# List of top-scoring protein chains for t04-100-30-bys-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 2f3yA 148 1.52e+00 1cvrA 435 1.69e+00 1cvrA b.1.18.12,c.17.1.2 21949,31006 1uohA 226 1.90e+00 d.211.1.1 99690 2g2cA 167 2.11e+00 1x0pA 143 2.40e+00 1exrA 148 2.88e+00 1cll a.39.1.5 17299 1ymkA 175 3.57e+00 1g4yR 148 3.62e+00 1cll a.39.1.5 60252 1xfxO 149 3.85e+00 2a2kA 175 4.46e+00 1an9A 340 4.68e+00 1an9A c.4.1.2,d.16.1.3 30617,37904 1mzhA 225 4.79e+00 c.1.10.1 79698 1se0A 116 5.14e+00 g.52.1.1 98814 1f60B 94 6.32e+00 1b64 d.58.12.1 39307 1oy3D 282 6.49e+00 d.211.1.1 87554 1qhdA 398 7.00e+00 1qhdA a.115.1.2,b.19.1.1 63324,63325 1ggzA 148 8.16e+00 a.39.1.5 70176 1zx5A 300 8.96e+00 1xtoA 311 9.51e+00 2au5A 139 9.60e+00 1kmqA 184 9.77e+00 c.37.1.8 84412 1f7cA 231 9.85e+00 1f7cA a.116.1.1 19107 1vhnA 318 9.95e+00 c.1.4.1 100693 1no7A 604 9.96e+00 e.48.1.1 92016 1ve9A 347 1.02e+01 c.4.1.2,d.16.1.3 100571,100572 1vdnA 162 1.03e+01 1m7bA 184 1.12e+01 c.37.1.8 74572 1vr5A 547 1.13e+01 1oaoC 729 1.18e+01 e.26.1.3 86746 1tx4B 178 1.21e+01 1ctqA c.37.1.8 32045 1nox 205 1.24e+01 1nox d.90.1.1 40242 1vk8A 106 1.31e+01 d.58.48.1 108636 1aa8A 347 1.34e+01 1an9A 1n0qA 93 1.37e+01 k.37.1.1 79754 1gtdA 85 1.38e+01 d.284.1.1 76344 1hh5A 68 1.55e+01 1new a.138.1.1 61041 2cw8A 537 1.60e+01 1vplA 256 1.62e+01 1nn7A 105 1.69e+01 d.42.1.2 85894 1qvcA 145 1.78e+01 3ullA b.40.4.3 25284 1ye8A 178 1.80e+01 1b1cA 181 1.84e+01 1amoA c.23.5.2 31212 1ot8A 239 1.84e+01 d.211.1.1 93507 2fbhA 146 1.90e+01 1gpr 162 1.93e+01 1gpr b.84.3.1 28267 2b3yA 888 1.93e+01 1v8bA 479 1.97e+01 1tc1A 220 2.02e+01 1tc1A c.61.1.1 34083 1ryoA 327 2.04e+01 c.94.1.2 98108 2fbaA 492 2.08e+01 1fxoA 293 2.16e+01 1g0rA c.68.1.6 34524 1a8e 329 2.18e+01 1cb6A c.94.1.2 35888 1n2fA 142 2.21e+01 d.227.1.1 79853 2bk7B 222 2.21e+01 2bo9B 222 2.21e+01 1oc0B 51 2.25e+01 g.64.1.1 86791 1ynfA 458 2.27e+01 2b25A 336 2.33e+01 1vd2A 89 2.35e+01 d.15.2.2 108517 1kyqA 274 2.36e+01 c.2.1.11,e.37.1.1 73281,73282 1mo0A 275 2.39e+01 c.1.1.1 79329 1lhpA 312 2.41e+01 c.72.1.5 77960 1vpdA 299 2.42e+01 1ayx 492 2.44e+01 1ayx a.102.1.1 18825 2cw6A 298 2.47e+01 1mh1 186 2.60e+01 1eesA c.37.1.8 32002 1avsA 90 2.60e+01 1cll a.39.1.5 17226 1d8hA 311 2.77e+01 1d8iA d.63.1.1 39544 1o7iA 