# List of top-scoring protein chains for T0315.t2k-w0.5 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 1j6oA 268 5.73e-34 c.1.9.12 77088 1yixA 265 1.10e-33 1xwyA 264 3.10e-31 1zzmA 259 3.54e-31 1p6bA 336 3.22e-02 c.1.9.3 94163 2d2jA 329 8.79e-02 1dpmA 329 1.08e-01 1pscA c.1.9.3 29062 1eywA 331 1.08e-01 1pscA c.1.9.3 29057 1pta 327 1.08e-01 1pscA c.1.9.3 29064 1i0dA 332 1.08e-01 1pscA c.1.9.3 61487 1jgmA 336 1.08e-01 1pscA c.1.9.3 62953 1pscA 365 1.12e-01 1pscA c.1.9.3 29058 1qw7A 336 1.28e-01 1p1mA 406 1.36e-01 b.92.1.4,c.1.9.9 87696,87697 1j6pA 418 1.37e-01 b.92.1.4,c.1.9.9 77089,77090 1ynyA 461 7.13e-01 1k1dA 460 7.85e-01 b.92.1.3,c.1.9.6 71979,71980 1kcxA 518 1.49e+00 b.92.1.3,c.1.9.6 90953,90954 1e9zB 569 1.88e+00 b.92.1.1,c.1.9.2 64852,64853 1xrtA 467 2.27e+00 1a5kC 566 2.48e+00 1ubpC b.92.1.1,c.1.9.2 28425,29047 1j57A 143 2.87e+00 d.221.1.1 77079 1e89A 262 3.57e+00 1qj4A c.69.1.20 59375 1dwqA 262 3.78e+00 1qj4A c.69.1.20 34808 1dwoA 262 4.06e+00 1qj4A c.69.1.20 34804 1eb8A 262 4.28e+00 c.69.1.20 64896 1bf6A 291 4.93e+00 1pscA c.1.9.3 29065 1uuqA 440 5.13e+00 c.1.8.3 100015 4ubpC 570 5.32e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 1ie7C 570 5.46e+00 1ubpC b.92.1.1,c.1.9.2 62315,62316 1fwfC 567 5.80e+00 1ubpC b.92.1.1,c.1.9.2 28406,29028 1ef2A 566 5.80e+00 1ubpC b.92.1.1,c.1.9.2 28429,29051 1ejuC 567 5.83e+00 1ubpC b.92.1.1,c.1.9.2 28422,29044 1ejvC 567 5.83e+00 1ubpC b.92.1.1,c.1.9.2 28428,29050 1ejxC 567 5.85e+00 b.92.1.1,c.1.9.2 83184,83185 1krcC 567 5.85e+00 1ubpC b.92.1.1,c.1.9.2 28419,29041 1fwgC 567 5.86e+00 1ubpC b.92.1.1,c.1.9.2 28413,29035 1fwcC 567 5.86e+00 1ubpC b.92.1.1,c.1.9.2 28410,29032 1fwhC 567 5.87e+00 1ubpC b.92.1.1,c.1.9.2 28414,29036 2a84A 300 5.95e+00 1lf1A 308 6.23e+00 c.1.8.3 73877 2fp4A 305 6.27e+00 1gyxA 76 6.50e+00 d.80.1.1 76387 1gkpA 458 6.61e+00 b.92.1.3,c.1.9.6 70231,70232 1eudA 311 6.74e+00 2scuA c.2.1.8,c.23.4.1 30312,31140 1ejsC 567 7.58e+00 1ubpC b.92.1.1,c.1.9.2 28424,29046 1gxfA 492 8.07e+00 c.3.1.5,c.3.1.5,d.87.1.1 90527,90528,90529 1pszA 303 8.24e+00 1toaA c.92.2.2 35600 1aogA 485 8.60e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1bzlA 486 8.61e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30521,30522,40192 1ndaA 491 8.97e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30525,30526,40194 1a5mC 566 9.23e+00 1ubpC b.92.1.1,c.1.9.2 28423,29045 1krbC 567 9.31e+00 1ubpC b.92.1.1,c.1.9.2 28418,29040 1ejtC 567 9.36e+00 1ubpC b.92.1.1,c.1.9.2 28421,29043 1gynA 358 9.59e+00 c.1.10.2 83385 1rvgA 305 9.96e+00 c.1.10.2 97920 1dosA 358 1.01e+01 1dosA c.1.10.2 29175 2scuA 288 1.01e+01 2scuA c.2.1.8,c.23.4.1 30303,31131 1cqjA 286 1.01e+01 2scuA c.2.1.8,c.23.4.1 30305,31133 1swvA 267 1.04e+01 1ps9A 671 1.07e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1bqcA 302 1.08e+01 1bqcA c.1.8.3 28831 1p0vA 455 1.17e+01 a.104.1.1 93876 1bu7A 455 1.18e+01 1bu7A a.104.1.1 18937 1yqoA 455 1.18e+01 1p0wA 455 1.18e+01 a.104.1.1 93878 1bvyA 458 1.18e+01 1bu7A a.104.1.1 