# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 2fhpA 187 2.19e-01 2b81A 323 3.97e-01 2c1vA 338 4.65e-01 1zip 217 5.64e-01 1zin c.37.1.1,g.41.2.1 31916,45179 1zin 217 6.16e-01 1zin c.37.1.1,g.41.2.1 31915,45178 1i74A 309 6.75e-01 1i74A c.107.1.1 61867 1ax4A 467 7.75e-01 1ax4A c.67.1.2 34391 2eu8A 216 9.65e-01 1aky 221 1.42e+00 1zin c.37.1.1,g.41.2.1 31896,45197 1sq5A 308 1.73e+00 c.37.1.6 105882 1xnzA 264 1.75e+00 1p3jA 217 1.77e+00 c.37.1.1,g.41.2.1 94022,94023 1rec 201 1.79e+00 1rec a.39.1.5 17326 2c3nA 247 1.79e+00 1vlrA 350 2.18e+00 d.13.1.3,d.246.1.1 108860,108861 4tmkA 213 2.18e+00 5tmpA c.37.1.1 31930 2ggcA 263 2.44e+00 1ah7 245 2.59e+00 1ah7 a.124.1.1 19339 1c24A 263 2.79e+00 1c24A d.127.1.1 41148 2esrA 177 2.85e+00 1omrA 201 2.93e+00 a.39.1.5 93349 1esmA 316 2.94e+00 1esmA c.37.1.6 31953 1xt8A 292 2.99e+00 1e0wA 313 3.04e+00 1taxA c.1.8.3 59150 1od8A 313 3.04e+00 c.1.8.3 86838 1a8s 273 3.17e+00 1brt c.69.1.12 34710 1gntA 553 3.29e+00 e.26.1.1 70290 1uufA 369 3.59e+00 b.35.1.2,c.2.1.1 100006,100007 1e2uA 553 4.11e+00 1e1dA e.26.1.1 43362 1mtyB 384 4.30e+00 1mtyB a.25.1.2 16740 1m1cA 680 4.52e+00 e.42.1.1 78395 1f8fA 371 4.52e+00 b.35.1.2,c.2.1.1 83246,83247 1b3uA 588 4.79e+00 1b3uA a.118.1.2 19135 2aucA 126 5.11e+00 1pbe 394 6.02e+00 1pbe c.3.1.2,d.16.1.2 30338,37869 1k20A 310 6.08e+00 c.107.1.1 68027 1v0lA 313 6.13e+00 c.1.8.3 108207 1k0iA 394 6.49e+00 c.3.1.2,d.16.1.2 67942,67943 1ng6A 148 7.27e+00 a.182.1.1 85670 1gln 468 7.31e+00 1gln a.97.1.1,c.26.1.1 18752,31588 1bqbA 301 7.32e+00 1hyt d.92.1.2 58962 2bidA 197 7.40e+00 2bidA f.1.4.1 43398 1lc0A 294 7.48e+00 c.2.1.3,d.81.1.4 73823,73824 1uhnA 189 8.09e+00 a.39.1.5 99399 1pufB 73 8.52e+00 a.4.1.1 95132 1z2cB 383 8.75e+00 1b72B 87 8.79e+00 1akhA a.4.1.1 16001 1ykjA 394 8.95e+00 1jgsA 138 8.97e+00 a.4.5.28 66683 1oz9A 150 8.99e+00 d.92.1.15 93808 1j09A 468 9.46e+00 a.97.1.1,c.26.1.1 77025,77026 1kk8B 139 9.57e+00 a.39.1.5 77430 1d8cA 723 9.87e+00 1d8cA c.1.13.1 29325 1pjjA 271 9.91e+00 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 2ak3A 226 1.01e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1nnjA 271 1.02e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1p7tA 731 1.02e+01 c.1.13.1 94319 2ca6A 386 1.05e+01 1tdzA 272 1.06e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1qe3A 489 1.07e+01 2bce c.69.1.1 34630 1ipaA 274 1.09e+01 c.116.1.1,d.79.3.3 71254,71255 1fzoA 274 1.11e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1lk2A 274 1.11e+01 b.1.1.2,d.19.1.1 91056,91057 1yrgA 385 1.12e+01 1yrgA c.10.1.2 30854 1elwA 118 1.18e+01 1a17 a.118.8.1 19207 1rcuA 195 1.19e+01 c.129.1.1 97295 2d2eA 250 