# List of top-scoring protein chains for t2k-100-30-alpha 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 1v4eA 299 6.63e-02 1vh6A 145 1.11e-01 1h6gA 256 1.23e-01 1h6gA a.24.9.1 60669 a.24.9.1 60670 256bA 106 1.42e-01 256bA a.24.3.1 16539 1q0gA 117 1.76e-01 1nktA 922 5.31e-01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1fcyA 236 1.07e+00 2lbd a.123.1.1 19282 1h6pA 203 1.23e+00 a.146.1.1 60690 1aew 174 1.28e+00 2fha a.25.1.1 16676 1m6nA 802 1.35e+00 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1gtmA 419 1.52e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 1ka2A 499 1.63e+00 d.92.1.5 77305 1rqjA 299 1.83e+00 1pn1A 176 1.87e+00 1s0pA 176 1.87e+00 1dat 174 1.94e+00 2fha a.25.1.1 16677 1lf6A 684 1.96e+00 a.102.1.5 77918 b.30.5.5 77919 1io7A 368 2.02e+00 1f4tA a.104.1.1 18971 1l8dA 112 2.03e+00 h.4.12.1 73687 1jpxA 84 2.14e+00 h.3.2.1 71783 1oshA 232 2.25e+00 2lbd 267 2.39e+00 2lbd a.123.1.1 19287 4lbd 267 2.64e+00 2lbd a.123.1.1 19289 1rxwA 336 2.85e+00 1h96A 182 2.92e+00 2fha a.25.1.1 60811 1lb3A 182 3.08e+00 a.25.1.1 77873 1fdyA 297 4.10e+00 1nal3 c.1.10.1 29071 1nubA 229 4.11e+00 1sra a.39.1.3 17191 g.3.11.3 44330 g.15.1.1 44715 1qmqA 414 4.12e+00 1phd a.104.1.1 18907 1hl2A 297 4.32e+00 c.1.10.1 83581 1vj7A 393 4.39e+00 1rj1A 151 4.41e+00 1jraA 117 4.41e+00 a.24.15.1 67117 1e2xA 243 4.69e+00 1e2xA a.4.5.6 16113 a.78.1.1 18443 1apc 106 4.73e+00 256bA a.24.3.1 16543 1jr8A 117 5.23e+00 a.24.15.1 67115 5cpp 414 5.23e+00 1phd a.104.1.1 18935 1f5nA 592 5.95e+00 1dg3A a.114.1.1 19077 c.37.1.8 32152 1hw1A 239 6.36e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1keyA 235 6.59e+00 a.118.16.1 72389 1nal3 297 6.83e+00 1nal3 1dz4A 414 6.94e+00 1phd a.104.1.1 18903 1phg 414 7.01e+00 1phd a.104.1.1 18910 1scfA 273 7.27e+00 1exzA a.26.1.2 16873 1usuA 260 7.27e+00 1phd 414 7.40e+00 1phd a.104.1.1 18913 1e2aA 105 7.55e+00 1e2aA a.7.2.1 16322 1phb 414 7.59e+00 1phd a.104.1.1 18906 1qojA 63 7.74e+00 1qojA a.2.9.1 15716 1i4tB 224 7.76e+00 h.4.7.1 61730 2e2aA 105 7.84e+00 a.7.2.1 88499 1ir6A 424 7.97e+00 c.107.1.2 71342 1nal1 297 8.43e+00 1nal3 1dg3A 592 9.06e+00 1dg3A a.114.1.1 19078 c.37.1.8 32153 1oqcA 125 1.01e+01 a.24.15.1 87264 7aatA 401 1.09e+01 1ajsA c.67.1.1 34250 1h6oA 204 1.11e+01 a.146.1.1 60689 1eb6A 177 1.21e+01 d.92.1.12 64895 1i4lA 224 1.29e+01 1i49A h.4.7.1 61718 1kyqA 274 1.33e+01 c.2.1.11 73281 e.37.1.1 73282 1or4A 178 1.37e+01 1f4tA 368 1.44e+01 1f4tA a.104.1.1 18973 2ligA 164 1.45e+01 1vls a.24.2.1 16530 3ertA 261 1.45e+01 3erdA a.123.1.1 19292 1lkvX 232 1.60e+01 a.118.14.1 73980 1nhyA 219 1.65e+01 a.45.1.1 80520 c.47.1.5 80521 1ej6D 418 1.66e+01 i.7.1.1 45970 1jqiA 388 1.68e+01 