18943 1yqpA 455 1.18e+01 2hpdA 471 1.18e+01 1bu7A a.104.1.1 18939 1fahA 471 1.18e+01 1bu7A a.104.1.1 18945 1p0xA 455 1.18e+01 a.104.1.1 93880 1smiA 471 1.18e+01 a.104.1.1 105758 1jmeA 455 1.19e+01 a.104.1.1 66885 1jpzA 473 1.19e+01 a.104.1.1 67069 1iy9A 275 1.30e+01 c.66.1.17 76943 1a5lC 566 1.33e+01 1ubpC b.92.1.1,c.1.9.2 28426,29048 1ejrC 567 1.41e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 1oxsC 353 1.42e+01 b.40.6.3,c.37.1.12 87519,87520 1oxxK 353 1.42e+01 b.40.6.3,c.37.1.12 93715,93716 2g1lA 104 1.47e+01 3sc2B 152 1.64e+01 1whtB 1whsB 153 1.65e+01 1whtB 1fuiA 591 1.66e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1bcsB 160 1.69e+01 1whtB 1oi7A 288 1.71e+01 c.2.1.8,c.23.4.1 87049,87050 2gwgA 350 1.72e+01 1yqzA 438 1.82e+01 1i6lA 328 1.94e+01 c.26.1.1 66041 1evlA 401 2.03e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1d2rA 326 2.04e+01 1d2rB c.26.1.1 31572 1igl 67 2.09e+01 1zeiA g.1.1.1 43993 2tprA 490 2.10e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30505,30506,40184 1rz3A 201 2.12e+01 c.37.1.6 98132 1l41 164 2.15e+01 1l92 d.2.1.3 36693 1a3h 300 2.21e+01 7a3hA c.1.8.3 28819 1h5vA 304 2.22e+01 c.1.8.3 70898 7a3hA 303 2.22e+01 7a3hA c.1.8.3 28817 1qi2A 305 2.23e+01 7a3hA c.1.8.3 28824 1nexB 464 2.25e+01 a.158.1.1,b.69.4.1 80443,80444 2ap9A 299 2.43e+01 1xkyA 301 2.46e+01 2bufA 300 2.57e+01 1t8qA 336 2.62e+01 c.1.18.3 106669 2notA 119 2.67e+01 1poa a.133.1.2 19554 2au3A 407 2.70e+01 1j3aA 142 2.88e+01 c.21.1.1 77070 2gseA 501 2.99e+01 1ydyA 356 3.15e+01 1fecA 490 3.23e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1uteA 313 3.29e+01 1uteA d.159.1.1 42078 1typA 487 3.32e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30509,30510,40186 1tytB 486 3.33e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30515,30516,40189 1tytA 487 3.33e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30513,30514,40188 1nfgA 457 3.35e+01 b.92.1.3,c.1.9.6 85632,85633 1qj4A 257 3.53e+01 1qj4A c.69.1.20 34796 1sckA 257 3.54e+01 c.69.1.20 105421 2fhxA 246 3.60e+01 1egzA 291 3.60e+01 7a3hA c.1.8.3 28828 1yb6A 256 3.68e+01 1z3qA 200 3.78e+01 2basA 431 3.84e+01 1j5yA 187 3.88e+01 a.4.5.1,d.94.2.1 71592,71593 1fezA 256 3.95e+01 1fezA c.108.1.3 43343 1nw2A 105 3.97e+01 c.47.1.1 92215 1rqlA 267 4.01e+01 c.108.1.3 97750 1vp8A 201 4.10e+01 1rdfA 267 4.11e+01 c.108.1.3 104884 1jud 232 4.13e+01 1qq5A c.108.1.1 43325 1zrn 232 4.17e+01 1qq5A c.108.1.1 43323 2dbvO 334 4.23e+01 1dssG c.2.1.3,d.81.1.1 29970,39885 1wmdA 434 4.32e+01 b.18.1.20,c.41.1.1 109408,109409 1womA 271 4.41e+01 1nqoA 334 4.41e+01 c.2.1.3,d.81.1.1 86044,86045 1gd1O 334 4.44e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1nptO 334 4.47e+01 c.2.1.3,d.81.1.1 85987,85988 1s5jA 847 4.65e+01 1korA 400 4.78e+01 c.26.2.1,d.210.1.1 72824,72825 1rxtA 496 4.88e+01 1hjqA 332 4.90e+01 c.1.8.3 83491 2fmpA 335 4.95e+01 1r6kA 207 5.13e+01 b.91.1.1 97152 1r6nA 211 5.19e+01 b.91.1.1 97157 1l1lA 739 5.19e+01 c.7.1.4 73470 1vhnA 318 5.21e+01 c.1.4.1 100693 1yx0A 