# List of top-scoring protein chains for T0313.t04-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 1mkjA 349 1.35e-45 c.37.1.9 79239 1bg2 325 1.41e-45 1bg2 c.37.1.9 32189 1gojA 355 5.24e-44 c.37.1.9 65419 1i6iA 366 9.61e-44 1bg2 c.37.1.9 61844 1i5sA 367 9.61e-44 1bg2 c.37.1.9 61822 1ia0K 394 9.73e-44 i.10.1.1 71167 1vfvA 366 1.10e-43 c.37.1.9 108592 1sdmA 369 1.07e-42 c.37.1.9 105438 1x88A 359 2.10e-42 1q0bA 367 2.11e-42 c.37.1.9 95502 1ii6A 368 2.11e-42 1bg2 c.37.1.9 62413 1t5cA 349 3.24e-42 1cz7A 406 5.26e-40 1bg2 c.37.1.9 32194 2ncdA 420 5.36e-40 1bg2 c.37.1.9 32193 1n6mA 409 1.08e-39 c.37.1.9 91688 3kar 346 1.37e-39 1bg2 c.37.1.9 32198 1f9tA 358 1.63e-39 1bg2 c.37.1.9 59743 1f9uA 347 2.75e-39 1bg2 c.37.1.9 59744 1f9wA 347 3.43e-39 1bg2 c.37.1.9 59746 1f9vA 347 3.77e-39 1bg2 c.37.1.9 59745 2gryA 420 1.80e-38 1v8kA 410 2.32e-38 c.37.1.9 100510 1ry6A 360 2.57e-35 c.37.1.9 98090 2kinA 238 1.84e-32 1bg2 c.37.1.9 32190 2kinB 100 8.94e-13 3kinB 3kinB 117 3.27e-12 3kinB 1d9xA 658 2.04e-01 1d2mA c.37.1.19,c.37.1.19 32419,32420 2fdcA 658 2.08e-01 1d9zA 657 2.09e-01 1d2mA c.37.1.19,c.37.1.19 32421,32422 1t5lA 658 2.10e-01 c.37.1.19,c.37.1.19 106455,106456 2d7dA 661 2.60e-01 1d2mA 665 4.77e-01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1c4oA 664 4.92e-01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1l8qA 324 5.02e-01 a.4.12.2,c.37.1.20 77809,77810 1sxjC 340 6.90e-01 a.80.1.1,c.37.1.20 106085,106086 1htjF 210 2.30e+00 1htjF a.91.1.1 61254 1p9rA 418 2.74e+00 c.37.1.11 94399 1qf9A 194 3.86e+00 1zin c.37.1.1 31848 2cdnA 201 3.89e+00 2bhuA 602 5.77e+00 1xw8A 252 5.95e+00 1f60A 458 7.96e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2b34A 199 8.90e+00 1jx2B 315 9.31e+00 c.37.1.8 67404 1g6oA 330 1.00e+01 1g6oA c.37.1.11 32430 1np3A 338 1.12e+01 a.100.1.2,c.2.1.6 85946,85947 1odfA 290 1.12e+01 c.37.1.6 92782 1sxjD 353 1.16e+01 a.80.1.1,c.37.1.20 106087,106088 1f5nA 592 1.35e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 2d62A 375 1.40e+01 1g291 372 1.50e+01 1g291 1qzxA 440 1.57e+01 a.24.13.1,a.36.1.1,c.37.1.10 96711,96712,96713 2bwjA 199 1.67e+01 1um8A 376 1.75e+01 c.37.1.20 99580 1vnh 609 1.85e+01 1vns a.111.1.3 19062 1ji0A 240 1.94e+01 c.37.1.12 71665 1iduA 609 1.97e+01 1vns a.111.1.3 62303 1vne 609 2.00e+01 1vns a.111.1.3 19063 1vnf 609 2.00e+01 1vns a.111.1.3 19067 1vng 609 2.00e+01 1vns a.111.1.3 19066 1vns 609 2.00e+01 1vns a.111.1.3 19061 1va6A 518 2.16e+01 1p3jA 217 2.22e+01 c.37.1.1,g.41.2.1 94022,94023 1yrbA 262 2.49e+01 2g0tA 350 2.55e+01 1p4sA 181 2.56e+01 c.37.1.1 94117 3adk 195 2.59e+01 1zin c.37.1.1 31885 1k5cA 335 2.60e+01 b.80.1.3 72076 1iy2A 278 2.70e+01 c.37.1.20 76941 1s16A 390 2.74e+01 d.14.1.3,d.122.1.2 98331,98332 1ixzA 254 2.77e+01 c.37.1.20 76938 2dh4A 340 2.99e+01 1eu1A 780 3.06e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 2vsgA 358 3.09e+01 2vsgA h.4.1.1 45780 1j3iA 280 3.11e+01 c.71.1.1 84062 1mr3F 181 3.17e+01 c.37.1.8 79422 1j3jA 280 3.22e+01 c.71.1.1 84066 1gawA 314 3.22e+01 1fnc b.43.4.2,c.25.1.1 25643,31533 1vciA 373 3.25e+01 1v43A 372 3.28e+01 1z83A 196 3.34e+01 2ce7A 476 3.36e+01 1fuuA 394 3.45e+01 1qvaA c.37.1.19 32412 1powA 585 3.50e+01 1poxA c.31.1.3,c.36.1.5,c.36.1.9 31733,31797,31798 1e69A 322 3.56e+01 1e69B c.37.1.12 32376 1poxA 585 3.57e+01 1poxA