# 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 1gqzA 274 8.34e-07 d.21.1.1,d.21.1.1 83311,83312 2gkeA 274 8.36e-07 1bwzA 274 4.98e-06 1bwzA d.21.1.1,d.21.1.1 38337,38338 1w61A 414 2.65e-05 1tm0A 350 2.81e-04 d.21.1.3 107147 1u1wA 298 2.01e-02 1sdjA 310 2.10e-02 d.21.1.2,d.21.1.2 98807,98808 1xubA 298 2.62e-02 1t6kA 278 1.20e-01 1qyaA 307 1.74e-01 d.21.1.2,d.21.1.2 104653,104654 1ym5A 300 2.09e-01 2azpA 318 2.31e-01 2g6yA 217 3.52e-01 1usyA 275 4.39e-01 1o97D 320 1.00e+00 c.26.2.3,c.31.1.2 81233,81234 1u9yA 284 1.91e+00 1lj5A 379 1.97e+00 e.1.1.1 73928 1h7wA 1025 2.33e+00 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1oe4A 247 2.55e+00 c.18.1.3 86895 1z5hA 780 2.55e+00 1hzdA 272 2.70e+00 c.14.1.3 65969 1gteA 1025 2.75e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1zcjA 463 3.02e+00 1umzA 278 3.24e+00 b.29.1.2 99639 1s7jA 262 3.45e+00 d.21.1.2 98647 1z94A 147 3.68e+00 1ycoA 279 3.78e+00 1wc3A 219 3.86e+00 1erjA 393 4.12e+00 1erjA b.69.4.1 27660 1o0pA 104 4.48e+00 d.58.7.1 86535 1ut9A 609 4.62e+00 a.102.1.2,b.1.18.2 99912,99913 1jofA 365 5.61e+00 b.69.10.1 71775 1d0iA 156 5.66e+00 2dhqA c.23.13.1 31383 1u6zA 513 5.77e+00 1bkb 136 6.16e+00 1bkb b.34.5.2,b.40.4.5 24609,25341 1e3aB 560 6.69e+00 1ajqB 1gtzA 156 6.92e+00 c.23.13.1 70539 1v58A 241 7.94e+00 c.47.1.9,d.17.3.1 108371,108372 1ca1 370 7.95e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 1wucA 250 8.35e+00 1q47A 495 8.68e+00 b.69.12.1 104532 1bupA 386 9.12e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1uisA 231 1.00e+01 d.22.1.1 99431 1x82A 190 1.03e+01 1iw7C 1119 1.06e+01 e.29.1.1 71474 1prxA 224 1.08e+01 1prxA c.47.1.10 33076 1i1iP 681 1.08e+01 1i1iP d.92.1.5 40297 1mo9A 523 1.11e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1p4uA 153 1.14e+01 b.1.10.2 87780 1gk9B 557 1.15e+01 2acfA 182 1.15e+01 1ejxC 567 1.15e+01 b.92.1.1,c.1.9.2 83184,83185 1kay 381 1.16e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1ciy 590 1.20e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1josA 128 1.22e+01 d.52.7.1 84191 1xtqA 177 1.23e+01 2blnA 305 1.29e+01 2a6hC 1119 1.32e+01 1iz6A 138 1.37e+01 b.34.5.2,b.40.4.5 76976,76977 1qxrA 189 1.40e+01 b.82.1.7 96552 1lm4A 194 1.44e+01 d.167.1.1 84626 1mqoA 227 1.48e+01 d.157.1.1 103846 1dhkB 223 1.50e+01 1led b.29.1.1 24157 1omrA 201 1.52e+01 a.39.1.5 93349 1dp4A 435 1.59e+01 1dp4A c.93.1.1 35710 1g291 372 1.61e+01 1g291 1tg7A 971 1.61e+01 1rec 201 1.63e+01 1rec a.39.1.5 17326 1v61A 132 1.63e+01 b.55.1.1 108389 1lcl 142 1.64e+01 