a.29.3.1 67087 e.6.1.1 67088 1un8A 552 1.70e+01 1b43A 340 1.71e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1r2fA 319 1.71e+01 1r2fA a.25.1.2 16800 1mukA 1267 1.78e+01 e.8.1.4 79492 1orjA 130 1.84e+01 2mhr 118 1.88e+01 2mhr a.24.4.1 16581 1db1A 259 1.89e+01 1db1A a.123.1.1 19329 1i49A 224 1.93e+01 1i49A h.4.7.1 61679 1n7sA 63 1.93e+01 h.1.15.1 80271 1f1eA 154 1.95e+01 a.22.1.2 64927 1ewqA 765 1.96e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1i5nA 146 2.02e+01 1i5nA a.24.10.3 61805 1a32 88 2.02e+01 1a32 a.16.1.2 16384 1qazA 351 2.03e+01 1qazA a.102.3.1 18848 1orsC 132 2.03e+01 f.14.1.1 87353 1h72C 296 2.06e+01 d.14.1.5 60712 d.58.26.1 60713 1qf9A 194 2.08e+01 1zin c.37.1.1 31848 1jpzA 473 2.08e+01 a.104.1.1 67069 1tag 324 2.09e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1l0oA 150 2.18e+01 d.122.1.3 73403 1m1eB 81 2.20e+01 a.161.1.1 78400 1irdA 141 2.21e+01 a.1.1.2 66286 1i7gA 287 2.22e+01 a.123.1.1 71121 1l4aD 87 2.22e+01 h.1.15.1 73562 1tadA 324 2.23e+01 1cipA a.66.1.1 18194 c.37.1.8 32077 1abwA 283 2.23e+01 1abwA a.1.1.2 15288 a.1.1.2 15289 1fwkA 296 2.27e+01 1fwkA d.14.1.5 37576 d.58.26.1 39398 1hkxA 147 2.30e+01 d.17.4.7 83567 1o04A 500 2.32e+01 c.82.1.1 86508 1l2iA 261 2.39e+01 a.123.1.1 73503 1b4pA 217 2.45e+01 a.45.1.1 83158 c.47.1.5 83159 1j1jA 240 2.49e+01 1jk0B 345 2.53e+01 a.25.1.2 63143 1eumA 165 2.56e+01 1eumA a.25.1.1 59507 1vls 146 2.57e+01 1vls a.24.2.1 16532 1xsm 390 2.57e+01 1xsm a.25.1.2 16804 1hg4A 279 2.84e+01 1lbd a.123.1.1 19333 1dn1B 267 2.99e+01 1dn1B a.47.2.1 17771 1q5dA 419 3.00e+01 1pd21 199 3.08e+01 1pd21 1g7oA 215 3.13e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 5ukdA 194 3.21e+01 1zin c.37.1.1 31851 1oktA 211 3.24e+01 1kqlA 56 3.25e+01 h.1.5.1 72881 1rkeA 262 3.26e+01 1jm6A 407 3.27e+01 a.29.5.1 66876 d.122.1.4 66877 1ldg 316 3.27e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1jj2O 148 3.29e+01 1ffkM a.94.1.1 63100 1ec5A 50 3.40e+01 1ec5A k.8.1.1 46421 1obbA 480 3.42e+01 c.2.1.5 86760 d.162.1.2 86761 1n81A 186 3.49e+01 a.185.1.1 85388 1rprA 63 3.52e+01 1nkd a.30.1.1 16989 1t2dA 322 3.53e+01 1dvpA 220 3.54e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1fkmA 396 3.61e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1h0oA 390 3.67e+01 a.25.1.2 70845 1ie9A 259 3.73e+01 1db1A a.123.1.1 62318 1jm0A 50 3.73e+01 k.8.1.1 66870 1t5jA 313 3.81e+01 1ffkM 148 3.85e+01 1ffkM a.94.1.1 18740 1iv8A 720 3.92e+01 b.71.1.1 76842 c.1.8.1 76843 2occB 227 3.95e+01 2occB b.6.1.2 23027 f.17.2.1 43519 1gakA 141 3.96e+01 1gakA a.19.1.1 16415 1m2tA 254 3.98e+01 d.165.1.1 84761 1ddgA 374 3.99e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1r4wA 226 4.00e+01