1.27e+01 1t0qA 498 1.28e+01 a.25.1.2 106220 1uocA 289 1.37e+01 c.55.3.9 99686 2a7oA 112 1.40e+01 1v54J 59 1.41e+01 f.23.4.1 100331 2cvzA 289 1.42e+01 1hy0A 466 1.43e+01 1auwA a.127.1.1 61392 1uouA 474 1.45e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1gu2A 124 1.45e+01 a.3.1.1 76348 1rfzA 168 1.46e+01 a.195.1.1 97411 1kktA 511 1.46e+01 a.102.2.1 68687 1r9lA 309 1.50e+01 c.94.1.1 97262 1hw6A 278 1.51e+01 1frb c.1.7.1 61296 1gcuA 295 1.55e+01 1gcuA c.2.1.3,d.81.1.4 30063,39978 1n1jA 93 1.56e+01 a.22.1.3 79813 2aumA 317 1.57e+01 1yruB 74 1.57e+01 1mwqA 101 1.58e+01 d.58.4.7 91481 1sw6A 327 1.59e+01 1sw6A d.211.1.1 19176 1w7jB 151 1.60e+01 1ug3A 339 1.61e+01 1pmi 440 1.62e+01 1pmi b.82.1.3 28114 1xwoA 465 1.62e+01 1e17A 150 1.63e+01 2hfh a.4.5.14 16143 1wdjA 187 1.70e+01 1o3yA 166 1.75e+01 c.37.1.8 86618 1fpzA 212 1.76e+01 1fpzA c.45.1.1 59976 1odoA 408 1.77e+01 a.104.1.1 92783 1m45A 148 1.83e+01 a.39.1.5 78598 1zd8A 227 1.84e+01 1jftA 340 1.85e+01 a.35.1.5,c.93.1.1 66652,66653 2napA 723 1.92e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1m98A 317 1.95e+01 a.175.1.1,d.17.4.6 78866,78867 1eqfA 280 1.98e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 2azeA 155 2.02e+01 1egaA 301 2.02e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 2bl0B 145 2.07e+01 2bx6A 350 2.09e+01 1pzrA 60 2.09e+01 a.38.2.1 95468 2occJ 59 2.10e+01 2occJ f.23.4.1 43524 1jsxA 207 2.11e+01 c.66.1.20 71846 2shpA 525 2.12e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1r8sA 164 2.15e+01 c.37.1.8 97247 1dbqA 289 2.16e+01 1qpzA c.93.1.1 35666 2a5lA 200 2.18e+01 2gtsA 86 2.18e+01 1f3aA 222 2.18e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1m7bA 184 2.23e+01 c.37.1.8 74572 1e1hB 174 2.25e+01 2a0jA 149 2.30e+01 1iqqA 200 2.33e+01 d.124.1.1 66274 1i0aA 466 2.35e+01 1auwA a.127.1.1 61479 1ngkA 128 2.37e+01 a.1.1.1 85673 1kjvA 284 2.37e+01 b.1.1.2,d.19.1.1 77421,77422 1zcjA 463 2.42e+01 1tn4 159 2.43e+01 1ncx a.39.1.5 17248 1njhA 119 2.45e+01 b.128.1.1 85787 1z3eB 73 2.48e+01 2d2mD 145 2.48e+01 1t3qA 168 2.52e+01 a.56.1.1,d.15.4.2 106367,106368 1i39A 225 2.53e+01 1ekeA c.55.3.1 61585 2czlA 272 2.54e+01 1avsA 90 2.59e+01 1cll a.39.1.5 17226 1pueE 89 2.59e+01 1awcA a.4.5.21 16165 1tjvA 474 2.61e+01 a.127.1.1 107054 1vzyA 291 2.61e+01 1rqtA 37 2.62e+01 a.108.1.1 97771 1sgwA 214 2.63e+01 c.37.1.12 105541 1khdA 345 2.68e+01 a.46.2.1,c.27.1.1 77400,77401 1epuA 591 2.77e+01 1dn1A e.25.1.1 43358 1viaA 175 2.85e+01 c.37.1.2 100754 1f5mA 180 2.87e+01 1f5mB d.110.2.1 40895 1k7wA 468 2.90e+01 a.127.1.1 72130 1ekeA 230 2.94e+01 1ekeA c.55.3.1 33572 1mszA 86 2.97e+01 d.68.7.1 79428 2cwyA 94 3.06e+01 1jbkA 195 