# List of top-scoring protein chains for t04-100-30-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 1ngvA 534 1.57e-02 c.111.1.2 85698 1ee6A 197 9.58e-02 1ee6A b.80.1.1 28024 1hv9A 456 1.76e-01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1czfA 362 2.13e-01 1czfA b.80.1.3 28031 1idk 359 2.19e-01 1qcxA b.80.1.2 28025 1mq7A 154 2.24e-01 b.85.4.1 79404 1qcxA 359 2.69e-01 1qcxA b.80.1.2 28028 1sixA 174 3.05e-01 b.85.4.1 -5030 1hg8A 349 3.38e-01 b.80.1.3 65830 1lf2A 331 3.66e-01 b.50.1.2 77914 1k5cA 335 5.15e-01 b.80.1.3 72076 1bywA 110 5.16e-01 1bywA d.110.3.6 40912 1n9pA 207 5.39e-01 b.1.18.16 80343 1j2gA 319 7.77e-01 1n9lA 109 8.25e-01 d.110.3.6 85468 1oroA 213 9.35e-01 1opr c.61.1.1 34093 1s5aA 150 9.69e-01 unknown_sccs -9300 1lmeA 176 1.23e+00 d.167.1.1 84629 1e79G 272 1.30e+00 1e79G c.49.2.1 33158 1n67A 359 1.32e+00 b.2.3.4 85354 b.2.3.4 85355 1d3bA 75 1.62e+00 1d3bA b.38.1.1 24798 1rmg 422 1.65e+00 1rmg b.80.1.3 28029 1nhcA 336 1.68e+00 b.80.1.3 -4768 1ac5 483 1.79e+00 1ac5 c.69.1.5 34653 1pfzA 380 2.15e+00 1smrA b.50.1.2 26881 1dun 134 2.33e+00 1dun b.85.4.1 28371 1v6fA 151 2.44e+00 1mpp 361 2.54e+00 2rmpA b.50.1.2 26856 1euaA 213 2.56e+00 1fwrA c.1.10.1 29155 1h6kZ 98 2.64e+00 d.58.7.1 60686 1o22A 170 2.73e+00 d.238.1.1 86557 1pz4A 116 2.81e+00 d.106.1.1 -10780 1f7dA 136 2.84e+00 1dun b.85.4.1 28353 1xvaA 292 2.88e+00 1xvaA c.66.1.5 34183 1iqrA 420 2.92e+00 a.99.1.1 66275 c.28.1.1 66276 1vzoA 355 2.99e+00 1e42A 258 2.99e+00 1e42A b.1.10.1 22316 d.105.1.1 40792 1ln1A 214 3.04e+00 d.129.3.2 74038 1p9qC 256 3.22e+00 1dqtA 117 3.76e+00 1ah1 b.1.1.1 20653 1bo1A 416 3.81e+00 1bo1A d.143.1.2 41591 1r2zA 274 4.19e+00 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1ounA 127 4.21e+00 1ounA d.17.4.2 38090 1mv8A 436 4.36e+00 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1gbg 214 4.79e+00 1axkA b.29.1.2 24171 1phm 310 4.81e+00 1phm b.121.1.2 59015 b.121.1.2 59016 1qw2A 102 5.41e+00 unknown_sccs -9601 1f8eA 388 5.51e+00 2qwc b.68.1.1 59694 1i0vA 104 5.52e+00 9rnt d.1.1.4 36054 1gy6A 127 5.53e+00 d.17.4.2 70736 1kcxA 518 5.54e+00 b.92.1.3 -5074 c.1.9.6 -5426 1ptmA 329 5.85e+00 unknown_sccs -8456 1cruA 454 6.17e+00 1c9uA b.68.2.1 27617 1kk1A 410 6.19e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1lh0A 213 6.30e+00 c.61.1.1 73896 1l1zA 274 6.36e+00 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 2madH 373 6.42e+00 2bbkH b.69.2.1 27639 1vavA 222 6.46e+00 2eifA 136 6.65e+00 1bkb b.34.5.2 24607 b.40.4.5 25339 1nox 205 6.80e+00 1nox d.90.1.1 40242 1ia8A 289 6.86e+00 1ia8A d.144.1.7 62112 1gcyA 527 6.86e+00 1jdc b.71.1.1 27788 c.1.8.1 28775 1e5kA 