# List of top-scoring protein chains for t06-100-30-alpha-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 2gvkA 317 1.41e-41 1omzA 293 2.01e-01 c.68.1.15 87093 1o12A 376 6.90e-01 b.92.1.5,c.1.9.10 80758,80759 1o08A 221 7.43e-01 c.108.1.6 86525 1rlhA 173 7.61e-01 d.256.1.1 97646 1chmA 401 7.76e-01 1chmA c.55.2.1,d.127.1.1 33545,41142 1e8cA 498 8.57e-01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1x1nA 524 9.27e-01 1t0tV 248 9.40e-01 d.58.4.10 106229 3gcb 470 1.08e+00 3gcb d.3.1.1 37032 1fm0E 150 1.19e+00 1fmaE d.41.5.1 38629 2bkyX 89 1.36e+00 2cb2A 318 1.55e+00 1vdwA 254 1.65e+00 e.7.1.1 100569 1r8gA 372 1.87e+00 d.128.1.3 104845 1xkrA 206 2.22e+00 1wu4A 396 2.44e+00 1zdzA 302 2.46e+00 1mp9A 198 3.31e+00 d.129.1.1,d.129.1.1 91385,91386 2cg4A 152 3.89e+00 1uxtA 501 4.03e+00 c.82.1.1 108125 1vkwA 218 4.38e+00 d.90.1.2 108695 2aalA 131 4.48e+00 1j27A 102 4.48e+00 d.58.50.1 90778 1kaeA 434 4.95e+00 c.82.1.2 72247 1tz0A 114 4.99e+00 d.58.4.5 107463 1sfe 180 5.33e+00 1sfe a.4.2.1,c.55.7.1 16073,33748 1ppjA 446 5.36e+00 d.185.1.1,d.185.1.1 104252,104253 1fp1D 372 5.87e+00 1fpqA a.4.5.29,c.66.1.12 59939,59940 1yb2A 275 6.05e+00 1e9rA 437 6.17e+00 c.37.1.11 64827 1moq 368 6.36e+00 1moq c.80.1.1 35302 1r89A 437 6.39e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1ag9A 175 6.39e+00 1rcf c.23.5.1 31178 1l1sA 113 6.39e+00 c.114.1.1 73484 1uf2A 1019 6.79e+00 e.28.1.2 99289 1vrmA 325 7.08e+00 1wruA 379 7.14e+00 1ow1A 195 7.22e+00 b.131.1.3 93625 1j58A 385 7.27e+00 b.82.1.2 71531 2bklA 695 7.36e+00 1x7oA 287 7.54e+00 1ys4A 354 7.83e+00 1tk9A 188 8.30e+00 c.80.1.3 107082 2f1kA 279 8.35e+00 1ovlA 271 8.61e+00 a.123.1.1 87455 2bjqA 345 8.80e+00 1jeoA 180 8.90e+00 c.80.1.3 66611 1id1A 153 9.12e+00 1id1A c.2.1.9 62286 1iq4A 179 9.44e+00 1iq4A d.77.1.1 62641 1wxxA 382 9.61e+00 1vggA 161 1.02e+01 2b8nA 429 1.05e+01 2bgiA 272 1.05e+01 2gn4A 344 1.08e+01 1opc 110 1.19e+01 1opc a.4.6.1 16231 1hbnC 248 1.21e+01 1mroC d.58.31.1 60902 1wi1A 126 1.21e+01 2gfhA 260 1.21e+01 1wu7A 434 1.22e+01 1nw3A 416 1.22e+01 c.66.1.31 86288 1mml 265 1.23e+01 1mml e.8.1.2 43015 2f57A 317 1.25e+01 1grj 158 1.25e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1p7tA 731 1.27e+01 c.1.13.1 94319 1yirA 408 1.28e+01 1x72A 334 1.28e+01 d.126.1.6 109495 1tqyB 415 1.29e+01 c.95.1.1,c.95.1.1 107247,107248 2b67A 204 1.30e+01 1jmsA 381 1.30e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1rv9A 259 1.33e+01 d.194.1.2 105105 1w5fA 353 1.34e+01 1xkpC 143 1.36e+01 1afwA 393 1.37e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1gsa 316 