119 2.77e+01 b.40.4.3 86642 1gx1A 160 2.94e+01 d.79.5.1 70675 1j5sA 463 3.04e+01 c.1.9.8 71580 1eo9B 241 3.12e+01 3pchM b.3.6.1 22826 1e4fT 419 3.15e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1rreA 200 3.21e+01 d.14.1.10 97791 1r5tA 142 3.22e+01 c.97.1.1 104812 2cy2A 174 3.24e+01 1m7gA 211 3.25e+01 c.37.1.4 78724 1mp9A 198 3.27e+01 d.129.1.1,d.129.1.1 91385,91386 1womA 271 3.30e+01 1qb0A 211 3.33e+01 1c25 c.46.1.1 32699 1qnxA 209 3.35e+01 1qnxA d.111.1.1 40914 2bl0B 145 3.38e+01 1y0vH 146 3.40e+01 1nriA 306 3.43e+01 c.80.1.3 86123 1fa0A 537 3.44e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1qo0D 196 3.54e+01 1qo0D c.23.1.3 31125 2ayuA 417 3.54e+01 1u9cA 224 3.54e+01 1i36A 264 3.58e+01 a.100.1.8,c.2.1.6 71108,71109 1v8gA 329 3.63e+01 a.46.2.1,c.27.1.1 100505,100506 2ftrA 108 3.65e+01 1g8aA 227 3.74e+01 c.66.1.3 90506 1ej8A 140 3.80e+01 1qupA b.1.8.1 22300 1ejdA 419 3.80e+01 1uae d.68.2.2 39576 1vljA 407 3.82e+01 e.22.1.2 108832 1lqtA 456 3.84e+01 c.3.1.1,c.4.1.1 74198,74199 1peqA 714 3.96e+01 a.98.1.1,c.7.1.2 104131,104132 1aqcA 172 3.97e+01 1x11A b.55.1.2 26983 1tn4 159 3.97e+01 1ncx a.39.1.5 17248 1vrpA 381 4.02e+01 1r45A 204 4.28e+01 1wmhA 89 4.31e+01 1n6aA 259 4.39e+01 b.76.2.1,b.85.7.1 80121,80122 1kekA 1231 4.48e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 2fgtA 417 4.48e+01 1y8oB 128 4.49e+01 1kmvA 186 4.54e+01 c.71.1.1 72757 1cznA 169 4.54e+01 1rcf c.23.5.1 31181 2c3mA 1231 4.59e+01 1of4A 179 4.62e+01 b.18.1.18 86932 1wvfA 520 4.64e+01 1w7jB 151 4.67e+01 2a61A 145 4.74e+01 1b0pA 1231 4.74e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 2bfdB 345 4.76e+01 1hjsA 332 4.77e+01 c.1.8.3 83492 1rijA 25 4.77e+01 k.32.1.1 104951 2c5aA 379 4.80e+01 1tg7A 971 5.00e+01 1c25 161 5.00e+01 1c25 c.46.1.1 32698 1pfzA 380 5.05e+01 1smrA b.50.1.2 26881 1jvsA 400 5.07e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1l0lA 446 5.07e+01 d.185.1.1,d.185.1.1 84482,84483 1jx2B 315 5.09e+01 c.37.1.8 67404 1oj7A 408 5.09e+01 e.22.1.2 103971 1ez0A 510 5.11e+01 1eyyA c.82.1.1 35385 1qoiA 177 5.14e+01 2cpl b.62.1.1 27490 2d00A 109 5.37e+01 1gq8A 319 5.51e+01 b.80.1.5 70350 1hqsA 423 5.54e+01 1iso c.77.1.1 61154 1oh4A 179 5.59e+01 b.18.1.18 92978 1ema 236 5.62e+01 1ema d.22.1.1 38339 1cdzA 