3.06e+01 c.37.1.20 71631 1v32A 101 3.11e+01 a.42.1.1 100277 2g9iA 249 3.11e+01 2gzaA 361 3.15e+01 1ei9A 279 3.16e+01 1ei9A c.69.1.13 34713 1brwA 433 3.22e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1gpl 432 3.22e+01 1gpl b.12.1.2,c.69.1.19 23645,34793 1byb 495 3.22e+01 1byb c.1.8.1 28790 1q6cA 495 3.23e+01 c.1.8.1 95970 1bg6 359 3.24e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1wdpA 495 3.25e+01 1miuA 738 3.32e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 2f31A 233 3.39e+01 2b7kA 200 3.42e+01 1wi0A 113 3.44e+01 2ahyA 110 3.45e+01 1he1A 135 3.48e+01 1he1A a.24.11.1 16641 1e7lA 157 3.52e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1xwyA 264 3.52e+01 2b0cA 206 3.53e+01 1wwiA 148 3.59e+01 1bqcA 302 3.66e+01 1bqcA c.1.8.3 28831 2f4mA 295 3.66e+01 1vkpA 383 3.67e+01 d.126.1.6 108686 1v3hA 495 3.76e+01 c.1.8.1 108303 1wrjA 156 3.78e+01 1yoeA 322 3.83e+01 1vf6A 83 3.86e+01 a.194.1.1 100600 1th8A 145 3.87e+01 d.122.1.3 106908 1orjA 130 3.90e+01 a.24.19.1 93456 1pprM 312 3.93e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1pp0A 199 3.97e+01 d.103.1.1 104211 1dv0A 47 4.02e+01 1dv0A a.5.2.1 16289 2gwhA 298 4.05e+01 1dw0A 112 4.05e+01 1dw0A a.3.1.1 15911 1wf3A 301 4.08e+01 1rh5A 436 4.08e+01 f.41.1.1 97464 2ftxB 64 4.10e+01 1auiB 169 4.11e+01 1auiB a.39.1.5 17325 2b10B 108 4.19e+01 1wnfA 328 4.19e+01 1ed8A 449 4.22e+01 1b8jA c.76.1.1 34988 1nq6A 302 4.23e+01 c.1.8.3 92046 2ezk 99 4.27e+01 2ezk a.4.1.2 16027 1oa8A 133 4.41e+01 b.145.1.1 92698 1acvA 189 4.44e+01 1fvkA c.47.1.13 90328 2ch4A 320 4.47e+01 1q4mA 221 4.58e+01 a.132.1.3 95805 1tf5A 844 4.62e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1wmuA 141 4.67e+01 a.1.1.2 109416 1sfe 180 4.67e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 1ppjE 196 4.70e+01 b.33.1.1,f.23.12.1 104260,104261 1fvkA 189 4.75e+01 1fvkA c.47.1.13 90351 1zrsA 317 4.75e+01 2aunA 317 4.75e+01 1r5iD 216 4.76e+01 a.202.1.1 97091 1i7dA 659 4.80e+01 1d6mA e.10.1.1 61886 1wlsA 328 4.85e+01 1eca 136 4.85e+01 1flp a.1.1.2 15209 2b3oA 532 4.96e+01 2f2gA 221 4.98e+01 1v6zA 228 5.01e+01 1eijA 80 5.07e+01 1eijA a.5.6.1 16298 2d7vA 162 5.08e+01 1wdcB 156 5.09e+01 1wdcB a.39.1.5 17302 1v37A 177 5.10e+01 1xn9A 101 5.13e+01 1qi9A 556 5.16e+01 1qhbA a.111.1.2 19053 2a1kA 233 5.18e+01 1zfpE 98 5.28e+01 1griA d.93.1.1 40465 1nkpB 83 5.35e+01 a.38.1.1 80574 1jyrA 96 5.42e+01 d.93.1.1 71969 1b04A 318 5.43e+01 1b04A d.142.2.2 41579 1fs5A 266 5.65e+01 c.124.1.1 65044 1khtA 192 5.71e+01 c.37.1.1 84401 1p4cA 380 5.72e+01 c.1.4.1 94100 2f05A 105 5.72e+01 1xl7A 612 5.76e+01 1y6vA 449 5.76e+01 1ccwB 483 5.80e+01 1cb7B c.1.19.2 29646 2aaoA 166 5.87e+01 