1.37e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1kwgA 645 1.41e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1v9mA 323 1.42e+01 f.40.1.1 100543 1t1dA 100 1.43e+01 1t1dA d.42.1.2 38637 2dlbA 80 1.43e+01 1euhA 475 1.44e+01 1euhA c.82.1.1 35369 1qwrA 319 1.44e+01 b.82.1.3 96491 1ki1B 352 1.45e+01 a.87.1.1,b.55.1.1 72497,72498 1o20A 427 1.47e+01 c.82.1.1 86556 1m3sA 186 1.47e+01 c.80.1.3 78573 1odmA 331 1.48e+01 b.82.2.1 86875 1djxA 624 1.50e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1iirA 415 1.50e+01 1iirA c.87.1.5 62453 1u8xX 472 1.56e+01 c.2.1.5,d.162.1.2 107741,107742 1hc7A 477 1.58e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1cs6A 382 1.59e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1qhfA 240 1.59e+01 1qhfA c.60.1.1 33960 2cmuA 342 1.61e+01 1q2lA 939 1.63e+01 1z7gA 217 1.67e+01 1vprA 374 1.69e+01 1up8A 598 1.70e+01 a.111.1.2 99710 1hfuA 503 1.70e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1ni4B 341 1.71e+01 c.36.1.7,c.48.1.2 85729,85730 1bia 321 1.71e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1n8fA 350 1.74e+01 c.1.10.4 85397 1eu8A 409 1.77e+01 1eu8A c.94.1.1 59502 1sc6A 404 1.78e+01 1sgvA 316 1.80e+01 b.122.1.1,d.265.1.2 98858,98859 2c6cA 707 1.80e+01 1kmvA 186 1.82e+01 c.71.1.1 72757 1f0kA 364 1.92e+01 1f0kA c.87.1.2 35465 1ugpA 203 2.00e+01 d.149.1.1 107831 2gnpA 266 2.04e+01 2fjlA 150 2.04e+01 1x7yB 342 2.13e+01 2cxhA 217 2.14e+01 1ofdA 1520 2.19e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1v5vA 401 2.30e+01 1fo8A 343 2.32e+01 1foaA c.68.1.10 59927 1wvqA 167 2.32e+01 1f1xA 322 2.32e+01 d.32.1.3,d.32.1.3 83208,83209 1jpzA 473 2.39e+01 a.104.1.1 67069 1wz8A 264 2.41e+01 1f1uA 323 2.45e+01 d.32.1.3,d.32.1.3 83200,83201 1d2mA 665 2.46e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1b4bA 71 2.48e+01 1b4aA d.74.2.1 39718 1hy7A 173 2.49e+01 d.92.1.11 65957 1a6jA 163 2.50e+01 1a6jA d.112.1.1 40915 1uuyA 167 2.57e+01 c.57.1.1 108059 1h8eG 272 2.60e+01 1e79G c.49.2.1 60756 2a1iA 146 2.62e+01 2fnjB 118 2.68e+01 1uc2A 481 2.71e+01 d.261.1.1 99161 1dpgA 485 2.72e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1tt8A 164 2.72e+01 2fyxA 143 2.73e+01 1su8A 636 2.74e+01 e.26.1.2 98999 2bfdB 345 2.78e+01 4ubpC 570 2.82e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1vybA 238 2.82e+01 d.151.1.1 108897 1jayA 212 2.84e+01 c.2.1.6 66478 1f45B 197 2.86e+01 1f45B a.26.1.1 59642 1fj2A 232 2.87e+01 1auoA c.69.1.14 34720 1ftrA 296 2.88e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1d4xG 126 2.92e+01 1d0nA d.109.1.1 59109 1zjcA 418 2.95e+01 1csh 435 2.99e+01 1csh a.103.1.1 18880 1v4pA 157 