159 5.40e+01 1oyjA 231 5.42e+01 a.45.1.1,c.47.1.5 87597,87598 3dbvO 334 5.43e+01 1dssG c.2.1.3,d.81.1.1 29982,39897 1vlmA 219 5.46e+01 c.66.1.41 108836 1e0zA 128 5.47e+01 1awd d.15.4.1 59153 1fwiC 567 5.52e+01 1ubpC b.92.1.1,c.1.9.2 28407,29029 1f07A 321 5.63e+01 1ezwA c.1.16.3 59560 1p58A 495 5.69e+01 i.17.1.1 94127 1lqtA 456 5.74e+01 c.3.1.1,c.4.1.1 74198,74199 1zthA 258 5.81e+01 1quwA 105 5.86e+01 1thx c.47.1.1 32735 1htrB 329 5.97e+01 1smrA 1hjsA 332 6.00e+01 c.1.8.3 83492 1ax8 146 6.17e+01 1ax8 a.26.1.1 16844 1huzA 335 6.21e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 61281,75850,75851 1bpe 335 6.25e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 18076,75815,75816 1wx6A 91 6.26e+01 1rktA 205 6.29e+01 a.4.1.9,a.121.1.1 97623,97624 1wkiA 141 6.33e+01 1zpdA 568 6.38e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1o58A 303 6.47e+01 c.79.1.1 92491 1iiuA 174 6.48e+01 b.60.1.1 66151 1mgoA 374 6.59e+01 b.35.1.2,c.2.1.1 79094,79095 177l 164 6.68e+01 1l92 d.2.1.3 36958 1xpgA 765 6.69e+01 1pzdA 322 6.74e+01 b.1.10.3,d.105.1.2 95413,95414 1qf6A 642 6.75e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1rblA 467 6.77e+01 1burA c.1.14.1,d.58.9.1 29380,39286 1xdjA 766 6.79e+01 1t7lA 766 6.79e+01 1sixA 174 6.89e+01 b.85.4.1 98892 1xi9A 406 6.89e+01 2fug3 783 6.99e+01 1r4xA 275 7.00e+01 b.1.10.3,d.105.1.2 97054,97055 1t8uA 272 7.06e+01 c.37.1.5 106687 1t8tA 271 7.10e+01 c.37.1.5 106685 1rscA 472 7.26e+01 1burA c.1.14.1,d.58.9.1 29381,39287 1ohcA 348 7.28e+01 c.45.1.1,c.45.1.1 87009,87010 1v8aA 265 7.29e+01 c.72.1.2 100494 1o2dA 371 7.47e+01 e.22.1.2 86591 1qv6A 374 7.49e+01 b.35.1.2,c.2.1.1 96348,96349 1hkqA 132 7.55e+01 a.4.5.10 83555 1ee2A 373 7.63e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1g0cA 364 7.74e+01 7a3hA c.1.8.3 60165 1znbA 232 7.74e+01 1a7tA d.157.1.1 42039 1uqrA 154 7.75e+01 c.23.13.1 99779 1a71A 374 7.76e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1rq1A 386 7.79e+01 a.227.1.1 105047 1l2lA 457 7.83e+01 c.72.1.3 77656 1rp4A 389 7.84e+01 a.227.1.1 105027 4znbA 232 7.91e+01 1a7tA d.157.1.1 42047 1axgA 374 7.92e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1vhdA 371 7.95e+01 e.22.1.2 100667 1axeA 374 7.97e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 1heuA 374 7.99e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1oheA 348 7.99e+01 c.45.1.1,c.45.1.1 87013,87014 1oqaA 110 8.09e+01 c.15.1.3 104021 1hlkA 227 8.34e+01 d.157.1.1 65848 1hf2A 210 8.36e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1ni9A 338 8.39e+01 e.7.1.2 85739 1kfcA 268 8.49e+01 c.1.2.4 77371 1kfbA 268 8.51e+01 c.1.2.4 77369 1g66A 207 8.52e+01 1bs9 c.69.1.30 31329 1l00 164 8.53e+01 1l92 d.2.1.3 36838 2bmiA 232 8.54e+01 1a7tA d.157.1.1 42043 1t64A 377 8.63e+01 c.42.1.2 106543 1j0pA 108 8.70e+01 a.138.1.1 90743 2a6lA 292 8.71e+01 1pex 207 8.74e+01 1gen b.66.1.1 27540 1xepA 164 8.81e+01 1beuA 268 8.96e+01 2tysA c.1.2.4 28574 2bijA 305 8.96e+01 1l54 164 8.97e+01 1l92 d.2.1.3 36811 2gokA 429 8.97e+01