c.31.1.3,c.36.1.5,c.36.1.9 31731,31793,31794 1m1uA 195 3.64e+01 c.62.1.1 74421 1v3eA 431 3.68e+01 b.68.1.1 100287 2ax4A 198 3.75e+01 1wxqA 397 3.84e+01 2g9nA 221 3.99e+01 1dxy 333 3.99e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1xwiA 322 4.06e+01 1eg5A 384 4.06e+01 1ecxA c.67.1.3 34429 1qhlA 227 4.08e+01 1qhlA c.37.1.12 32382 1nsj 205 4.12e+01 1nsj c.1.2.4 28560 1bouB 302 4.24e+01 1bouB c.56.6.1 33859 1ido 189 4.28e+01 1ido c.62.1.1 34139 1jgnA 98 4.28e+01 a.144.1.1 84170 1mozA 183 4.34e+01 c.37.1.8 79368 1fftA 663 4.48e+01 2occA f.24.1.1 43627 1xh8A 350 4.49e+01 1ctpE 350 4.50e+01 1cdkA d.144.1.7 41622 2c1aA 351 4.50e+01 1cdkA 350 4.56e+01 1cdkA d.144.1.7 41620 1cmkE 351 4.57e+01 1cdkA d.144.1.7 41623 1lv7A 257 4.67e+01 c.37.1.20 78232 1mf7A 194 4.67e+01 c.62.1.1 84937 1jlm 192 4.70e+01 1ido c.62.1.1 34140 2gdjA 264 4.87e+01 1n9zA 192 4.90e+01 c.62.1.1 85478 1h65A 270 4.99e+01 c.37.1.8 65640 1ltdA 506 5.04e+01 1gox c.1.4.1,d.120.1.1 28618,41086 1rdqE 350 5.27e+01 d.144.1.7 97314 1sm4A 296 5.31e+01 b.43.4.2,c.25.1.1 98913,98914 1idn1 190 5.37e+01 1ido 2gbjA 84 5.38e+01 2fji1 399 5.41e+01 1lcoA 511 5.42e+01 1gox c.1.4.1,d.120.1.1 28624,41088 2ng1 293 5.42e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1ydrE 350 5.44e+01 1cdkA d.144.1.7 41624 1q61A 350 5.44e+01 d.144.1.7 95955 1szfA 511 5.46e+01 c.1.4.1 106153 1kbiA 511 5.46e+01 c.1.4.1,d.120.1.1 72277,72278 1szeA 511 5.47e+01 c.1.4.1 106151 1c4zA 358 5.47e+01 1c4zA d.148.1.1 41766 2ez9A 603 5.53e+01 1y9dA 603 5.63e+01 1yobA 179 5.64e+01 1ng1 294 5.64e+01 1ng1 a.24.13.1,c.37.1.10 16961,32272 1jbpE 350 5.70e+01 1cdkA d.144.1.7 62849 1cjl 312 5.74e+01 1cs8A d.3.1.1 37066 1q62A 350 5.83e+01 d.144.1.7 95956 1gl6A 436 5.85e+01 c.37.1.11 70259 1e9rA 437 5.85e+01 c.37.1.11 64827 1na5A 197 5.92e+01 c.62.1.1 85483 1ffh 294 5.92e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 4uagA 437 5.95e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1l3rE 350 6.02e+01 d.144.1.7 73552 2erzE 351 6.05e+01 1r5bA 467 6.09e+01 b.43.3.1,b.44.1.1,c.37.1.8 104803,104804,104805 1apmE 350 6.11e+01 1cdkA d.144.1.7 41628 1ii8A 195 6.12e+01 1f2tA c.37.1.12 62417 1ls1A 295 6.18e+01 a.24.13.1,c.37.1.10 78170,78171 1nal1 297 6.32e+01 1nal3 1sykA 350 6.33e+01 1do0A 442 6.42e+01 1do0A c.37.1.20 32432 1g4aE 443 6.47e+01 1do0A c.37.1.20 32444 1xkrA 206 6.55e+01 1e94E 449 6.60e+01 1do0A c.37.1.20 32442 2chlA 351 6.89e+01 1xw3A 110 6.99e+01 1m7sA 484 7.12e+01 e.5.1.1 74574 1qcwA 410 7.22e+01 1gox c.1.4.1 28622 1yzsA 121 7.27e+01 1u7eA 350 7.39e+01 1jpnA 296 7.41e+01 a.24.13.1,c.37.1.10 67039,67040 1kbjA 412 7.51e+01 c.1.4.1 72280 1z6tA 591 7.86e+01 1f42A 306 8.19e+01 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 1hl2A 297 8.21e+01 c.1.10.1 83581 1vdc 333 8.27e+01 1trb c.3.1.5,c.3.1.5 30545,30546 1bhe 376 8.36e+01 1bhe b.80.1.3 28030 1sv8A 361 8.40e+01 c.1.8.5,d.26.3.1 99019,99020 2a5yB 549 8.41e+01 1us8A 147 8.47e+01 c.37.1.12 99859 1xh9A 350 8.52e+01 2ak3A 226 8.56e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1f2tA 149 8.57e+01 1f2tA c.37.1.12 32373 2gnjA 350 8.59e+01 1sifA 88 8.64e+01 d.15.1.1 105574 1thtA 305 8.67e+01 1thtA c.69.1.13 34711 1z3zA 431 8.75e+01 1o87A 297 8.87e+01 a.24.13.1,c.37.1.10 92640,92641 2gngA 350 8.90e+01 1geqA 248 8.92e+01 2tysA c.1.2.4 28589