3.01e+01 1k4zA 159 3.05e+01 b.80.5.1 72070 1c4oA 664 3.07e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1twuA 139 3.10e+01 d.32.1.8 107413 1e2kA 331 3.13e+01 1qhiA c.37.1.1 31854 1yr2A 741 3.15e+01 1lopA 164 3.27e+01 2cpl b.62.1.1 27510 1rf8B 100 3.28e+01 a.210.1.1 97371 1jztA 246 3.30e+01 c.104.1.1 63319 1uyrA 737 3.31e+01 c.14.1.4,c.14.1.4 100188,100189 2pgd 482 3.32e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1rm8A 169 3.37e+01 d.92.1.11 97660 1a8d 452 3.40e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1ofuX 119 3.41e+01 c.37.1.22 86976 1t4hA 290 3.46e+01 d.144.1.7 106420 2a5dA 175 3.47e+01 1esc 306 3.49e+01 1esc c.23.10.1 31334 1vjqA 79 3.49e+01 k.43.1.1 100830 1gnxA 479 3.50e+01 c.1.8.4 76241 1vr8A 142 3.51e+01 2c2aA 258 3.53e+01 1aqcA 172 3.55e+01 1x11A b.55.1.2 26983 1adt 356 3.55e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 2ftrA 108 3.56e+01 1lm8B 118 3.57e+01 d.15.1.1 74033 1yyaA 250 3.57e+01 1u53A 196 3.58e+01 1dsxA 87 3.58e+01 1t1dA d.42.1.2 38644 2ck3G 272 3.59e+01 1jakA 512 3.60e+01 c.1.8.6,d.92.2.1 66472,66473 2b5eA 504 3.63e+01 2gaxA 135 3.69e+01 1l1qA 186 3.71e+01 c.61.1.1 77653 1y0hA 105 3.85e+01 1wiwA 290 3.88e+01 1oe4A 247 3.89e+01 c.18.1.3 86895 1u6rA 380 3.90e+01 2g2dA 193 3.90e+01 1rkiA 102 3.90e+01 1q4rA 112 3.92e+01 d.58.4.4 95823 1ev2E 220 3.93e+01 1cvsC b.1.1.4,b.1.1.4 21738,21739 1wn5A 130 3.97e+01 1dz3A 130 4.00e+01 1dz3A c.23.1.1 31105 1vlbA 907 4.01e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2chnA 716 4.02e+01 1xvaA 292 4.04e+01 1xvaA c.66.1.5 34183 1kjnA 157 4.06e+01 c.115.1.1 72614 1f0xA 571 4.09e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1w2xA 758 4.12e+01 c.14.1.4,c.14.1.4 109134,109135 1jysA 242 4.15e+01 c.56.2.1 77216 2g8lA 299 4.18e+01 1kq6A 141 4.19e+01 d.189.1.1 91020 1f4pA 147 4.19e+01 5nul c.23.5.1 59651 1zxxA 319 4.20e+01 1bkpA 278 4.22e+01 1bkpA d.117.1.1 41029 1w2fA 276 4.39e+01 d.143.1.3 109125 1g2oA 268 4.43e+01 1b8oA c.56.2.1 60228 2fug7 129 4.45e+01 1ufkA 254 4.45e+01 c.66.1.39 99340 1ve6A 582 4.45e+01 1ezfA 340 4.47e+01 1ezfA a.128.1.2 19440 1ea7A 310 4.47e+01 c.41.1.1 70086 8dfr 189 4.51e+01 1aoeA c.71.1.1 34895 1nnwA 252 4.52e+01 d.159.1.5 80674 1jyhA 157 4.55e+01 d.60.1.3 71956 1ejxC 567 4.62e+01 b.92.1.1,c.1.9.2 83184,83185 1q1aA 289 4.64e+01 c.31.1.5 95561 1o97D 320 4.69e+01 c.26.2.3,c.31.1.2 81233,81234 1cs8A 316 4.69e+01 1cs8A d.3.1.1 37065 2adzA 178 4.83e+01 1q0pA 223 4.88e+01 c.62.1.1 95507 1uj6A 227 4.94e+01 c.124.1.4,d.58.40.1 107898,107899 1xjcA 169 4.95e+01 1jg1A 235 4.97e+01 c.66.1.7 66661 1ht6A 405 4.99e+01 b.71.1.1,c.1.8.1 