# List of top-scoring protein chains for t04-100-30-bys 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 1jogA 146 1.11e-26 a.24.16.2 77142 1dk8A 147 5.22e-02 1agrE a.91.1.1 18548 1mb3A 124 2.18e-01 c.23.1.1 78907 1cxzB 86 3.28e-01 1cxzB a.2.6.1 15705 2cxbA 124 3.53e-01 1ycc a.3.1.1 15891 1pa7A 130 3.78e-01 a.40.1.1 -896 1cxc 124 5.24e-01 1ycc a.3.1.1 15890 1rx0A 393 6.18e-01 a.29.3.1 -742 e.6.1.1 -11858 1s7zA 117 7.18e-01 unknown_sccs -344 1aua 296 8.19e-01 1aua a.5.3.1 16290 c.13.1.1 30882 1cm5A 759 1.09e+00 1cm5A c.7.1.1 30671 1a0p 290 1.14e+00 1a0p a.60.9.1 18105 d.163.1.1 42165 1buoA 121 1.15e+00 1buoA d.42.1.1 38631 1h16A 759 1.20e+00 c.7.1.1 76462 1wod 233 1.33e+00 1wod c.94.1.1 35832 1amf 233 1.36e+00 1wod c.94.1.1 35833 1mi3A 322 1.46e+00 c.1.7.1 -5257 1i39A 225 1.48e+00 1ekeA c.55.3.1 61585 1i50B 1224 1.60e+00 e.29.1.1 61755 1rktA 205 1.76e+00 a.4.1.9 -210 a.121.1.1 -1663 1l9hA 349 1.94e+00 f.13.1.2 73720 1mvoA 136 2.04e+00 c.23.1.1 79513 1fjgD 209 2.10e+00 1c05A d.66.1.2 39553 1miwA 404 2.14e+00 a.173.1.1 79162 d.218.1.4 79163 1p9bA 442 2.24e+00 c.37.1.10 -7115 1js8A 394 2.38e+00 a.86.1.1 67219 b.112.1.1 67220 1b0b 142 2.40e+00 2fal a.1.1.2 15010 1k4nA 192 2.50e+00 d.32.1.5 72059 1djxB 624 2.60e+00 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1m6kA 251 2.69e+00 e.3.1.1 78695 2igd 61 2.81e+00 2igd d.15.7.1 37821 1nznA 126 2.90e+00 a.118.8.1 -1616 7a3hA 303 2.96e+00 7a3hA c.1.8.3 28817 1r8iA 213 3.29e+00 unknown_sccs -411 1l3lA 234 3.31e+00 a.4.6.2 73541 d.110.5.1 73542 1q08A 99 3.52e+00 a.6.1.3 -381 1jvsA 400 3.54e+00 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1q0qA 406 3.63e+00 1hzxA 349 3.99e+00 1f88A f.13.1.2 61466 1qgoA 264 4.21e+00 1qgoA c.92.1.2 35596 2gdm 153 4.22e+00 2gdm a.1.1.2 15212 1icrA 217 4.39e+00 1vfrA d.90.1.1 62274 1cpt 412 4.52e+00 1cpt a.104.1.1 18968 1qmyA 167 4.58e+00 1qmyA d.3.1.2 37094 1fpoA 171 4.65e+00 1fpoA a.2.3.1 15693 a.23.1.1 16487 1oxkB 134 4.68e+00 c.23.1.1 -6411 1k6wA 426 4.85e+00 b.92.1.2 68236 c.1.9.5 68237 1l6sA 323 4.96e+00 c.1.10.3 73627 1dgfA 497 5.09e+00 1cf9A e.5.1.1 42782 1i8jA 323 5.16e+00 1b4kA c.1.10.3 61968 1e4yA 214 5.20e+00 1zin c.37.1.1 31901 g.41.2.1 45181 1qwgA 251 5.53e+00 unknown_sccs -5678 1q5zA 177 5.94e+00 unknown_sccs -1215 1d1qA 161 5.94e+00 1dg9A c.44.1.1 32642 2tct 207 5.98e+00 2tct a.4.1.9 16063 a.121.1.1 19240 1lis 136 6.40e+00 1lis a.19.1.1 16406 2lisA 136 6.40e+00 1lis a.19.1.1 16405 1d8wA 426 6.70e+00 1de5A c.1.15.2 29394 1v54E 109 6.74e+00 a.118.11.1 -1652 1mjhA 162 6.91e+00 1mjhA c.26.2.4 31639 1k1xA 659 6.91e+00 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1c02A 166 7.14e+00 1qspA a.24.10.2 16633 1iw7C 1119 7.24e+00 e.29.1.1 71474 3lynA 136 7.52e+00 1lis a.19.1.1 16413 1ov2A 99 7.54e+00 a.13.1.1 -457 1izmA 184 7.69e+00 unknown_sccs -1233 1qzzA 374 7.77e+00 a.4.5.29 -277 c.66.1.12 -8045 1o3uA 135 7.90e+00 a.24.16.3 86615 1hf8A 289 7.97e+00 1hg5A unknown_sccs -399 unknown_sccs -1628 1hlvA 131 8.16e+00 a.4.1.7 65854 a.4.1.7 65855 1oj7A 