 116 8.95e+01 b.43.3.1 109571 2fug5 207 8.95e+01 1qhlA 227 8.97e+01 1qhlA c.37.1.12 32382 1z94A 147 8.98e+01