2genA 197 5.88e+01 1v2zA 111 5.90e+01 a.186.1.1 108300 1pq9A 253 5.91e+01 a.123.1.1 95004 1bjaA 95 5.95e+01 1bjaA a.4.5.9 16122 1exrA 148 5.97e+01 1cll a.39.1.5 17299 2aaxA 275 6.01e+01 1q1hA 110 6.02e+01 a.4.5.41 95580 1vhnA 318 6.10e+01 c.1.4.1 100693 1nlwB 76 6.15e+01 a.38.1.1 80634 1w4tA 299 6.17e+01 1u3aA 189 6.18e+01 1mc0A 368 6.21e+01 d.110.2.1,d.110.2.1 78937,78938 1wq3A 322 6.24e+01 16vpA 366 6.50e+01 16vpA d.180.1.1 42601 2b0jA 358 6.52e+01 1v5xA 203 6.54e+01 c.1.2.4 100377 1o69A 394 6.58e+01 c.67.1.4 92560 1q1fA 151 6.60e+01 a.1.1.2 104476 1r6uA 437 6.70e+01 c.26.1.1 97163 2f6uA 234 6.72e+01 1ezvH 74 6.73e+01 1be3H f.28.1.1 59552 2ae8A 221 6.74e+01 1wlmA 151 6.75e+01 1ae9A 179 6.81e+01 1ae9A d.163.1.1 42153 1upvA 257 6.83e+01 1byi 224 7.03e+01 1byi c.37.1.10 32199 1n00A 321 7.03e+01 a.65.1.1 85241 1hl9A 449 7.05e+01 b.71.1.3,c.1.8.11 90650,90651 2g3bA 208 7.17e+01 2exrA 524 7.31e+01 1sqsA 242 7.38e+01 c.23.5.5 98968 1mvwB 145 7.39e+01 i.15.1.1 79524 1dt1A 129 7.42e+01 1c52 a.3.1.1 15811 1vd3A 217 7.45e+01 1zx4A 192 7.47e+01 2b7aA 293 7.51e+01 1vr5A 547 7.58e+01 2a5dA 175 7.60e+01 2d2mC 147 7.61e+01 2b12B 108 7.65e+01 6paxA 133 7.71e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1hzxA 349 7.71e+01 1f88A f.13.1.2 61466 1in6A 334 7.71e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1ap6A 198 7.72e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1z83A 196 7.75e+01 1gk7A 39 7.78e+01 h.1.20.1 70212 1c52 131 7.84e+01 1c52 a.3.1.1 15810 1iz0A 302 7.85e+01 b.35.1.2,c.2.1.1 83821,83822 1u19A 349 7.87e+01 2gh1A 301 7.89e+01 1yreA 197 7.94e+01 1bxkA 355 8.00e+01 1bxkA c.2.1.2 29803 2gasA 307 8.03e+01 1k1eA 180 8.10e+01 c.108.1.5 67995 3lynA 136 8.13e+01 1lis a.19.1.1 16413 1bo4A 168 8.13e+01 1bo4A d.108.1.1 40798 1xknA 355 8.17e+01 1yqyA 523 8.18e+01 1xzpB 150 8.18e+01 1ip9A 85 8.18e+01 1ip9A d.15.2.2 62638 2h7bA 105 8.19e+01 1w5rA 278 8.21e+01 1zl0A 311 8.28e+01 1ci4A 89 8.28e+01 1qckA a.60.5.1 17970 2fh7A 595 8.31e+01 1t5yA 190 8.31e+01 b.122.1.1,d.17.6.3 106495,106496 1l9hA 349 8.45e+01 f.13.1.2 73720 1ohlA 342 8.45e+01 c.1.10.3 87035 1yemA 179 8.46e+01 1v8dA 235 8.49e+01 c.140.1.1 108425 1a4pA 96 8.51e+01 1b4cA a.39.1.2 17176 1in4A 334 8.57e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1g4yR 148 8.67e+01 1cll a.39.1.5 60252 2fueA 262 8.73e+01 1a0fA 201 8.73e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 2jdxA 385 8.76e+01 1jdw d.126.1.2 41139 2aclB 244 8.81e+01 1g2cB 43 8.82e+01 1g2cB 1h7nA 342 8.82e+01 1b4kA c.1.10.3 60726 1epxA 370 8.85e+01 1fbaA c.1.10.1 29150 1xccA 220 8.86e+01 1vydA 116 8.87e+01 a.3.1.1 108900 1uvzA 119 8.93e+01 1vg5A 73 8.98e+01