83629,83630 1q7sA 117 5.00e+01 c.131.1.1 96055 1sq5A 308 5.04e+01 c.37.1.6 105882 1efdN 266 5.06e+01 1efdN c.92.2.1 35597 2bmfA 451 5.07e+01 1epuA 591 5.09e+01 1dn1A e.25.1.1 43358 1g8kA 825 5.10e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1pch 88 5.11e+01 1ptf d.94.1.1 40564 1ntyA 311 5.13e+01 a.87.1.1,b.55.1.1 103873,103874 1xizA 159 5.16e+01 1uzeA 589 5.18e+01 d.92.1.5 108174 1yyqA 374 5.19e+01 1zkpA 268 5.28e+01 1svdA 473 5.36e+01 1fjgJ 105 5.39e+01 1fjfJ d.58.15.1 39330 1sg6A 393 5.45e+01 e.22.1.1 105522 1in0A 163 5.58e+01 d.58.49.1,d.58.49.1 83694,83695 2bbsA 290 5.58e+01 1ud9A 245 5.59e+01 d.131.1.2,d.131.1.2 107768,107769 1ss9A 311 5.61e+01 c.68.1.4 105978 1stzA 338 5.66e+01 a.4.5.51,d.110.2.3 106009,106010 1rypD 241 5.67e+01 1rypD d.153.1.4 41935 1budA 197 5.68e+01 1atlA d.92.1.9 40328 1nriA 306 5.69e+01 c.80.1.3 86123 1z7lA 276 5.69e+01 1l8bA 190 5.74e+01 d.86.1.1 73683 1lq9A 112 5.79e+01 d.58.4.3 78129 2fkkA 206 5.80e+01 1y8aA 332 5.82e+01 2ffuA 501 5.82e+01 1eluA 390 5.82e+01 1elqA c.67.1.3 34434 3tdt 274 5.82e+01 3tdt b.81.1.2 28053 7aatA 401 5.85e+01 1ajsA c.67.1.1 34250 1w9yA 319 5.87e+01 2ahuA 531 5.88e+01 2ew2A 316 5.88e+01 1gbg 214 5.96e+01 1axkA b.29.1.2 24171 1h1dA 221 5.96e+01 c.66.1.1 83452 1pvdA 537 5.99e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1mucA 373 5.99e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1pc6A 146 6.00e+01 d.262.1.1 94430 1q79A 514 6.04e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1iznB 277 6.04e+01 e.43.1.2 83848 1vp8A 201 6.07e+01 1v3yA 192 6.08e+01 1xtyA 120 6.14e+01 1xuuA 349 6.15e+01 1zh5A 195 6.20e+01 1o5zA 442 6.23e+01 c.59.1.2,c.72.2.2 92530,92531 1epxA 370 6.30e+01 1fbaA c.1.10.1 29150 1dg6A 191 6.31e+01 1d4vB b.22.1.1 23883 1wkcA 184 6.34e+01 1kv7A 488 6.34e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1s9rA 410 6.39e+01 d.126.1.4 98758 1rq2A 382 6.42e+01 c.32.1.1,d.79.2.1 105048,105049 1n83A 270 6.49e+01 a.123.1.1 80276 1j3aA 142 6.53e+01 c.21.1.1 77070 1rwzA 245 6.57e+01 d.131.1.2,d.131.1.2 98005,98006 1hf2A 210 6.57e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 2amlA 373 6.59e+01 1q77A 138 6.63e+01 c.26.2.4 96023 1aihA 170 6.63e+01 1aihA d.163.1.1 42149 1vi2A 300 6.64e+01 c.2.1.7,c.58.1.5 100726,100727 1gteA 1025 6.67e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1tl9A 339 6.68e+01 1vl4A 447 6.68e+01 d.283.1.1 108718 2atzA 180 6.71e+01 1u04A 771 6.72e+01 b.34.14.1,c.55.3.10 107539,107540 1w61A 414 6.72e+01 1sacA 204 6.74e+01 1sacA b.29.1.5 24237 1jfrA 262 6.76e+01 1jfrA c.69.1.16 34724 2a1vA 144 6.79e+01 1t8hA 277 6.81e+01 