201 7.11e+00 1fr9A c.68.1.8 34578 1hnjA 317 7.17e+00 1hn9A c.95.1.1 35969 c.95.1.1 35970 1sdwA 314 7.25e+00 b.121.1.2 -3024 b.121.1.2 -3025 1gq8A 319 7.37e+00 b.80.1.5 70350 1s0yA 76 7.40e+00 d.80.1.1 -10434 1oewA 329 7.93e+00 b.50.1.2 86924 1l0sA 90 8.26e+00 b.81.2.1 73408 1nofA 383 8.95e+00 b.71.1.2 -4668 c.1.8.3 -5339 1ieaA 192 9.37e+00 1iakA b.1.1.2 21631 d.19.1.1 38205 1ospO 257 9.53e+00 1ospO b.76.1.1 27971 1ush 550 9.88e+00 1ush d.114.1.1 40923 d.159.1.2 42079 1oz9A 150 9.92e+00 unknown_sccs -10588 1cx4A 305 9.95e+00 b.82.3.2 59099 b.82.3.2 59100 1jovA 270 1.03e+01 b.30.5.7 84192 1vknA 351 1.05e+01 1cr5A 189 1.07e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1v9mA 323 1.09e+01 unknown_sccs -12292 2er7E 330 1.10e+01 2er7E b.50.1.2 26779 1vjqA 79 1.13e+01 unknown_sccs -13478 1t95A 240 1.17e+01 1e19A 314 1.19e+01 1b7bA c.73.1.1 34967 1hp1A 516 1.20e+01 d.114.1.1 70976 d.159.1.2 70977 1iz5A 249 1.21e+01 d.131.1.2 83834 d.131.1.2 83835 1jtaA 361 1.22e+01 b.80.1.1 71859 1eq2A 310 1.22e+01 1eq2A c.2.1.2 29814 1bv1 159 1.24e+01 1bv1 d.129.3.1 41313 1q9uA 130 1.30e+01 unknown_sccs -11025 1nngA 153 1.32e+01 d.38.1.1 -9636 1ep0A 185 1.34e+01 1dzrA b.82.1.1 28080 1r5zA 323 1.37e+01 unknown_sccs -12289 1jmvA 141 1.38e+01 c.26.2.4 66897 1njhA 119 1.40e+01 b.128.1.1 85787 1avgI 142 1.46e+01 1avgI b.60.1.3 27229 1grj 158 1.51e+01 1grj a.2.1.1 15691 d.26.1.2 38433 1ppfE 218 1.51e+01 1a7s b.47.1.2 26234 1gx1A 160 1.52e+01 d.79.5.1 70675 1qhoA 686 1.53e+01 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1r17A 343 1.55e+01 b.2.3.4 -2870 b.2.3.4 -2871 1mq4A 272 1.57e+01 d.144.1.7 -11349 1pe9A 361 1.58e+01 b.80.1.1 -4765 2ayh 214 1.59e+01 1axkA b.29.1.2 24172 1n0xH 230 1.59e+01 b.1.1.1 -2201 b.1.1.2 -2473 1smvA 260 1.59e+01 1smvA b.121.4.7 23288 1opr 213 1.61e+01 1opr c.61.1.1 34091 1thm 279 1.64e+01 1gci c.41.1.1 32544 1i1iP 681 1.66e+01 1i1iP d.92.1.5 40297 1mrzA 293 1.68e+01 b.43.5.1 -4048 c.26.1.3 -6616 1g99A 408 1.68e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1fw9A 164 1.71e+01 1fw9A d.190.1.1 60059 2mprA 421 1.76e+01 2mprA f.4.3.2 43788 1qynA 153 1.77e+01 d.33.1.1 -9585 1k4mA 213 1.78e+01 c.26.1.3 77258 1hfoA 113 1.79e+01 d.80.1.3 61006 1qhdA 398 1.83e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 1js8A 394 1.84e+01 a.86.1.1 67219 b.112.1.1 67220 1cc1L 498 1.86e+01 1h2rL e.18.1.1 43301 1rcqA 357 1.87e+01 1air 353 1.94e+01 1air b.80.1.1 28018 1s1pA 331 1.94e+01 c.1.7.1 -5240 1dmhA 311 1.97e+01 1dmhA b.3.6.1 22633 2sak 121 1.99e+01 2sak d.15.5.1 37711 1mqoA 227 2.03e+01 2bc2A 227 2.09e+01 1a7tA d.157.1.1 42031 1hm9A 468 2.11e+01 b.81.1.4 65866 c.68.1.5 