1lcl b.29.1.3 24216 1d2sA 170 1.66e+01 1d2sA b.29.1.4 24221 1d8cA 723 1.73e+01 1d8cA c.1.13.1 29325 1ci3M 249 1.78e+01 1hcz b.2.6.1,b.84.2.2 22480,28266 1xssA 225 1.80e+01 1udxA 416 1.80e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1gjwA 637 1.81e+01 b.71.1.1,c.1.8.1 60582,60583 1ac5 483 1.87e+01 1ac5 c.69.1.5 34653 1sk4A 163 1.91e+01 d.118.1.1 105664 1yg9A 330 1.96e+01 2bgiA 272 2.03e+01 1ut1A 148 2.05e+01 b.2.3.6 108014 1oxdA 227 2.09e+01 d.22.1.1 93687 1e2wA 251 2.13e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1b12A 248 2.14e+01 1b12A b.87.1.2 28388 1tafB 70 2.18e+01 1tafB a.22.1.3 16482 2awkA 228 2.22e+01 1hdkA 141 2.22e+01 b.29.1.3 65807 1vi6A 208 2.23e+01 c.23.15.1 100736 1crzA 403 2.24e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1ktaA 365 2.28e+01 e.17.1.1 77533 1a02N 301 2.31e+01 1a02N b.1.18.1,b.2.5.3 21923,22440 1o17A 345 2.33e+01 a.46.2.1,c.27.1.1 80765,80766 1wgoA 123 2.42e+01 1bqbA 301 2.43e+01 1hyt d.92.1.2 58962 1kypA 237 2.49e+01 d.22.1.1 73280 1zuxA 224 2.51e+01 2dddA 225 2.53e+01 1a8d 452 2.54e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 2fclA 169 2.55e+01 1gyvA 120 2.63e+01 b.1.10.2 70790 2ewrA 170 2.65e+01 1o8bA 219 2.85e+01 c.124.1.4,d.58.40.1 81180,81181 1n9pA 207 2.87e+01 b.1.18.16 80343 2sli 679 2.87e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1t0pB 86 2.88e+01 1led 243 2.92e+01 1led b.29.1.1 24039 1mh1 186 3.09e+01 1eesA c.37.1.8 32002 1wekA 217 3.17e+01 1xfjA 261 3.18e+01 d.194.1.2 109585 1avbA 226 3.18e+01 1led b.29.1.1 24158 2cxcA 144 3.18e+01 2myr 501 3.24e+01 2a1hA 365 3.25e+01 1j48A 110 3.26e+01 b.1.7.1 84112 1x6zA 123 3.27e+01 1fonA 240 3.31e+01 5ptp b.47.1.2 26231 1g0sA 209 3.32e+01 1g0sA d.113.1.1 60187 1w19A 160 3.35e+01 1z0nA 96 3.36e+01 1hr6B 443 3.39e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 2eifA 136 3.42e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1klfB 279 3.45e+01 b.2.3.2,b.2.3.2 72684,72685 1rzuA 485 3.47e+01 c.87.1.8 105140 1xgyL 216 3.51e+01 1pyoA 167 3.54e+01 c.17.1.1 95370 1nnsA 326 3.57e+01 c.88.1.1 85910 2ghsA 326 3.59e+01 1cl8A 276 3.60e+01 1ckqA c.52.1.1 33230 1aym2 261 3.62e+01 1aym2 1sr8A 298 3.63e+01 e.54.1.1 105959 1n26A 325 3.64e+01 b.1.1.4,b.1.2.1,b.1.2.1 79850,79851,79852 1a7cA 379 3.65e+01 1sek e.1.1.1 42660 2fgtA 417 3.67e+01 2a46A 238 3.67e+01 1tueB 218 3.68e+01 b.91.1.1 107324 1yq2A 1024 3.69e+01 1fsoA 139 3.72e+01 1rhoA b.1.18.8 60007 1js8A 394 3.77e+01 a.86.1.1,b.112.1.1 67219,67220 1z0mA 96 3.81e+01 2a19A 175 3.89e+01 1zq1A 438 