d.194.1.2 106664 2a61A 145 6.86e+01 2cxaA 256 6.88e+01 1uwkA 557 6.88e+01 e.51.1.1 108065 1heiA 451 6.91e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1ga8A 311 6.93e+01 1ga8A c.68.1.4 34516 2f8mA 244 7.02e+01 1yxmA 303 7.05e+01 1g5hA 454 7.10e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1qwiA 143 7.14e+01 d.227.1.1 96474 1z3eA 132 7.15e+01 1pht 85 7.18e+01 1ckaA b.34.2.1 24483 1kk1A 410 7.18e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1sheA 103 7.18e+01 d.274.1.1 105551 2fflA 756 7.20e+01 1rwtA 232 7.20e+01 f.43.1.1 97992 1vl2A 421 7.21e+01 c.26.2.1,d.210.1.1 108708,108709 2byoA 207 7.27e+01 1ys1X 320 7.29e+01 3pmgA 561 7.32e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1h09A 338 7.34e+01 b.109.1.1,c.1.8.8 83420,83421 2d5cA 263 7.41e+01 2c30A 321 7.43e+01 1wlzA 105 7.46e+01 1zejA 293 7.49e+01 2ddfA 257 7.50e+01 2b1xA 470 7.52e+01 1pv5A 264 7.56e+01 d.251.1.1 95150 1j7xA 302 7.57e+01 c.14.1.2 66425 1vqsA 116 7.61e+01 1i1qA 520 7.61e+01 1qdlA d.161.1.1 61543 1g2qA 187 7.63e+01 c.61.1.1 65117 1jeyB 565 7.64e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1dl5A 317 7.68e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1eteA 134 7.68e+01 1eteA a.26.1.2 16869 1wpoA 256 7.69e+01 1lay b.57.1.1 27012 2bbeA 108 7.70e+01 1vj7A 393 7.70e+01 a.211.1.1,d.218.1.8 100801,100802 1wosA 364 7.70e+01 b.44.2.1,d.250.1.1 109468,109469 1btkA 169 7.71e+01 1btkA b.55.1.1 26959 2bhwA 232 7.72e+01 1e8yA 966 7.73e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1ka1A 357 7.77e+01 e.7.1.1 68369 2go8A 122 7.79e+01 2gf6A 135 7.91e+01 1nz0A 118 7.94e+01 d.14.1.2 86433 2acaA 189 7.96e+01 1ydmA 187 7.97e+01 1w70A 60 7.98e+01 1dciA 275 8.04e+01 1dciA c.14.1.3 30918 1yb3A 175 8.06e+01 1uzbA 516 8.08e+01 c.82.1.1 100220 2ilk 160 8.08e+01 2ilk a.26.1.3 16885 1fviA 297 8.10e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 1o9iA 266 8.15e+01 a.25.1.3 92671 1kxqE 120 8.16e+01 b.1.1.1 73171 1cjxA 357 8.20e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1nnhA 294 8.27e+01 d.104.1.1 92005 1x9iA 302 8.31e+01 1y08A 323 8.38e+01 1vehA 92 8.40e+01 1wloA 136 8.40e+01 2dri 271 8.49e+01 2dri c.93.1.1 35637 2aioA 269 8.50e+01 2faoA 309 8.52e+01 1z54A 132 8.55e+01 1o5xA 248 8.56e+01 c.1.1.1 92528 1wr8A 231 8.58e+01 1hi9A 274 8.62e+01 1hi9A c.99.1.1 61063 1vb5A 276 8.68e+01 1cznA 169 8.76e+01 1rcf c.23.5.1 31181 1gqiA 708 8.77e+01 c.1.8.10,d.92.2.2 76279,76280 1uwvA 433 8.79e+01 b.40.4.12,c.66.1.40 100128,100129 1lm4A 194 8.80e+01 d.167.1.1 84626 1lqvA 193 8.94e+01 d.19.1.1 74206 1yzyA 413 8.99e+01 1o2dA 371 8.99e+01 e.22.1.2 86591