65867 1h65A 270 2.11e+01 c.37.1.8 65640 1nzaA 103 2.15e+01 d.58.5.2 86444 1dazC 99 2.17e+01 1hvc b.50.1.1 26501 1v7oA 165 2.22e+01 unknown_sccs -10249 1gw0A 559 2.23e+01 b.6.1.3 70623 b.6.1.3 70624 b.6.1.3 70625 1vhoA 346 2.25e+01 unknown_sccs -4283 c.56.5.4 -7893 3prn 289 2.33e+01 3prn f.4.3.1 43761 1sv6A 269 2.34e+01 2nlrA 234 2.36e+01 2nlrA b.29.1.11 24344 1gcqA 61 2.36e+01 1ckaA b.34.2.1 60434 1vi7A 217 2.37e+01 unknown_sccs -9115 unknown_sccs -10052 1o88A 353 2.38e+01 b.80.1.1 81178 1bpoA 494 2.38e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1ei5A 520 2.39e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1i31A 314 2.39e+01 1bw8A b.2.7.1 22481 1kv9A 668 2.45e+01 a.3.1.6 73056 b.70.1.1 73057 1gnuA 117 2.45e+01 d.15.1.3 65403 1rds 105 2.47e+01 9rnt d.1.1.4 36236 1hmt 132 2.51e+01 1hmt b.60.1.2 27169 1j0aA 325 2.55e+01 c.79.1.1 83871 1souA 194 2.60e+01 1luzA 88 2.61e+01 b.40.4.5 74271 1bolA 222 2.65e+01 1bolA d.124.1.1 41120 1oa4A 222 2.66e+01 b.29.1.11 86731 1snzA 344 2.67e+01 b.30.5.4 -3496 1fx3A 169 2.68e+01 1fx3B d.33.1.1 38524 1pbyA 489 2.69e+01 a.3.1.7 -178 a.3.1.7 -179 b.1.18.14 -2762 b.1.18.14 -2763 b.61.4.1 -4528 1je5A 206 2.72e+01 1je5A b.40.4.7 62909 1kewA 361 2.76e+01 c.2.1.2 68544 1fbr 93 2.79e+01 1fbr g.27.1.1 44948 g.27.1.1 44949 1ewfA 456 2.80e+01 1bp1 d.83.1.1 40024 d.83.1.1 40025 1bxoA 323 2.84e+01 2er7E b.50.1.2 26805 1kw3B 292 2.85e+01 d.32.1.3 77549 d.32.1.3 77550 1g0xA 197 2.85e+01 1nkr b.1.1.4 21805 b.1.1.4 21806 1lvoA 302 2.92e+01 b.47.1.4 74284 1fiqC 763 2.92e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1owqA 361 2.93e+01 1pkhA 204 2.96e+01 b.85.4.1 -5053 3pcgM 238 3.20e+01 3pchM b.3.6.1 22742 1nh0A 99 3.22e+01 b.50.1.1 -4299 1uhvA 500 3.23e+01 b.71.1.2 -4683 c.1.8.3 -5354 1vns 609 3.24e+01 1vns a.111.1.3 19061 1umdA 367 3.25e+01 c.36.1.11 -6969 1nqjA 119 3.26e+01 b.23.2.1 86031 1idaA 99 3.27e+01 1fmb b.50.1.1 26715 1n8fA 350 3.28e+01 c.1.10.4 85397 1lf7A 182 3.34e+01 b.60.1.1 73878 1c9oA 66 3.36e+01 1mjc b.40.4.5 25325 1dymA 402 3.38e+01 1celA b.29.1.10 24304 1k4iA 233 3.39e+01 d.115.1.2 72056 1bbpA 173 3.47e+01 1bbpA b.60.1.1 27147 1hn0A 1021 3.59e+01 a.102.3.2 83616 b.18.1.17 83617 b.24.1.1 83618 b.30.5.2 83619 1o0pA 104 3.68e+01 d.58.7.1 86535 1fm4A 159 3.74e+01 1bv1 d.129.3.1 76186 1ojjA 402 3.75e+01 b.29.1.10 -3473 1pbjA 125 3.79e+01 d.37.1.1 -9608 d.37.1.1 -9609 1k6wA 426 3.79e+01 b.92.1.2 68236 c.1.9.5 68237 1j71A 334 3.82e+01 1eagA b.50.1.2 62669 1m26A 133 3.83e+01 1h80A 464 3.85e+01 b.80.1.8 65714 1gpqA 135 3.94e+01 d.233.1.1 83295 1c4xA 285 3.96e+01 1c4xA c.69.1.10 34684 1xxaA 78 3.98e+01 1xxaA d.74.2.1 39700