96 5.65e+01 1cdzA c.15.1.1 30925 3znf 30 5.66e+01 g.37.1.1 45049 1x7yB 342 5.71e+01 2erxA 172 5.72e+01 1dtwB 342 5.74e+01 1qs0B c.36.1.7,c.48.1.2 31828,33102 1pxvA 183 5.76e+01 d.3.1.1 95301 2f69A 261 5.79e+01 1bi5A 389 5.84e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1jv2A 957 5.85e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1d1gA 168 5.89e+01 1d1gA c.71.1.1 34889 1pmy 123 5.96e+01 1bqk b.6.1.1 22888 1eluA 390 6.06e+01 1elqA c.67.1.3 34434 1elqA 390 6.11e+01 1elqA c.67.1.3 34436 1nxiA 132 6.14e+01 d.58.47.1 86381 1xesA 413 6.21e+01 1d2zB 153 6.23e+01 1d2zB a.77.1.2 18439 1u6rA 380 6.30e+01 2liv 344 6.42e+01 2liv c.93.1.1 35708 2axjA 242 6.45e+01 1xtnA 120 6.72e+01 1mp4A 292 6.77e+01 c.68.1.6 79376 2gw6A 123 6.93e+01 2fhwA 24 6.94e+01 1i88A 389 7.03e+01 c.95.1.2,c.95.1.2 66070,66071 1guzA 310 7.05e+01 c.2.1.5,d.162.1.1 65586,65587 2c4nA 250 7.05e+01 1o6uA 403 7.07e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1a8y 367 7.10e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1kicA 339 7.14e+01 c.70.1.1 72510 1dykA 394 7.19e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1czaN 917 7.21e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 2a9fA 398 7.23e+01 1kl1A 419 7.25e+01 c.67.1.4 72663 1y81A 138 7.37e+01 1li4A 432 7.38e+01 c.2.1.4,c.23.12.3 84616,84617 1j0sA 157 7.40e+01 b.42.1.2 90747 1ve2A 235 7.43e+01 1x3lA 440 7.44e+01 1senA 164 7.48e+01 c.47.1.1 105465 1xteA 154 7.51e+01 1xb2B 291 7.56e+01 1bd8 156 7.59e+01 1bd8 d.211.1.1 19157 1i2mA 216 7.61e+01 1byuA c.37.1.8 61568 1t17A 148 7.68e+01 1m32A 366 7.70e+01 c.67.1.3 78508 1zynA 202 7.72e+01 1y51A 88 7.78e+01 1z15A 344 7.79e+01 1qgoA 264 7.79e+01 1qgoA c.92.1.2 35596 1as4B 37 7.80e+01 1as4B 1r4yA 136 7.81e+01 d.1.1.3 97056 1m6dA 214 7.82e+01 d.3.1.1 84849 2fflA 756 7.84e+01 2bjrA 368 7.93e+01 1y4hA 188 7.95e+01 1b79A 119 7.96e+01 1b79A a.81.1.1 18451 2bkyA 97 8.02e+01 1ru3A 732 8.13e+01 e.26.1.3 97835 2esrA 177 8.17e+01 2lbp 346 8.21e+01 2liv c.93.1.1 35709 1rxxA 421 8.24e+01 d.126.1.4 98061 3lzt 129 8.41e+01 3lzt d.2.1.2 36245 2fliA 220 8.51e+01 1j9aA 184 8.54e+01 c.55.3.5 84135 1bqk 124 8.62e+01 1bqk b.6.1.1 22889 1uc2A 481 8.63e+01 d.261.1.1 99161 1maz 221 8.72e+01 1maz f.1.4.1 43393 1af3 196 8.78e+01 1maz f.1.4.1 43397