408 8.31e+00 1ui7A 638 8.67e+00 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1tmy 120 8.85e+00 1dbwA c.23.1.1 31083 1su8A 636 9.05e+00 e.26.1.2 -12015 1hvvA 75 9.16e+00 1hvvA h.1.15.1 45639 1i58A 189 9.18e+00 1b3qA d.122.1.3 61773 1ui8A 638 9.46e+00 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1jnyA 435 9.51e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1b8dA 164 9.66e+00 1cpcA a.1.1.3 15665 1ezfA 340 9.68e+00 1ezfA a.128.1.2 19440 1gxqA 106 9.75e+00 a.4.6.1 70721 1mp4A 292 9.89e+00 c.68.1.6 79376 1avk 638 9.98e+00 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1jjyA 636 9.99e+00 1jjyA 1iqyA 638 1.00e+01 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1qgrA 876 1.01e+01 1qgrA a.118.1.1 19119 1w2wA 211 1.02e+01 1qlaA 656 1.03e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1f74A 293 1.06e+01 1nal3 c.1.10.1 29079 1dat 174 1.06e+01 2fha a.25.1.1 16677 1dcs 311 1.07e+01 1dcs b.82.2.1 28124 1bykA 255 1.07e+01 1bykA c.93.1.1 35706 1dg9A 157 1.09e+01 1dg9A c.44.1.1 32637 1q6hA 224 1.10e+01 d.26.1.1 -9487 1or7A 194 1.12e+01 a.4.13.2 87332 a.177.1.1 87333 1ciy 590 1.17e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1ockA 412 1.17e+01 c.117.1.1 86802 1pq9A 253 1.20e+01 a.123.1.1 -1687 1qlaC 256 1.23e+01 1qlaC f.21.2.1 43722 1brwA 433 1.29e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1qq7A 253 1.29e+01 1qq5A c.108.1.1 43329 1qq5A 253 1.29e+01 1qq5A c.108.1.1 43327 1a8y 367 1.36e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1c0eA 157 1.36e+01 1dg9A c.44.1.1 32638 1qflA 389 1.40e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1d1gA 168 1.40e+01 1d1gA c.71.1.1 34889 1qazA 351 1.45e+01 1qazA a.102.3.1 18848 1fmjA 351 1.48e+01 c.37.1.5 59879 1vkeA 133 1.50e+01 1rxxA 421 1.52e+01 unknown_sccs -10982 1gln 468 1.58e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1auiB 169 1.61e+01 1auiB a.39.1.5 17325 1r5lA 262 1.62e+01 a.5.3.1 -360 c.13.1.1 -6215 1p3jA 217 1.64e+01 c.37.1.1 -6996 g.41.2.1 -12769 1zin 217 1.64e+01 1zin c.37.1.1 31915 g.41.2.1 45178 1e6yB 433 1.65e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1uqvA 85 1.65e+01 a.60.1.2 -1010 1dkgA 197 1.68e+01 1dkgA b.73.1.1 27812 h.1.9.1 45626 1m4tA 392 1.69e+01 c.95.1.1 78617 c.95.1.1 78618 1m3kA 392 1.69e+01 c.95.1.1 78565 c.95.1.1 78566 1joyA 67 1.70e+01 1joyA a.30.2.1 16991 1jj2B 337 1.71e+01 1ffkB b.43.3.2 63086 2gsq 202 1.74e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1fcjA 322 1.77e+01 1oasA c.79.1.1 35289 1ls6A 295 1.77e+01 c.37.1.5 -7026 1f44A 324 1.77e+01 a.60.9.1 64982 d.163.1.1 64983 2a0b 125 1.77e+01 2a0b a.24.10.1 16630 1o5hA 214 1.78e+01 unknown_sccs -1078 1v8gA 329 1.78e+01 a.46.2.1 -953 c.27.1.1 -6644 1nksA 194 1.85e+01 1nksA c.37.1.1 31886 1d8dA 377 1.86e+01 1ft1A a.118.6.1 19185 1o98A 511 1.86e+01 c.105.1.1 86684 c.76.1.3 86685 1s72B 338 1.86e+01 2fokA 579 1.87e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1n7sB 68 1.91e+01 h.1.15.1 80272 1ee4A 423 1.94e+01 1ee4A a.118.1.1 19128 2occE 109 1.94e+01 