3.97e+01 1mqvA 125 4.01e+01 a.24.3.2 79415 1ema 236 4.03e+01 1ema d.22.1.1 38339 1u7nA 336 4.10e+01 c.77.1.4 107726 1oygA 447 4.11e+01 b.67.2.2 93726 1gvhA 396 4.14e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 2b25A 336 4.23e+01 1iq6A 134 4.30e+01 d.38.1.4 76755 1e4mM 501 4.31e+01 1e70M c.1.8.4 59226 1ycdA 243 4.33e+01 1a99A 344 4.33e+01 1pot c.94.1.1 35812 2exrA 524 4.33e+01 2cxkA 95 4.35e+01 1m93B 245 4.36e+01 1tx4B 178 4.38e+01 1ctqA c.37.1.8 32045 2b4rO 345 4.44e+01 1ymiA 334 4.49e+01 1mkeA 152 4.61e+01 b.55.1.4 79231 1ov3A 138 4.71e+01 b.34.2.1,b.34.2.1 87451,87452 1hl9A 449 4.78e+01 b.71.1.3,c.1.8.11 90650,90651 1iu1A 146 4.78e+01 b.1.10.2 71428 1wab 232 4.85e+01 1wab c.23.10.3 31341 2a8yA 270 4.86e+01 1j5pA 253 4.91e+01 d.81.1.3,c.2.1.3 71577,83092 1dp0A 1023 4.99e+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 1uz5A 402 4.99e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1jz8A 1023 5.01e+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 1qwtA 255 5.01e+01 b.26.1.3 96501 1zc3B 113 5.17e+01 1ryaA 160 5.22e+01 d.113.1.5 105122 2bjqA 345 5.25e+01 2hrvA 142 5.28e+01 2hrvA b.47.1.4 26429 1gr3A 160 5.36e+01 b.22.1.1 65476 2f4lA 297 5.38e+01 1evuA 731 5.38e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1h4aX 173 5.39e+01 b.11.1.1,b.11.1.1 83479,83480 1xe7A 203 5.41e+01 1amuA 563 5.41e+01 1amuA e.23.1.1 43351 1m6sA 347 5.44e+01 c.67.1.1 78701 1jg8A 347 5.44e+01 1jg8A c.67.1.1 62946 1i2aA 219 5.45e+01 e.24.1.1 90660 1kdgA 546 5.46e+01 c.3.1.2,d.16.1.1 77337,77338 1jcfA 344 5.50e+01 c.55.1.1,c.55.1.1 62878,62879 2a84A 300 5.53e+01 1yfqA 342 5.55e+01 1v5wA 343 5.59e+01 c.37.1.11 108387 1hx0A 496 5.65e+01 b.71.1.1,c.1.8.1 61346,61347 1o70A 324 5.75e+01 b.118.1.1,b.118.1.1 81115,81116 1d3bA 75 5.77e+01 1d3bA b.38.1.1 24798 1at0 145 5.78e+01 1at0 b.86.1.1 28374 2fomB 185 5.80e+01 1hyvA 166 5.80e+01 1b9dA c.55.3.2 61424 1y43B 173 5.82e+01 1lm8V 160 5.85e+01 b.3.3.1 74035 1mrzA 293 5.91e+01 b.43.5.1,c.26.1.3 91452,91453 1n2eA 300 5.93e+01 c.26.1.4 85268 1f0cA 305 6.06e+01 1c8oA e.1.1.1 42676 1b6a 478 6.06e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1sz2A 332 6.14e+01 1p7tA 731 6.15e+01 c.1.13.1 94319 1es9A 232 6.27e+01 1wab c.23.10.3 31340 1r5mA 425 6.29e+01 1yqfA 203 6.31e+01 1xizA 159 6.31e+01 1ygaA 342 6.33e+01 1xaoA 121 6.38e+01 1j9yA 385 6.38e+01 1j9yA c.1.8.3 62791 1f5fA 205 6.39e+01 1d2sA b.29.1.4 24222 2bw8A 227 6.40e+01 1dzoA 123 6.48e+01 1dzoA d.24.1.1 38378 2ajuL 216 6.48e+01 2g1lA 104 6.50e+01 1bl3A 160 6.50e+01 1b9dA c.55.3.2 33655 1ekfA 365 6.52e+01 1ekfA e.17.1.1 59445 2fw2A 260 6.54e+01 1y0zA 330 6.55e+01 1vrmA 325 6.58e+01 1qunB 279 6.59e+01 b.2.3.2,b.2.3.2 22411,22412 1yckA 175 6.63e+01 1w6sA 599 6.63e+01 1ogsA 497 6.66e+01 b.71.1.2,c.1.8.3 86997,86998 1ea5A 537 6.71e+01 2bce c.69.1.1 34592 1vdkA 466 6.76e+01 a.127.1.1 100561 1l1jA 239 6.78e+01 b.47.1.1 84516 1kmtA 141 6.79e+01 b.1.18.8 77442 1gmuA 143 6.79e+01 b.107.1.1,d.58.38.1 65335,65336 1fobA 334 6.79e+01 c.1.8.3 83255 1suwA 249 6.80e+01 e.52.1.1 106027 1iqoA 88 6.82e+01 d.214.1.1 71277 2b3yA 888 6.82e+01 1i6iA 366 6.84e+01 1bg2 c.37.1.9 61844 1xqbA 247 6.88e+01 1p7hL 286 6.91e+01 b.1.18.1,b.2.5.3 94271,94272 1x1nA 524 6.95e+01 1yqzA 438 6.97e+01 2stv 195 6.99e+01 2stv b.121.7.1 23287 2b59B 172 7.00e+01 2bukA 196 7.01e+01 1wosA 364 7.03e+01 b.44.2.1,d.250.1.1 109468,109469 1rtu 114 7.05e+01 9rnt d.1.1.4 36139 1voqa 90 7.06e+01 1acc 735 7.14e+01 1acc f.11.1.1 43828 1z02A 446 7.21e+01 1evhA 112 7.21e+01 1evhA b.55.1.4 26997 1q25A 432 7.22e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1egnA 434 7.25e+01 1celA b.29.1.10 59411 1e42A 258 7.28e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1fnnA 389 7.36e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1z08A 170 7.37e+01 1lf6A 684 7.45e+01 a.102.1.5,b.30.5.5 77918,77919 1gz6A 319 7.62e+01 c.2.1.2 76410 1ut8A 291 7.63e+01 a.60.7.1,c.120.1.2 99908,99909 1ncwH 222 7.81e+01 b.1.1.1,b.1.1.2 85555,85556 2f8mA 244 7.88e+01 1upsA 420 7.91e+01 1cojA 212 7.93e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1sotA 320 7.96e+01 b.36.1.4,b.47.1.1 105852,105853 1bqsA 209 7.96e+01 1bqsA b.1.1.4,b.1.1.4 21704,21705 1neu 124 8.04e+01 1neu b.1.1.1 19704 2ew2A 316 8.06e+01 1w6nA 134 8.10e+01 1q48A 134 8.11e+01 d.224.1.2 95783 1gttA 429 8.12e+01 d.177.1.1,d.177.1.1 70529,70530 1ev7A 317 8.16e+01 1ev7B c.52.1.9 33315 1iz0A 302 8.18e+01 b.35.1.2,c.2.1.1 83821,83822 1grj 158 8.23e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1k3tA 359 8.40e+01 c.2.1.3,d.81.1.1 72022,72023 1pzsA 208 8.42e+01 b.1.8.1 104397 1h0bA 256 8.49e+01 b.29.1.11 83422 1xo1A 291 8.49e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1atiA 505 8.50e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1r5eA 115 8.58e+01 1odzA 386 8.58e+01 c.1.8.3 86889 1i1nA 226 8.58e+01 c.66.1.7 71102 2sak 121 8.60e+01 2sak d.15.5.1 37711 1zd9A 188 8.61e+01 1wdxA 69 8.63e+01 1vjrA 271 8.66e+01 c.108.1.14 100832 1y0gA 191 8.70e+01 2f15A 96 8.74e+01 1t6cA 315 8.94e+01 c.55.1.8,c.55.1.8 106558,106559