2occE a.118.11.1 19224 1ax4A 467 1.95e+01 1ax4A c.67.1.2 34391 1viuA 203 1.95e+01 d.113.1.1 -10889 1jipA 403 2.09e+01 a.104.1.1 66748 1ccwA 137 2.12e+01 1be1 c.23.6.1 31238 1ail 73 2.12e+01 1ail a.16.1.1 16381 1j09A 468 2.14e+01 a.97.1.1 77025 c.26.1.1 77026 1j99A 293 2.16e+01 c.37.1.5 71618 1uzbA 516 2.21e+01 c.82.1.1 -8552 1q1aA 289 2.30e+01 c.31.1.5 -6781 2sas 185 2.30e+01 2sas a.39.1.5 17258 1eqjA 511 2.35e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1oniA 137 2.42e+01 d.79.1.1 87144 1umdA 367 2.42e+01 c.36.1.11 -6969 1oaiA 59 2.46e+01 a.5.2.3 81255 1uxoA 192 2.50e+01 1jj2L 194 2.54e+01 1ffkI d.12.1.2 63097 1r64A 481 2.56e+01 b.18.1.20 -3151 c.41.1.1 -7297 1sqgA 429 2.56e+01 1j5sA 463 2.60e+01 c.1.9.8 71580 1m1nA 491 2.61e+01 c.92.2.3 78417 1huw 166 2.61e+01 1huw a.26.1.1 16831 1lssA 140 2.63e+01 c.2.1.9 74246 1q06A 135 2.64e+01 a.6.1.3 -375 1teaA 299 2.65e+01 1deeG 54 2.69e+01 1fc2C a.8.1.1 16343 1isiA 265 2.70e+01 e.4.1.1 71394 1azwA 313 2.71e+01 1qtrA c.69.1.7 34658 1ofnA 205 2.76e+01 b.82.1.1 -4830 1ls1A 295 2.77e+01 a.24.13.1 78170 c.37.1.10 78171 1dwkA 156 2.77e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1ozjA 144 2.79e+01 d.164.1.1 -11537 1f8mA 429 2.80e+01 1dquA c.1.12.7 29315 1np3A 338 2.80e+01 a.100.1.2 85946 c.2.1.6 85947 1vhzA 198 2.83e+01 d.113.1.1 -10897 1lddA 74 2.83e+01 a.4.5.34 73841 1a76 326 2.83e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1vhnA 318 2.87e+01 c.1.4.1 -5209 1k32A 1045 2.88e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1ufaA 520 2.88e+01 unknown_sccs -421 unknown_sccs -6065 1a32 88 2.91e+01 1a32 a.16.1.2 16384 2cblA 305 2.91e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1f61A 429 2.92e+01 1dquA c.1.12.7 29319 1v93A 296 2.92e+01 c.1.23.1 -5654 1gkpA 458 2.95e+01 b.92.1.3 70231 c.1.9.6 70232 1i2oA 316 2.96e+01 1onrA c.1.10.1 61574 1iybA 208 2.97e+01 d.124.1.1 -10977 1qhlA 227 3.04e+01 1qhlA c.37.1.12 32382 1v9mA 323 3.04e+01 unknown_sccs -12292 1mxgA 435 3.10e+01 b.71.1.1 85193 c.1.8.1 85194 1mhdA 132 3.14e+01 1mhdA d.164.1.1 42175 1dk0A 188 3.20e+01 1b2vA d.35.1.1 38530 1ufyA 122 3.23e+01 d.79.1.2 88489 1ks9A 291 3.23e+01 a.100.1.7 68857 c.2.1.6 68858 1vh4A 435 3.28e+01 unknown_sccs -4794 1n3kA 130 3.32e+01 a.77.1.4 79965 1s9aA 257 3.36e+01 1rfmA 344 3.37e+01 c.122.1.1 -8032 1bed 181 3.52e+01 1fvkA unknown_sccs -7444 1cjcA 460 3.56e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1bhdA 118 3.58e+01 1bkrA a.40.1.1 17398 4crxA 322 3.63e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1mo0A 275 3.67e+01 c.1.1.1 79329 1gzsB 165 3.67e+01 a.168.1.1 76425 2lbp 346 3.70e+01 2liv c.93.1.1 35709 1ibrB 462 3.70e+01 1qgrA a.118.1.1 19120 2liv 344 3.73e+01 2liv c.93.1.1 35708 1oy3D 282 3.75e+01 d.211.1.1 87554 1aoy 78 3.80e+01 1aoy a.4.5.3 16087 1ko3A 230 3.87e+01 d.157.1.1 -11454 1n2zA 245 3.87e+01 c.92.2.2 79865 1qahA 136 3.89e+01 d.79.1.1 -10377 8abp 306 3.98e+01 8abp c.93.1.1 35647 1r7aA 504 3.99e+01 b.71.1.1 -4664 c.1.8.1 -5283 1a7tA 232 4.00e+01 1a7tA d.157.1.1 42041